Membrane Protein Topology Database
Listing generated on Thursday, February 9, 2012
Created by Sajith Jayasinghe, Kalina Hristova, Stephen White
Managed and maintained by Michael Myers and Craig Snider
Copyright (c) 2000-2012 by its creators. All rights reserved.
When referring to this database, please use the following references:
S. Jayasinghe, K. Hristova, and S. H. White (2001). MPtopo: A
database of membrane protein topology. Protein Sci. 10:455-458.
http://blanco.biomol.uci.edu/mptopo
Address correspondence to:
Stephen White
University of California at Irvine
Dept. of Physiology and Biophysics
Med. Sci. I, D346
Irvine, CA 92697-4560
949-824-7122, phone
949-824-8540, fax
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The database entries are divided into three subsets:
3D_helix: helix-bundle proteins of known 3-D structure.
1D_helix: helix-bundle proteins whose topologies have been tested
experimentally.
3D_other: beta-barrel and monotopic membrane proteins of known 3-D
structure.
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>3D_helix;140
protein_name:AChR pore alpha subunit (Torpedo marmorata)
file_name:ACh_pore_alpha.txt
entry_date:3july03
refman_number:21022
endnote_number:
author:Miyazawa,A., Fujiyoshi,Y., Unwin,N.(2003) [Structure and gating mechanism of the acetylcholine receptor pore] {Nature, 423, 949-955}
remarks:Sequence is from PDB, chain A. There is additional 24 AA as signal sequence in Swiss-Prot. TMhelices=4.
pir_number:
Swiss_Prot_entry:ACHA_TORMA
Swiss_Prot_number:P02711
Swiss_Prot_gene:CHRNA1
Swiss_Prot_name:Acetylcholine receptor subunit alpha
PDB_title:Acetylcholine Receptor Protein, alpha Chain
PDB_Identifier:1OED
N_terminal:in
number_tmsegs:4
tm_segments:A.211,237;B.243,271;C.275,300;D.403,436
sequence:SEHETRLVANLLENYNKVIRPVEHHTHFVDITVGLQLIQLINVDEVNQIVETNVRLRQQWIDVRLRWNPADYGGIKKIRLPSDDVWLPDLVLYNNADGDFAIVHMTKLLLDYTGKIMWTPPAIFKSYCEIIVTHFPFDQQNCTMKLGIWTYDGTKVSISPESDRPDLSTFMESGEWVMKDYRGWKHWVYYTCCPDTPYLDITYHFIMQRIPLYFVVNVIIPCLLFSFLTVLVFYLPTDSGEKMTLSISVLLSLTVFLLVIVELIPSTSSAVPLIGKYMLFTMIFVISSIIVTVVVINTHHRSPSTHTMPQWVRKIFINTIPNVMFFSTMKRASKEKQENKIFADDIDISDISGKQVTGEVIFQTPLIKNPDVKSAIEGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGRLIELSQEG*
>3D_helix;141
protein_name:AChR pore beta subunit (Torpedo marmorata)
file_name:ACh_pore_beta.txt
entry_date:3july03
refman_number:21022
endnote_number:
author:Miyazawa,A., Fujiyoshi,Y., Unwin,N.(2003) [Structure and gating mechanism of the acetylcholine receptor pore] {Nature, 423, 949-955}
remarks:Sequence is from PDB, chain B. There is additional 24 AA as signal sequence in Swiss-Prot. TMhelices=4.
pir_number:
Swiss_Prot_entry:Q6S3I0_TORMA
Swiss_Prot_number:Q6S3I0
Swiss_Prot_gene:none
Swiss_Prot_name:Acetylcholine receptor beta subunit
PDB_title:Acetylcholine Receptor Protein, beta Chain
PDB_Identifier:1OED
N_terminal:in
number_tmsegs:4
tm_segments:A.224,241;B.249,274;C.290,306;D.438,462
sequence:SVMEDTLLSVLFENYNPKVRPSQTVGDKVTVRVGLTLTSLLILNEKNEEMTTSVFLNLAWTDYRLQWDPAAYEGIKDLSIPSDDVWQPDIVLMNNNDGSFEITLHVNVLVQHTGAVSWHPSAIYRSSCTIKVMYFPFDWQNCTMVFKSYTYDTSEVILQHALDAKGEREVKEIMINQDAFTENGQWSIEHKPSRKNWRSDDPSYEDVTFYLIIQRKPLFYIVYTIVPCILISILAILVFYLPPDAGEKMSLSISALLALTVFLLLLADKVPETSLSVPIIISYLMFIMILVAFSVILSVVVLNLHHRSPNTHTMPNWIRQIFIETLPPFLWIQRPVTTPSPDSKPTIISRANDEYFIRKPAGDFVCPVDNARVAVQPERLFSEMKWHLNGLTQPVTLPQDLKEAVEAIKYIAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASHNVPPDNPFA*
>3D_helix;143
protein_name:AChR pore delta subunit (Torpedo marmorata)
file_name:ACh_pore_delta.txt
entry_date:4dec03
refman_number:21022
endnote_number:
author:Miyazawa,A., Fujiyoshi,Y., Unwin,N.(2003) [Structure and gating mechanism of the acetylcholine receptor pore] {Nature, 423, 949-955}
remarks:Sequence is from PDB, chain C. Sequence in PDB has first 21 AA removed relative to Swiss-Prot. TMhelices=4.
pir_number:
Swiss_Prot_entry:Q6S3H8_TORMA
Swiss_Prot_number:Q6S3H8
Swiss_Prot_gene:none
Swiss_Prot_name:Acetylcholine receptor delta subunit
PDB_title:Acetylcholine Receptor Protein, delta Chain
PDB_Identifier:1OED
N_terminal:in
number_tmsegs:4
tm_segments:A.226,253;B.257,285;C.289,316;D.452,483
sequence:VNEEERLINDLLIVNKYNKHVRPVKHNNEVVNIALSLTLSNLISLKETDETLTTNVWMDHAWYDHRLTWNASEYSDISILRLRPELIWIPDIVLQNNNDGQYNVAYFCNVLVRPNGYVTWLPPAIFRSSCPINVLYFPFDWQNCSLKFTALNYNANEISMDLMTDTIDGKDYPIEWIIIDPEAFTENGEWEIIHKPAKKNIYGDKFPNGTNYQDVTFYLIIRRKPLFYVINFITPCVLISFLAALAFYLPAESGEKMSTAICVLLAQAVFLLLTSQRLPETALAVPLIGKYLMFIMSLVTGVVVNCGIVLNFHFRTPSTHVLSTRVKQIFLEKLPRILHMSRVDEIEQPDWQNDLKLRRSSSVGYISKAQEYFNIKSRSELMFEKQSERHGLVPRVTPRIGFGNNNENIAASDQLHDEIKSGIDSTNYIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMGNFNRPPAKPFEGDPFDYSSDHPRCA*
>3D_helix;142
protein_name:AChR pore gamma subunit (Torpedo marmorata)
file_name:ACh_pore_gamma.txt
entry_date:4dec03
refman_number:21022
endnote_number:
author:Miyazawa,A., Fujiyoshi,Y., Unwin,N.(2003) [Structure and gating mechanism of the acetylcholine receptor pore] {Nature, 423, 949-955}
remarks:Sequence is from PDB, chain E. Sequence in PDB has first 16 AA removed relative to Swiss-Prot. TMhelices=4.
pir_number:
Swiss_Prot_entry:Q6S3H9_TORMA
Swiss_Prot_number:Q6S3H9
Swiss_Prot_gene:none
Swiss_Prot_name:Acetylcholine receptor gamma subunit
PDB_title:Acetylcholine Receptor Protein, gamma Chain
PDB_Identifier:1OED
N_terminal:in
number_tmsegs:4
tm_segments:A.221,246;B.250,280;C.286,311;D.446,478
sequence:NEEGRLIEKLLGDYDKRIKPAKTLDHVIDVTLKLTLTNLISLNEKEEALTTNVWIEIQWNDYRLSWNTSEYEGIDLVRIPSELLWLPDVVLENNVDGQFEVAYYANVLVYNDGSMYWLPPAIYRSTCPIAVTYFPFDWQNCSLVFRSQTYNAHEVNLQLSAEEGEVVEWIHIDPEDFTENGEWTIRHRPAKKNYNWQLTKDDIDFQEIIFFLIIQRKPLFYIINIIAPCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQTIFLFLIAQKVPETSLNVPLIGKYLIFVMFVSLVIVTNCVIVLNVSLRTPNTHSLSEKIKHLFLEFLPKYLGMHLEPSEETPEKPQPRRRSSFGIMIKAEEYILKKPRSELMFEEQKDRHGLKRVNKMTSDIDIGTTVDLYKDLANFAPEIKSCVEACNFIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTGHLNQVPEFPFPGDPRKYVP*
>3D_helix;116
protein_name:AcrB multidrug transporter (E. coli)
file_name:AcrB.txt
entry_date:21oct02
refman_number:20603,20969
endnote_number:
author:Murakami,S., Nakashima,R., Yamashita,E., Yamaguchi,A. (2002) [Crystal structure of bacterial multidrug efflux transporter AcrB] {Nature, 419, 587-593}
remarks:Sequence from Swiss-Prot. TMhelices=12.
pir_number:B36938
Swiss_Prot_entry:ACRB_ECOLI
Swiss_Prot_number:P31224
Swiss_Prot_gene:ACRB,ACRE,B0462
Swiss_Prot_name:Acriflavine resistance protein B
PDB_title:multidrug efflux transporter Acrb
PDB_Identifier:1IWG
N_terminal:in
number_tmsegs:12
tm_segments:A.11,29;B.331,356;C.367,386;D.395,421;E.439,457;F.465,497;G.537,557;H.873,892;I.896,919;J.925,954;K.972,990;L.999,1021
sequence:MPNFFIDRPIFAWVIAIIIMLAGGLAILKLPVAQYPTIAPPAVTISASYPGADAKTVQDTVTQVIEQNMNGIDNLMYMSSNSDSTGTVQITLTFESGTDADIAQVQVQNKLQLAMPLLPQEVQQQGVSVEKSSSSFLMVVGVINTDGTMTQEDISDYVAANMKDAISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVITAIKAQNAQVAAGQLGGTPPVKGQQLNASIIAQTRLTSTEEFGKILLKVNQDGSRVLLRDVAKIELGGENYDIIAEFNGQPASGLGIKLATGANALDTAAAIRAELAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATLIPTIAVPVVLLGTFAVLAAFGFSINTLTMFGMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATMLKPIAKGDHGEGKKGFFGWFNRMFEKSTHHYTDSVGGILRSTGRYLVLYLIIVVGMAYLFVRLPSSFLPDEDQGVFMTMVQLPAGATQERTQKVLNEVTHYYLTKEKNNVESVFAVNGFGFAGRGQNTGIAFVSLKDWADRPGEENKVEAITMRATRAFSQIKDAMVFAFNLPAIVELGTATGFDFELIDQAGLGHEKLTQARNQLLAEAAKHPDMLTSVRPNGLEDTPQFKIDIDQEKAQALGVSINDINTTLGAAWGGSYVNDFIDRGRVKKVYVMSEAKYRMLPDDIGDWYVRAADGQMVPFSAFSSSRWEYGSPRLERYNGLPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQERLSGNQAPSLYAISLIVVFLCLAALYESWSIPFSVMLVVPLGVIGALLAATFRGLTNDVYFQVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGLIEATLDAVRMRLRPILMTSLAFILGVMPLVISTGAGSGAQNAVGTGVMGGMVTATVLAIFFVPVFFVVVRRRFSRKNEDIEHSHTVDHH*
>3D_helix;133
protein_name:ADP/ATP carrier protein* (bovine)
file_name:ADP_ATP_carrier.txt
entry_date:28nov03
refman_number:21188
endnote_number:
author:Pebay-Peyroula,E., Dahout-Gonzalez,D., Kahn,R., Trézéguet,V., Lauquin,G.J.-M., Brandolin,G. (2003) [Structure of mitochondrial ADP/ATP carrier in complex with carboxyatractyloside] {Nature, 426, 39-44}
remarks:*The helices form a deep, broad cavity lined with polar residues. This means that some of the TM segments are quite polar. Sequence from Swiss-Prot. TMhelices=6.
pir_number:A43646,XWBO
Swiss_Prot_entry:ADT1_BOVIN
Swiss_Prot_number:P02722
Swiss_Prot_gene:SLC25A4, ANT1
Swiss_Prot_name:ADP,ATP carrier protein, heart isoform T1
PDB_title:ADP, ATP carrier protein heart isoform T1
PDB_Identifier:1OKC
N_terminal:out
number_tmsegs:6
tm_segments:A.4,37;B.73,99;C.108,142;D.176,199;E.209,238;F.273,290
sequence:SDQALSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAKGMLPDPKNVHIIVSWMIAQTVTAVAGLVSYPFDTVRRRMMMQSGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLRGMGGAFVLVLYDEIKKFV*
>3D_helix;217
protein_name:amonia transporter AmtB (E. coli)
file_name:AmtB_Ecoli.txt
entry_date:08mar05
refman_number:21592
endnote_number:
author:Khademi,S., O'Connell,J.,III, Remis,J., Robles-Colmenares,Y., Miercke,L.J.W., Stroud,R.M. (2004) [Mechanism of ammonia transport by Amt/MEP/Rh: Structure of AmtB at 1.35 Å] {Science, 305, 1587-1594}
remarks:Sequence from PDB. Swiss-Prot sequence includes signal sequence (first 22 residues). Sequence below is from PDB and does not include signal sequence, therefore res#1 corresponds to res#23 in Swiss-Prot.
pir_number:A90692, C64775, E85542
Swiss_Prot_entry:AMTB_ECOLI
Swiss_Prot_number:P69681
Swiss_Prot_gene:amtB
Swiss_Prot_name:ammonium channel
PDB_title:Crystal structure of Ammonia Channel AmtB from E.Coli
PDB_Identifier:1U7G
N_terminal:out
number_tmsegs:11
tm_segments:A.7,33;B.38,68;C.96,120;D.125,148;E.163,182;F.195,221;G.224,253;H.256,275;I.280,306;J.310,334;K.347,380
sequence:APAVADKADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCILWVVYGYSLAFGEGNNFFGNINWLMLKNIELTAVMGSIYQYIHVAFQGSFACITVGLIVGALAERIRFSAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDFAGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAGTANEIAALAFVNTVVATAAAILGWIFGEWALRGKPSLLGACSGAIAGLVGVTPACGYIGVGGALIIGVVAGLAGLWGVTMLKRLLRVDDPCDVFGVHGVCGIVGCIMTGIFAASSLGGVGFAEGVTMGHQLLVQLESIAITIVWSGVVAFIGYKLADLTVGLRVPEEQEREGLDVNSHGENAYNA*
>3D_helix;162
protein_name:aquaporin 1* (bovine)
file_name:AQP1_bovine.txt
entry_date:10dec03
refman_number:20112
endnote_number:
author:Sui,H.X., Han,B.-G., Lee,J.K., Walian,P., Jap,B.K. (2001) [Structural basis of water-specific transport through the AQP1 water channel] {Nature, 414, 872-878}
remarks:One of the TM segments, C* + *C, is composed of two end-to-end helical segments. The two partial segments are counted as 2 TM segments topologically. Sequence is from Swiss-Prot. TMhelices=6.
pir_number:JC2348
Swiss_Prot_entry:AQP1_BOVIN
Swiss_Prot_number:P47865
Swiss_Prot_gene:AQP1
Swiss_Prot_name:Aquaporin-CHIP
PDB_title:aquaporin 1
PDB_Identifier:1J4N
N_terminal:in
number_tmsegs:8
tm_segments:A.10,34;B.51,68;C*.79,88;D.93,117;E.143,158;F.170,187;*C.194,204;G.216,230
sequence:MASEFKKKLFWRAVVAEFLAMILFIFISIGSALGFHYPIKSNQTTGAVQDNVKVSLAFGLSIATLAQSVGHISGAHLNPAVTLGLLLSCQISVLRAIMYIIAQCVGAIVATAILSGITSSLPDNSLGLNALAPGVNSGQGLGIEIIGTLQLVLCVLATTDRRRRDLGGSGPLAIGFSVALGHLLAIDYTGCGINPARSFGSSVITHNFQDHWIFWVGPFIGAALAVLIYDFILAPRSSDLTDRVKVWTSGQVEEYDLDADDINSRVEMKPK*
>3D_helix;81
protein_name:aquaporin 1* (human)
file_name:AQP1_human.txt
entry_date:3mar00
refman_number:19204
endnote_number:
author:Murata,K. Mitsuoka,K. Hirai,T. Walz,T. Agre,P. Heymann,J.B. Engel,A. Fujiyoshi,Y. (2000) [Structural determinants of water permeation through aquaporin-1] {Nature, 407, 599-605}
remarks:One of the TM segments, C* + *C, is composed of two end-to-end helical segments. The two partial segments are counted as 2 TM segments topologically. Sequence is from Swiss-Prot. TMhelices=6.
pir_number:A41616
Swiss_Prot_entry:AQP1_HUMAN
Swiss_Prot_number:P29972
Swiss_Prot_gene:AQP1,CHIP28
Swiss_Prot_name:Aquaporin-CHIP
PDB_title:aquaporin-1, chain A
PDB_Identifier:1FQY
N_terminal:in
number_tmsegs:8
tm_segments:A.8,36;B.49,66;C*.77,84;D.95,115;E.137,155;F.167,183;*C.193,200;G.208,228
sequence:MASEFKKKLFWRAVVAEFLATTLFVFISIGSALGFKYPVGNNQTAVQDNVKVSLAFGLSIATLAQSVGHISGAHLNPAVTLGLLLSCQISIFRALMYIIAQCVGAIVATAILSGITSSLTGNSLGRNDLADGVNSGQGLGIEIIGTLQLVLCVLATTDRRRRDLGGSAPLAIGLSVALGHLLAIDYTGCGINPARSFGSAVITHNFSNHWIFWVGPFIGGALAVLIYDFILAPRSSDLTDRVKVWTSGQVEEYDLDADDINSRVEMKPK*
>3D_helix;178
protein_name:aquaporin Z* (E. coli)
file_name:AqpZ.txt
entry_date:12jan04
refman_number:21274
endnote_number:
author:Savage,D.F., Egea,P.F., Robles-Colmenares,Y., O'Connell,J.D.,III, Stroud,R.M. (2003) [Architecture and selectivity in aquaporins: 2.5 Å x-ray structure of aquaporin Z] {PLoS Biology, 3, 334-340}
remarks:One of the TM segments, C* + *C, is composed of two end-to-end helical segments. The two partial segments are counted as 2 TM segments topologically. Sequence is from Swiss-Prot. TMhelices=6.
pir_number:C64826
Swiss_Prot_entry:AQPZ_ECOLI
Swiss_Prot_number:P48838
Swiss_Prot_gene:AQPZ,BNIP,B0875,C1009,SF0832,S0873
Swiss_Prot_name:Aquaporin Z
PDB_title:aquaporin Z
PDB_Identifier:1RC2
N_terminal:in
number_tmsegs:8
tm_segments:A.3,26;B.34,54;C*.63,73;D.79,104;E.130,154;F.161,182;*C.186,198;G.206,225
sequence:MFRKLAAECFGTFWLVFGGCGSAVLAAGFPELGIGFAGVALAFGLTVLTMAFAVGHISGGHFNPAVTIGLWAGGRFPAKEVVGYVIAQVVGGIVAAALLYLIASGKTGFDAAASGFASNGYGEHSPGGYSMLSALVVELVLSAGFLLVIHGATDKFAPAGFAPIAIGLALTLIHLISIPVTNTSVNPARSTAVAIFQGGWALEQLWFFWVVPIVGGIIGGLIYRTLLEKRD*
>3D_helix;29
protein_name:bacteriorhodopsin (H. salinarium)
file_name:bR.txt
entry_date:27may98
refman_number:17666
endnote_number:
author:Luecke,H., Schobert,B., Richter,H.-T., Cartailler,J.-P., Lanyi,J.K. (1999) [Structure of bacteriorhodopsin at 1.55 Å resolution] {J Mol Biol, 291, 899-911}
remarks:Sequence below is processed sequence from Swiss-Prot (13 AA signal sequence removed). TMhelices=7.
pir_number:RAHSB
Swiss_Prot_entry:BACR_HALSA
Swiss_Prot_number:P02945
Swiss_Prot_gene:bop
Swiss_Prot_name:Bacteriorhodopsin [Precursor]
PDB_title:bacteriorhodopsin
PDB_Identifier:1BRX,2BRD,1AP9,1AT9,1BRD
N_terminal:out
number_tmsegs:7
tm_segments:A.9,31;B.36,63;C.81,101;D.104,127;E.133,155;F.164,192;G.200,225
sequence:QAQITGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYWARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKAESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGEAEAPEPSAGDGAAATSD*
>3D_helix;109
protein_name:BtuCD ABC transporter, BtuC subunit (Escherichia coli)
file_name:ABC-transporter_BtuC.txt
entry_date:6Aug02
refman_number:20289
endnote_number:
author:Locher,K.P., Lee,A.T., Rees,D.C. (2002) [The E. coli BtuCD structure: A framework for ABC transporter architecture and mechanism] {Science, 296, 1091-1098}
remarks:TM helix G does not cross the membrane completely. It ends in an extended stretch packed between several other helices. Functional protein has 2 BtuC subunits (membrane spanning) & 2 BtuD subunits. Not all TM segments are fully helical. Sequence from Swiss-Prot. TMhelices=10.
pir_number:B90931
Swiss_Prot_entry:BTUC_ECO57
Swiss_Prot_number:Q8X4L7
Swiss_Prot_gene:BTUC,Z2740,ECS2418
Swiss_Prot_name:Vitamin B12 transport system permease protein btuC
PDB_title:bacterial ABC transporter involved in B12 uptake
PDB_Identifier:1L7V
N_terminal:in
number_tmsegs:10
tm_segments:A.2,32;B.47,81;C.93,107;D.114,138;E.142,166;F.191,206;G.229,249;H.258,267;I.272,296;J.305,324
sequence:MLTLARQQQRQNIRWLLCLSVLMLLALLLSLCAGEQWISPGDWFSPRGELFVWQIRLPRTLAVLLVGAALAISGAVMQALFENPLAEPGLLGVSNGAGVGLIAAVLLGQGQLPNWALGLCAIAGALIITLILLRFARRHLSTSRLLLAGVALGIICSALMTWAIYFSTSVDLRQLMYWMMGGFGGVDWRQSWLMLALIPMLLWICCQSRPMNMLALGEISARQLGLPLWFWRNVLVAATGWMVGVSVALAGAIGFIGLVIPHILRLCGLTDHRALLPGCALAGASALLLADIVARLALAAAELPIGVVTATLGAPVFIWLLLKAGR*
>3D_helix;83
protein_name:Ca ATPase, SR (rabbit)
file_name:CaATPase_SR_r.txt
entry_date:20Jun00
refman_number:18872
endnote_number:
author:Toyoshima,C., Nakasako,M., Nomura,H., and Ogawa,H. (2000) [Crystal structure of the calcium pump of sarcoplasmic reticulum at 2.6 Å resolution] {Nature, 405, 647-655}
remarks:helix E protrudes into a soluble domain. Nterm in = cytoplasm, out = SR lumen. Sequence is from Swiss-Prot. PDB sequence is C-terminus truncated/modified. TMhelices=10.
pir_number:PWRBFC
Swiss_Prot_entry:ATA1_RABIT
Swiss_Prot_number:P04191
Swiss_Prot_gene:ATP2A1
Swiss_Prot_name:Sarcoplasmic/endoplasmic reticulum calcium ATPase 1
PDB_title:Calcium-Transporting ATPase Sarcoplasmic Reticulum Type, Fast Twitch Skeletal Muscle, Adult Isoform, Chain A
PDB_Identifier:1EUL
N_terminal:in
number_tmsegs:10
tm_segments:A.48,80;B.89,119;C.247,274;D.289,307;E.739,779;F.788,809;G.830,852;H.893,912;I.930,950;J.964,986
sequence:MEAAHSKSTEECLAYFGVSETTGLTPDQVKRHLEKYGHNELPAEEGKSLWELVIEQFEDLLVRILLLAACISFVLAWFEEGEETITAFVEPFVILLILIANAIVGVWQERNAENAIEALKEYEPEMGKVYRADRKSVQRIKARDIVPGDIVEVAVGDKVPADIRILSIKSTTLRVDQSILTGESVSVIKHTEPVPDPRAVNQDKKNMLFSGTNIAAGKALGIVATTGVSTEIGKIRDQMAATEQDKTPLQQKLDEFGEQLSKVISLICVAVWLINIGHFNDPVHGGSWIRGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTTNQMSVCKMFIIDKVDGDFCSLNEFSITGSTYAPEGEVLKNDKPIRSGQFDGLVELATICALCNDSSLDFNETKGVYEKVGEATETALTTLVEKMNVFNTEVRNLSKVERANACNSVIRQLMKKEFTLEFSRDRKSMSVYCSPAKSSRAAVGNKMFVKGAPEGVIDRCNYVRVGTTRVPMTGPVKEKILSVIKEWGTGRDTLRCLALATRDTPPKREEMVLDDSSRFMEYETDLTFVGVVGMLDPPRKEVMGSIQLCRDAGIRVIMITGDNKGTAIAICRRIGIFGENEEVADRAYTGREFDDLPLAEQREACRRACCFARVEPSHKSKIVEYLQSYDEITAMTGDGVNDAPALKKAEIGIAMGSGTAVAKTASEMVLADDNFSTIVAAVEEGRAIYNNMKQFIRYLISSNVGEVVCIFLTAALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDRPPRSPKEPLISGWLFFRYMAIGGYVGAATVGAAAWWFMYAEDGPGVTYHQLTHFMQCTEDHPHFEGLDCEIFEAPEPMTMALSVLVTIEMCNALNSLSENQSLMRMPPWVNIWLLGSICLSMSLHFLILYVDPLPMIFKLKALDLTQWLMVLKISLPVIGLDEILKFIARNYLEDPEDERRK*
>3D_helix;176
protein_name:ClC chloride channel* (E. coli)
file_name:ClC_Ecoli.txt
entry_date:1jan04
refman_number:20087,20550,20975
endnote_number:
author:Dutzler,R., Campbell,E.B., Cadene,M., Chait,B.T., MacKinnon,R. (2002) [X-ray structure of a CIC chloride channel at 3.0 Å reveals the molecular basis of anion selectivity] {Nature, 415, 287-294}
remarks:*The topology of this protein is complex! The 'tmsegs' are all helical segments buried within the protein and membrane. Check original papers for details. Sequence is from Swiss-Prot. TMhelices=14 (based on turn reversals).
pir_number:C64739
Swiss_Prot_entry:CLCA_ECOLI
Swiss_Prot_number:P37019
Swiss_Prot_gene:CLCA,ERIC,B0155
Swiss_Prot_name:Voltage-gated ClC-type chloride channel clcA
PDB_title:ClC chloride channel
PDB_Identifier:1KPK,1OTS
N_terminal:in
number_tmsegs:17
tm_segments:A.33,70;B.77,99;C.108,116;D.123,141;E.148,166;F.171,189;G.193,203;H.213,233;I.254,283;J.288,306;K.320,323;L.329,350;M.356,377;N.386,402;O.404,416;P.421,439;Q.442,458
sequence:MKTDTPSLETPQAARLRRRQLIRQLLERDKTPLAILFMAAVVGTLVGLAAVAFDKGVAWLQNQRMGALVHTADNYPLLLTVAFLCSAVLAMFGYFLVRKYAPEAGGSGIPEIEGALEDQRPVRWWRVLPVKFFGGLGTLGGGMVLGREGPTVQIGGNIGRMVLDIFRLKGDEARHTLLATGAAAGLAAAFNAPLAGILFIIEEMRPQFRYTLISIKAVFIGVIMSTIMYRIFNHEVALIDVGKLSDAPLNTLWLYLILGIIFGIFGPIFNKWVLGMQDLLHRVHGGNITKWVLMGGAIGGLCGLLGFVAPATSGGGFNLIPIATAGNFSMGMLVFIFVARVITTLLCFSSGAPGGIFAPMLALGTVLGTAFGMVAVELFPQYHLEAGTFAIAGMGALLAASIRAPLTGIILVLEMTDNYQLILPMIITGLGATLLAQFTGGKPLYSAILARTLAKQEAEQLARSKAASASENT*
>3D_helix;114
protein_name:ClC chloride channel* (S. typhimurium)
file_name:ClC_Styph.txt
entry_date:6Aug02
refman_number:20087
endnote_number:
author:Dutzler,R., Campbell,E.B., Cadene,M., Chait,B.T., MacKinnon,R. (2002) [X-ray structure of a CIC chloride channel at 3.0 Å reveals the molecular basis of anion selectivity] {Nature, 415, 287-294}
remarks:*The topology of this protein is complex! The 'tmsegs' are all helical segments buried witin the protein and membrane. Check original papers for details. Sequence is from Swiss-Prot. TMhelices=14 (based on turn reversals).
pir_number:
Swiss_Prot_entry:CLCA_SALTY
Swiss_Prot_number:Q8ZRP8
Swiss_Prot_gene:CLCA,ERIC,STM0203
Swiss_Prot_name:Voltage-gated ClC-type chloride channel clcA
PDB_title:ClC chloride channel
PDB_Identifier:1KPL
N_terminal:in
number_tmsegs:17
tm_segments:A.33,70;B.77,99;C.108,116;D.123,141;E.148,166;F.171,189;G.193,203;H.213,233;I.254,283;J.288,306;K.320,323;L.329,350;M.356,377;N.386,402;O.404,416;P.421,439;Q.442,458
sequence:MKTDTSTFLAQQIVRLRRRDQIRRLMQRDKTPLAILFMAAVVGTLTGLVGVAFEKAVSWVQNMRIGALVQVADHAFLLWPLAFILSALLAMVGYFLVRKFAPEAGGSGIPEIEGALEELRPVRWWRVLPVKFIGGMGTLGAGMVLGREGPTVQIGGNLGRMVLDVFRMRSAEARHTLLATGAAAGLSAAFNAPLAGILFIIEEMRPQFRYNLISIKAVFTGVIMSSIVFRIFNGEAPIIEVGKLSDAPVNTLWLYLILGIIFGCVGPVFNSLVLRTQDMFQRFHGGEIKKWVLMGGAIGGLCGILGLIEPAAAGGGFNLIPIAAAGNFSVGLLLFIFITRVVTTLLCFSSGAPGGIFAPMLALGTLLGTAFGMAAAVLFPQYHLEAGTFAIAGMGALMAASVRAPLTGIVLVLEMTDNYQLILPMIITCLGATLLAQFLGGKPLYSTILARTLAKQDAEQAEKNQNAPADENT*
>3D_helix;255
protein_name:CorA Mg2+ transporter (Thermotoga maritima)
file_name:Magnesium_transporter_CorA_Tmaritima.txt
entry_date:29jan07
refman_number:
endnote_number:22000
author:Lunin, V.V., Dobrovetsky,E., Khutoreskaya,G., Zhang,R., Joachimiak,A., Doyle,D.A., Bochkarev,A., Maguire,M.E., Edwards,A.M., Koth, C.M.(2006) [Crystal structure of the CorA Mg2+ transporter] {Nature, 440, 833-837}
remarks:Pentameric form. Sequence for monomer from PDB. See also later structure 2IUB.
pir_number:H72360
Swiss_Prot_entry:CORA_THEMA
Swiss_Prot_number:Q9WZ31
Swiss_Prot_gene:corA
Swiss_Prot_name:Magnesium transport protein corA
PDB_title:X-ray structure of T. maritima CorA soluble domain
PDB_Identifier:2BBH
N_terminal:in
number_tmsegs:2
tm_segments:A.291,312;B.326,345
sequence:MEEKRLSAKKGLPPGTLVYTGKYREDFEIEVMNYSIEEFREFKTTDVESVLPFRDSSTPTWINITGIHRTDVVQRVGEFFGIHPLVLEDILNVHQRPKVEFFENYVFIVLKMFTYDKNLHELESEQVSLILTKNCVLMFQEKIGDVFDPVRERIRYNRGIIRKKRADYLLYSLIDALVDDYFVLLEKIDDEIDVLEEEVLERPEKETVQRTHQLKRNLVELRKTIWPLREVLSSLYRDVPPLIEKETVPYFRDVYDHTIQIADTVETFRDIVSGLLDVYLSSVSNKTNEVMKVLTIIATIFMPLTFIAGIYGMNFEYMPELRWKWGYPVVLAVMGVIAVIMVVYFKKKKWL*
>3D_helix;251
protein_name:Cysteine Oxidase DsbB (Escherichia coli)
file_name:DsbB_Ecoli.txt
entry_date:29jan07
refman_number:
endnote_number:22292
author:Inaba, K., Murakami,S., Suzuki,M., Nakagawa,A., Yamashita,E., Okada,K., Ito,K.(2006) [Crystal structure of the DsbB-DsbA complex reveals a mechanism of disulfide bond generation] {Cell, 127, 789-801}
remarks:Sequence from Swiss-Prot. This corresponds to chain B in PDB file.
pir_number:F64864
Swiss_Prot_entry:DSBB_ECOLI
Swiss_Prot_number:P0A6M2
Swiss_Prot_gene:dsbB
Swiss_Prot_name:Disulfide bond formation protein B
PDB_title:Crystal structure of DsbA-DsbB-ubiquinone complex
PDB_Identifier:2HI7
N_terminal:in
number_tmsegs:4
tm_segments:A.15,36;B.46,65;C.72,93;D.145,163
sequence:MLRFLNQCSQGRGAWLLMAFTALALELTALWFQHVMLLKPCVLCIYERCALFGVLGAALIGAIAPKTPLRYVAMVIWLYSAFRGVQLTYEHTMLQLYPSPFATCDFMVRFPEWLPLDKWVPQVFVASGDCAERQWDFLGLEMPQWLLGIFIAYLIVAVLVVISQPFKAKKRDLFGR*
>3D_helix;146
protein_name:cyt. b6f complex, cyto b6 subunit (Mastigocladus laminosus)
file_name:cytob6f_b6_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=4.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Cytochrome B6, Chain A
PDB_Identifier:1UM3
N_terminal:out
number_tmsegs:4
tm_segments:A.34,55;B.79,109;C.116,137;D.178,205
sequence:MANVYDWFQERLEIQALADDVTSKYVPPHVNIFYCLGGITLTCFLIQFATGFAMTFYYKPTVTEAYASVQYIMNEVSFGWLIRSIHRWSASMMVLMMILHVFRVYLTGGFKKPRELTWISGVILAVITVSFGVTGYSLPWDQVGYWAVKIVSGVPEAIPVVGVLISDLLRGGSSVGQATLTRYYSAHTFVLPWLIAVFMLLHFLMIRKQGISGPL*
>3D_helix;148
protein_name:cyt. b6f complex, cytochrome f (Mastigocladus laminosus)
file_name:cytob6f_cytochrome_f_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=1.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:cytochrome f, chain C
PDB_Identifier:1UM3
N_terminal:in
number_tmsegs:1
tm_segments:A.252,279
sequence:YPFWAQQTYPPTPREPTGRIVCANCHLAAKPAEVEVPQSVLPDTVFKAVVKIPYDTKLQQVAADGSKVGLNVGAVLMLPEGFKIAPEERIPEELKKEVGDVYFQPYKEGQDNVLLVGPLPGEQYQEIVFPVLSPNPTTDKNIHFGKYAIHLGANRGRGQIYPTGEKSNNNVFTASATGTITKIAKEEDEYGNVKYQVSIQTDSGKTVVDTIPAGPELIVSEGQAVKAGEALTNNPNVGGFGQDDTEIVLQDPNRVKWMIAFICLVMLAQLMLILKKKQVEKVQAAEMNF*
>3D_helix;152
protein_name:cyt. b6f complex, PetG (Mastigocladus laminosus)
file_name:cytob6f_PetG_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=1.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Pet G, Chain G
PDB_Identifier:1UM3
N_terminal:in
number_tmsegs:1
tm_segments:A.9,31
sequence:MVEPLLDGLVLGLVFATLGGLFYAAYQQYKRPNELGG*
>3D_helix;150
protein_name:cyt. b6f complex, PetL (Mastigocladus laminosus)
file_name:cytob6f_PetL_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=1.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Pet L, chain E
PDB_Identifier:1UM3
N_terminal:in
number_tmsegs:1
tm_segments:A.1,25
sequence:MILGAVFYIVFIALFFGIAVGIIFAIKSIKLI*
>3D_helix;151
protein_name:cyt. b6f complex, PetM (Mastigocladus laminosus)
file_name:cytob6f_PetM_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=1.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Pet M, chain F
PDB_Identifier:1UM3
N_terminal:in
number_tmsegs:1
tm_segments:A.2,30
sequence:MTEEMLYAALLSFGLIFVGWGLGVLLLKIQGAEKE*
>3D_helix;153
protein_name:cyt. b6f complex, PetN (Mastigocladus laminosus)
file_name:cytob6f_PetN_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=1.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Pet N, chain H
PDB_Identifier:1UM3
N_terminal:in
number_tmsegs:1
tm_segments:A.3,29
sequence:MEIDVLGWVALLVVFTWSIAMVVWGRNGL*
>3D_helix;149
protein_name:cyt. b6f complex, Rieske iron-sulfur protein (Mastigocladus laminosus)
file_name:cytob6f_ISP_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=1.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Rieske iron-sulfur protein, chain D
PDB_Identifier:1UM3
N_terminal:out
number_tmsegs:1
tm_segments:A.19,43
sequence:MAQFTESMDVPDMGRRQFMNLLAFGTVTGVALGALYPLVKYFIPPSGGAVGGGTTAKDKLGNNVKVSKFLESHNAGDRVLVQGLKGDPTYIVVESKEAIRDYGINAVCTHLGCVVPWNAAENKFKCPCHGSQYDETGRVIRGPAPLSLALCHATVQDDNIVLTPWTETDFRTGEKPWWV*
>3D_helix;147
protein_name:cyt. b6f complex, subunit IV (Mastigocladus laminosus)
file_name:cytob6f_subunitIV_Mastlam.txt
entry_date:4dec03
refman_number:21201
endnote_number:
author:Kurisu,G., Zhang,H., Smith,J.L., Cramer,W.A. (2003) [Structure of the cytochrome b6f complex of oxygenic photosynthesis: Tuning the cavity] {Science, 302, 1009-1014}
remarks:Sequence is from PDB. Thylakoid lumen is defined as 'in'. TMhelices=3.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Subunit IV, chain B
PDB_Identifier:1UM3
N_terminal:out
number_tmsegs:3
tm_segments:A.35,59;B.97,115;C.127,145
sequence:MATLKKPDLSDPKLRAKLAKGMGHNYYGEPAWPNDLLYVFPVVIMGTFACIVALSVLDPAMVGEPANPFATPLEILPEWYLYPVFQILRSLPNKLLGVLLMASVPLGLILVPFIENVNKFQNPFRRPVATTIFLFGTLVTIWLGIGAALPLDKTLTLGLF*
>3D_helix;49
protein_name:cyto C oxidase. Subunit VIIb (bovine)
file_name:COX-bov-VIIb.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain K in PDB file. Nterm in = matrix. Sequence is processed sequence from Swiss-Prot (24 AA signal sequence removed). TMhelices=1.
pir_number:OSBO7B
Swiss_Prot_entry:COX7B_BOVIN
Swiss_Prot_number:P13183
Swiss_Prot_gene:COX7B
Swiss_Prot_name:Cytochrome c oxidase polypeptide VIIb, mitochondrial [Precursor]
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:1
tm_segments:A.9,35
sequence:IHQKRAPDFHDKYGNAVLASGATFCVAVWVYMATQIGIEWNPSPVGRVTPKEWREQ*
>3D_helix;57
protein_name:cyto. bc1 complex. Chain C (bovine)
file_name:BC1-bov-C.txt
entry_date:07oct98
refman_number:16273,13829,15150
endnote_number:
author:Iwata,S., Lee,J.W., Okada,K., Lee,J.K., Iwata,M., Rasmussen,B., Link,T.A., Ramaswamy,S., Jap,B.K. (1998) [Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex] {Science, 281, 64-71}
remarks:Chain designation is that of PDB. Corresponds to cytochrome b in cited paper. Matrix = in. TMhelices=8.
pir_number:CBBO
Swiss_Prot_entry:CYB_BOVIN
Swiss_Prot_number:P00157
Swiss_Prot_gene:MTCYB,COB,CYTB
Swiss_Prot_name:Cytochrome b
PDB_title:Cytochrome Bc1 Complex from Bovine
PDB_Identifier:1BGY,1QCR,1BCC
N_terminal:in
number_tmsegs:8
tm_segments:A.29,53;B.76,104;C.110,133;D.172,202;E.224,245;F.287,307;G.319,340;H.345,376
sequence:MTNIRKSHPLMKIVNNAFIDLPAPSNISSWWNFGSLLGICLILQILTGLFLAMHYTSDTTTAFSSVTHICRDVNYGWIIRYMHANGASMFFICLYMHVGRGLYYGSYTFLETWNIGVILLLTVMATAFMGYVLPWGQMSFWGATVITNLLSAIPYIGTNLVEWIWGGFSVDKATLTRFFAFHFILPFIIMAIAMVHLLFLHETGSNNPTGISSDVDKIPFHPYYTIKDILGALLLILALMLLVLFAPDLLGDPDNYTPANPLNTPPHIKPEWYFLFAYAILRSIPNKLGGVLALAFSILILALIPLLHTSKQRSMMFRPLSQCLFWALVADLLTLTWIGGQPVEHPYITIGQLASVLYFLLILVLMPTAGTIENKLLKW*
>3D_helix;58
protein_name:cyto. bc1 complex. Chain D (bovine)
file_name:BC1-bov-D.txt
entry_date:07oct98
refman_number:16273,13829,15150
endnote_number:
author:Iwata,S., Lee,J.W., Okada,K., Lee,J.K., Iwata,M., Rasmussen,B., Link,T.A., Ramaswamy,S., Jap,B.K. (1998) [Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex] {Science, 281, 64-71}
remarks:Chain designation is that of PDB. Corresponds to cytochrome C1 in cited paper. Matrix = in. TMhelices=1.
pir_number:CCBO1
Swiss_Prot_entry:CY1_BOVIN
Swiss_Prot_number:P00125
Swiss_Prot_gene:CYC1
Swiss_Prot_name:Cytochrome c1, heme protein, mitochondrial
PDB_title:Cytochrome Bc1 Complex from Bovine
PDB_Identifier:1BGY,1QCR,1BCC
N_terminal:out
number_tmsegs:1
tm_segments:A.197,232
sequence:SDLELHPPSYPWSHRGLLSSLDHTSIRRGFQVYKQVCSSCHSMDYVAYRHLVGVCYTEDEAKALAEEVEVQDGPNEDGEMFMRPGKLSDYFPKPYPNPEAARAANNGALPPDLSYIVRARHGGEDYVFSLLTGYCEPPTGVSLREGLYFNPYFPGQAIGMAPPIYNEVLEFDDGTPATMSQVAKDVCTFLRWAAEPEHDHRKRMGLKMLLMMGLLLPLVYAMKRHKWSVLKSRKLAYRPPK*
>3D_helix;107
protein_name:cyto. bc1 complex. Chain E (bovine)
file_name:BC1-bov-E.txt
entry_date:19Nov01
refman_number:16273,13829,15150
endnote_number:
author:Iwata,S., Lee,J.W., Okada,K., Lee,J.K., Iwata,M., Rasmussen,B., Link,T.A., Ramaswamy,S., Jap,B.K. (1998) [Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex] {Science, 281, 64-71}
remarks:Chain designation is that of PDB. Sequence from PDB, which is highly truncated, at both ends, relative to Swiss-Prot. Corresponds to Rieske protein TM domain. Matrix = in. TMhelices=1.
pir_number:A34660
Swiss_Prot_entry:UCRI_BOVIN
Swiss_Prot_number:P13272
Swiss_Prot_gene:UQCRFS1
Swiss_Prot_name:Ubiquinol-cytochrome C reductase iron-sulfur subunit, mitochondrial [Precursor]
PDB_title:Cytochrome Bc1 Complex from Bovine
PDB_Identifier:1BGY,1QCR,1BCC
N_terminal:in
number_tmsegs:1
tm_segments:A.31,61
sequence:SHTDIKVPDFSDYRRPEVLDSTKSSKESSEARKGFSYLVTATTTVGVAYAAKNVVSQFVSSMSASADVLAMSKIEIKLSDIPEGKNMAFKWRGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPEWVILIGVCTHLGCVPIANAGDFGGYYCPCHGSHYDASGRIRKGPAPLNLEVPSYEFTSDDMVIVG*
>3D_helix;59
protein_name:cyto. bc1 complex. Chain G (bovine)
file_name:BC1-bov-G.txt
entry_date:07oct98
refman_number:16273,13829,15150
endnote_number:
author:Iwata,S., Lee,J.W., Okada,K., Lee,J.K., Iwata,M., Rasmussen,B., Link,T.A., Ramaswamy,S., Jap,B.K. (1998) [Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex] {Science, 281, 64-71}
remarks:Chain designation is that of PDB. Corresponds to subunit 7 of cited reference. Sequence also from PDB file. PIR sequence differs in one position from the PDB and Swiss-Prot sequence. Matrix = in. TMhelices=1.
pir_number:A24864
Swiss_Prot_entry:UCRQ_BOVIN
Swiss_Prot_number:P13271
Swiss_Prot_gene:
Swiss_Prot_name:Ubiquinol-cytochrome C reductase complex ubiquinone-binding protein QP-C
PDB_title:Cytochrome Bc1 Complex from Bovine - chain G
PDB_Identifier:1BGY,1QCR,1BCC
N_terminal:in
number_tmsegs:1
tm_segments:A.29,71
sequence:GRQFGHLTRVRHLITYSLSPFEQRPFPHYFSKGVPNVWRRLRACILRVAPPFLAFYLLYTWGTQEFEKSKRKNPAAYVNDR*
>3D_helix;60
protein_name:cyto. bc1 complex. Chain J (bovine)
file_name:BC1-bov-J.txt
entry_date:07oct98
refman_number:16273,13829,15150
endnote_number:
author:Iwata,S., Lee,J.W., Okada,K., Lee,J.K., Iwata,M., Rasmussen,B., Link,T.A., Ramaswamy,S., Jap,B.K. (1998) [Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex] {Science, 281, 64-71}
remarks:Chain designation is that of PDB. Corresponds to subunit 10 in cited paper. Sequence also from PDB file. PIR sequence equal in length but differs in one residue. Matrix = in. TMhelices=1.
pir_number:CCBO17
Swiss_Prot_entry:UCRX_BOVIN
Swiss_Prot_number:P00130
Swiss_Prot_gene:
Swiss_Prot_name:Ubiquinol-cytochrome C reductase complex 7.2 kDa protein
PDB_title:Cytochrome Bc1 Complex from Bovine
PDB_Identifier:1BGY,1QCR,1BCC
N_terminal:in
number_tmsegs:1
tm_segments:A.17,48
sequence:VAPTLTARLYSLLFRRTSTFALTIVVGALLFERAFDQGADAIYEHINEGKLWKHIKHKYENK*
>3D_helix;61
protein_name:cyto. bc1 complex. Chain K (bovine)
file_name:BC1-bov-K.txt
entry_date:07oct98
refman_number:16273,13829,15150
endnote_number:
author:Iwata,S., Lee,J.W., Okada,K., Lee,J.K., Iwata,M., Rasmussen,B., Link,T.A., Ramaswamy,S., Jap,B.K. (1998) [Complete structure of the 11-subunit bovine mitochondrial cytochrome bc1 complex] {Science, 281, 64-71}
remarks:Chain designation is that of PDB. Corresponds to subunit II in cited paper. Sequence also from PDB file. PDB and PIR are identical, but the Swiss-Prot sequence differs in 3 positions, 2 in the TM domain. Matrix = in. TMhelices=1.
pir_number:CBBOC6
Swiss_Prot_entry:UCRY_BOVIN
Swiss_Prot_number:P07552
Swiss_Prot_gene:
Swiss_Prot_name:Ubiquinol-cytochrome C reductase complex 6.4 kDa protein
PDB_title:Cytochrome Bc1 Complex from Bovine
PDB_Identifier:1BGY,1QCR,1BCC
N_terminal:in
number_tmsegs:1
tm_segments:A.17,35
sequence:MLTRFLGPRYRQLARNWVPTAQLWGAVGAVGLVSATDSRLILDWVPYINGKFKKDD*
>3D_helix;42
protein_name:cyto. C oxidase. Subunit I (bovine)
file_name:COX-bov-I.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain A in PDB file. Nterm in = matrix. Sequence from Swiss-Prot. TMhelices=12.
pir_number:ODBO1
Swiss_Prot_entry:COX1_BOVIN
Swiss_Prot_number:P00396
Swiss_Prot_gene:MTCO1,COI
Swiss_Prot_name:Cytochrome c oxidase polypeptide I
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:12
tm_segments:A.12,40;B.51,86;C.95,117;D.141,170;E.183,212;F.238,261;G.270,286;H.299,327;I.336,357;J.371,400;K.407,433;L.447,478
sequence:MFINRWLFSTNHKDIGTLYLLFGAWAGMVGTALSLLIRAELGQPGTLLGDDQIYNVVVTAHAFVMIFFMVMPIMIGGFGNWLVPLMIGAPDMAFPRMNNMSFWLLPPSFLLLLASSMVEAGAGTGWTVYPPLAGNLAHAGASVDLTIFSLHLAGVSSILGAINFITTIINMKPPAMSQYQTPLFVWSVMITAVLLLLSLPVLAAGITMLLTDRNLNTTFFDPAGGGDPILYQHLFWFFGHPEVYILILPGFGMISHIVTYYSGKKEPFGYMGMVWAMMSIGFLGFIVWAHHMFTVGMDVDTRAYFTSATMIIAIPTGVKVFSWLATLHGGNIKWSPAMMWALGFIFLFTVGGLTGIVLANSSLDIVLHDTYYVVAHFHYVLSMGAVFAIMGGFVHWFPLFSGYTLNDTWAKIHFAIMFVGVNMTFFPQHFLGLSGMPRRYSDYPDAYTMWNTISSMGSFISLTAVMLMVFIIWEAFASKREVLTVDLTTTNLEWLNGCPPPYHTFEEPTYVNLK*
>3D_helix;67
protein_name:cyto. C oxidase. Subunit I (P. denitrificans)
file_name:COX-para-I.txt
entry_date:12oct98
refman_number:7109,19016
endnote_number:
author:Iwata,S., Ostermeier,C., Ludwig,B., Michel,H. (1995) [Structure at 2.8 Å resolution of cytochrome c oxidase from Paracoccus denitrificans] {Nature, 376, 660-669}
remarks:Chain A in PDB file. See also J. Biol. Chem. (1999) 274:33296-33299. Sequence from Swiss-Prot. TMhelices=12.
pir_number:S08270
Swiss_Prot_entry:CX1B_PARDE
Swiss_Prot_number:P98002
Swiss_Prot_gene:CTADII
Swiss_Prot_name:Cytochrome c oxidase polypeptide I-beta
PDB_title:Cytochrome C Oxidase Polypeptide I-Beta
PDB_Identifier:1QLE
N_terminal:in
number_tmsegs:12
tm_segments:A.27,59;B.84,121;C.130,151;D.178,206;E.218,251;F.263,298;G.304,322;H.334,362;I.370,395;J.404,430;K.441,468;L.483,513
sequence:MADAAVHGHGDHHDTRGFFTRWFMSTNHKDIGILYLFTAGIVGLISVCFTVYMRMELQHPGVQYMCLEGARLIADASAECTPNGHLWNVMITYHGVLMMFFVVIPALFGGFGNYFMPLHIGAPDMAFPRLNNLSYWMYVCGVALGVASLLAPGGNDQMGSGVGWVLYPPLSTTEAGYSMDLAIFAVHVSGASSILGAINIITTFLNMRAPGMTLFKVPLFAWSVFITAWLILLSLPVLAGAITMLLMDRNFGTQFFDPAGGGDPVLYQHILWFFGHPEVYIIILPGFGIISHVISTFAKKPIFGYLPMVLAMAAIGILGFVVWAHHMYTAGMSLTQQAYFMLATMTIAVPTGIKVFSWIATMWGGSIEFKTPMLWAFGFLFLFTVGGVTGVVLSQAPLDRVYHDTYYVVAHFHYVMSLGAVFGIFAGVYYWIGKMSGRQYPEWAGQLHFWMMFIGSNLIFFPQHFLGRQGMPRRYIDYPVEFAYWNNISSIGAYISFASFLFFIGIVFYTLFAGKRVNVPNYWNEHADTLEWTLPSPPPEHTFETLPKREDWDRAHAH*
>3D_helix;43
protein_name:cyto. C oxidase. Subunit II (bovine)
file_name:COX-bov-II.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain B in PDB file. Nterm in = matrix. Sequence from Swiss-Prot. TMhelices=2.
pir_number:OBBO2
Swiss_Prot_entry:COX2_BOVIN
Swiss_Prot_number:P00404
Swiss_Prot_gene:MTCO2,COII
Swiss_Prot_name:Cytochrome c oxidase polypeptide II
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:out
number_tmsegs:2
tm_segments:A.15,45;B.60,87
sequence:MAYPMQLGFQDATSPIMEELLHFHDHTLMIVFLISSLVLYIISLMLTTKLTHTSTMDAQEVETIWTILPAIILILIALPSLRILYMMDEINNPSLTVKTMGHQWYWSYEYTDYEDLSFDSYMIPTSELKPGELRLLEVDNRVVLPMEMTIRMLVSSEDVLHSWAVPSLGLKTDAIPGRLNQTTLMSSRPGLYYGQCSEICGSNHSFMPIVLELVPLKYFEKWSASML*
>3D_helix;68
protein_name:cyto. C oxidase. Subunit II (P. denitrificans)
file_name:COX-para-II.txt
entry_date:12oct98
refman_number:7109,19016
endnote_number:
author:Iwata,S., Ostermeier,C., Ludwig,B., Michel,H. (1995) [Structure at 2.8 Å resolution of cytochrome c oxidase from Paracoccus denitrificans] {Nature, 376, 660-669}
remarks:Chain B in PDB file. See also J.Biol.Chem. (1999) 274:33296-33299. Nterm in = cytoplasm. Sequence is processed sequence from Swiss-Prot (29 AA signal sequence removed). TMhelices=2.
pir_number:
Swiss_Prot_entry:COX2_PARDE
Swiss_Prot_number:P08306
Swiss_Prot_gene:CTAC,CTAB,COII
Swiss_Prot_name:Cytochrome c oxidase polypeptide II [Precursor]
PDB_title:Cytochrome C Oxidase Polypeptide II
PDB_Identifier:1QLE
N_terminal:out
number_tmsegs:2
tm_segments:A.27,59;B.74,105
sequence:QDVLGDLPVIGKPVNGGMNFQPASSPLAHDQQWLDHFVLYIITAVTIFVCLLLLICIVRFNRRANPVPARFTHNTPIEVIWTLVPVLILVAIGAFSLPILFRSQEMPNDPDLVIKAIGHQWYWSYEYPNDGVAFDALMLEKEALADAGYSEDEYLLATDNPVVVPVGKKVLVQVTATDVIHAWTIPAFAVKQDAVPGRIAQLWFSVDQEGVYFGQCSELCGINHAYMPIVVKAVSQEKYEAWLAGAKEEFAADASDYLPASPVKLASAE*
>3D_helix;44
protein_name:cyto. C oxidase. Subunit III (bovine)
file_name:COX-bov-III.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain C in PDB file. Nterm in = matrix. Sequence from Swiss-Prot. TMhelices=7.
pir_number:OTBO3
Swiss_Prot_entry:COX3_BOVIN
Swiss_Prot_number:P00415
Swiss_Prot_gene:MTCO3,COIII
Swiss_Prot_name:Cytochrome c oxidase polypeptide III
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:7
tm_segments:A.16,34;B.41,66;C.73,105;D.129,152;E.156,183;F.191,223;G.233,256
sequence:MTHQTHAYHMVNPSPWPLTGALSALLMTSGLTMWFHFNSMTLLMIGLTTNMLTMYQWWRDVIRESTFQGHHTPAVQKGLRYGMILFIISEVLFFTGFFWAFYHSSLAPTPELGGCWPPTGIHPLNPLEVPLLNTSVLLASGVSITWAHHSLMEGDRKHMLQALFITITLGVYFTLLQASEYYEAPFTISDGVYGSTFFVATGFHGLHVIIGSTFLIVCFFRQLKFHFTSNHHFGFEAGAWYWHFVDVVWLFLYVSIYWWGS*
>3D_helix;72
protein_name:cyto. C oxidase. Subunit III (P. denitrificans)
file_name:COX-para-III.txt
entry_date:6may1999
refman_number:7109,19016
endnote_number:
author:Iwata,S., Ostermeier,C., Ludwig,B., Michel,H. (1995) [Structure at 2.8 Å resolution of cytochrome c oxidase from Paracoccus denitrificans] {Nature, 376, 660-669}
remarks:Chain C in PDB file. Nterm in = cytoplasm. See also J. Biol. Chem. (1999), 274:33296-33299. Sequence from Swiss Prot. TMhelices=7.
pir_number:S03807
Swiss_Prot_entry:COX3_PARDE
Swiss_Prot_number:P06030
Swiss_Prot_gene:CTAE,COIII
Swiss_Prot_name:Cytochrome c oxidase polypeptide III
PDB_title:Cytochrome C Oxidase Polypeptide III
PDB_Identifier:1QLE
N_terminal:in
number_tmsegs:7
tm_segments:A.15,35;B.48,76;C.79,114;D.139,165;E.168,196;F.203,236;G.244,273
sequence:AHVKNHDYQILPPSIWPFFGAIGAFVMLTGAVAWMKGITFFGLPVEGPWMFLIGLVGVLYVMFGWWADVVNEGETGEHTPVVRIGLQYGFILFIMSEVMFFVAWFWAFIKNALYPMGPDSPIKDGVWPPEGIVTFDPWHLPLINTLILLLSGVAVTWAHHAFVLEGDRKTTINGLIVAVILGVCFTGLQAYEYSHAAFGLADTVYAGAFYMATGFHGAHVIIGTIFLFVCLIRLLKGQMTQKQHVGFEAAAWYWHFVDVVWLFLFVVIYIWGR*
>3D_helix;45
protein_name:cyto. C oxidase. Subunit IV (bovine)
file_name:COX-bov-IV.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain D in PDB file. Nterm in = matrix. Sequence is processed sequence from Swiss-Prot (22 AA signal sequence removed). TMhelices=1.
pir_number:OLBO4
Swiss_Prot_entry:CX41_BOVIN
Swiss_Prot_number:P00423
Swiss_Prot_gene:COX4I1,COX4
Swiss_Prot_name:Cytochrome c oxidase subunit IV isoform 1, mitochondrial [Precursor]
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:1
tm_segments:A.77,103
sequence:AHGSVVKSEDYALPSYVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSIDEKVELYRLKFKESFAEMNRSTNEWKTVVGAAMFFIGFTALLLIWEKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK*
>3D_helix;177
protein_name:cyto. C oxidase. Subunit IV (P. denitrificans)
file_name:COX-para-IV.txt
entry_date:2jan04
refman_number:7109,19016
endnote_number:
author:Iwata,S., Ostermeier,C., Ludwig,B., Michel,H. (1995) [Structure at 2.8 Å resolution of cytochrome c oxidase from Paracoccus denitrificans] {Nature, 376, 660-669}
remarks:Chain D in PDB file. See also J. Biol. Chem. (1999), 274:33296-33299. Sequence from Swiss Prot. TMhelices=1.
pir_number:S03807
Swiss_Prot_entry:COX4_PARDE
Swiss_Prot_number:P77921
Swiss_Prot_gene:CTAH
Swiss_Prot_name:Cytochrome c oxidase polypeptide IV
PDB_title:Cytochrome C Oxidase
PDB_Identifier:1QLE
N_terminal:in
number_tmsegs:1
tm_segments:A.17,48
sequence:ASHHEITDHKHGEMDIRHQQATFAGFIKGATWVSILSIAVLVFLALANS*
>3D_helix;46
protein_name:cyto. C oxidase. Subunit VIa (bovine)
file_name:COX-bov-VIa.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain G in PDB file. Nterm in = matrix. Nterm buried within membrane. Nterm end of helix is 'in'. Sequence is processed sequence from Swiss-Prot (12 AA signal sequence removed). TMhelices=1.
pir_number:OGBO6
Swiss_Prot_entry:CX6A2_BOVIN
Swiss_Prot_number:P07471
Swiss_Prot_gene:COX6A2,COX6A
Swiss_Prot_name:Cytochrome c oxidase polypeptide VIa-heart, mitochondrial [Precursor]
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:1
tm_segments:A.13,37
sequence:ASAAKGDHGGTGARTWRFLTFGLALPSVALCTLNSWLHSGHRERPAFIPYHHLRIRTKPFSWGDGNHTFFHNPRVNPLPTGYEKP*
>3D_helix;47
protein_name:cyto. C oxidase. Subunit VIc (bovine)
file_name:COX-bov-VIc.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain I in PDB file. Nterm in = matrix. Sequence from Swiss-Prot. TMhelices=1.
pir_number:OGBO6C
Swiss_Prot_entry:COXH_BOVIN
Swiss_Prot_number:P04038
Swiss_Prot_gene:COX6C
Swiss_Prot_name:Cytochrome c oxidase polypeptide VIc
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:1
tm_segments:A.12,52
sequence:STALAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEMRKAGIFQSAK*
>3D_helix;48
protein_name:cyto. C oxidase. Subunit VIIa (bovine)
file_name:COX-bov-VIIa.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain J in PDB file. Nterm in = matrix. Sequence is processed sequence from Swiss-Prot (21 AA signal sequence removed). TMhelices=1.
pir_number:OSBO7A
Swiss_Prot_entry:COXK_BOVIN
Swiss_Prot_number:P07470
Swiss_Prot_gene:COX7A1,COX7AH,COX7A
Swiss_Prot_name:Cytochrome c oxidase polypeptide VIIa-heart, mitochondrial [Precursor]
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:1
tm_segments:A.26,54
sequence:FENRVAEKQKLFQEDNGLPVHLKGGATDNILYRVTMTLCLGGTLYSLYCLGWASFPHKK*
>3D_helix;50
protein_name:cyto. C oxidase. Subunit VIIc (bovine)
file_name:COX-bov-VIIc.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain L in PDB file. Nterm in = matrix. Sequence is processed sequence from Swiss-Prot (16 AA signal sequence removed). TMhelices=1.
pir_number:OSBO8A
Swiss_Prot_entry:COX7C_BOVIN
Swiss_Prot_number:P00430
Swiss_Prot_gene:COX7C,COX7CP1
Swiss_Prot_name:Cytochrome c oxidase polypeptide VIIc, mitochondrial [Precursor]
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:1
tm_segments:A.18,44
sequence:SHYEEGPGKNIPFSVENKWRLLAMMTLFFGSGFAAPFFIVRHQLLKK*
>3D_helix;51
protein_name:cyto. C oxidase. Subunit VIII (bovine)
file_name:COX-bov-VIII.txt
entry_date:8jun98
refman_number:8424,7153
endnote_number:
author:Tsukihara,T., Aoyama,H., Yamashita,E., Tomizaki,T., Yamaguchi,H., Shinzawa-Itoh,K., Nakashima,R., Yaono,R., Yoshikawa,S. (1996) [The whole structure of the 13-subunit oxidized cytochrome c oxidase at 2.8 Å] {Science, 272, 1136-1144}
remarks:Chain M in PDB file. Nterm in = matrix. Sequence is processed sequence from Swiss-Prot (24 AA signal sequence removed). TMhelices=1.
pir_number:OSBO8
Swiss_Prot_entry:COXQ_BOVIN
Swiss_Prot_number:P10175
Swiss_Prot_gene:COX8H
Swiss_Prot_name:Cytochrome c oxidase polypeptide VIII-heart, mitochondrial [Precursor]
PDB_title:cytochrome c oxidase
PDB_Identifier:1OCC
N_terminal:in
number_tmsegs:1
tm_segments:A.12,36
sequence:ITAKPARTPTSPKEQAIGLSVTFLSFLLPAGWVLYHLDNYKKSSAA*
>3D_helix;84
protein_name:cyto.c oxidase. Chain I (Thermus thermophilus)
file_name:COX-therm-I.txt
entry_date:11jul00
refman_number:18830,18879
endnote_number:
author:Soulimane, T., Buse, G., Bourenkov, G.P., Bartunik, H.D., Huber, R., and Than, M.E. (2000) [Structure and mechanism of the aberrant ba3-cytochrome c oxidase from Thermus thermophilus] {EMBO J., 19, 1766-1776}
remarks:Chain A in PDB file. Sequence from Swiss-Prot. cytoplasm = in. TMhelices=13.
pir_number:T52481
Swiss_Prot_entry:COX1_THETH
Swiss_Prot_number:Q56408
Swiss_Prot_gene:CBAA
Swiss_Prot_name:Cytochrome c oxidase polypeptide I
PDB_title:Ba3-Type Cytochrome-C Oxidase, chain A
PDB_Identifier:1EHK
N_terminal:in
number_tmsegs:13
tm_segments:A.17,48;B.65,97;C.103,125;D.143,173;E.181,212;F.221,254;G.262,283;H.292,326;I.344,366;J.380,409;K.415,444;L.461,493;M.527,550
sequence:MAVRASEISRVYEAYPEKKATLYFLVLGFLALIVGSLFGPFQALNYGNVDAYPLLKRLLPFVQSYYQGLTLHGVLNAIVFTQLFAQAIMVYLPARELNMRPNMGLMWLSWWMAFIGLVVAALPLLANEATVLYTFYPPLKGHWAFYLGASVFVLSTWVSIYIVLDLWRRWKAANPGKVTPLVTYMAVVFWLMWFLASLGLVLEAVLFLLPWSFGLVEGVDPLVARTLFWWTGHPIVYFWLLPAYAIIYTILPKQAGGKLVSDPMARLAFLLFLLLSTPVGFHHQFADPGIDPTWKMIHSVLTLFVAVPSLMTAFTVAASLEFAGRLRGGRGLFGWIRALPWDNPAFVAPVLGLLGFIPGGAGGIVNASFTLDYVVHNTAWVPGHFHLQVASLVTLTAMGSLYWLLPNLTGKPISDAQRRLGLAVVWLWFLGMMIMAVGLHWAGLLNVPRRAYIAQVPDAYPHAAVPMVFNVLAGIVLLVALLLFIYGLFSVLLSRERKPELAEAPLPFAEVISGPEDRRLVLAMDRIGFWFAVAAILVVLAYGPTLVQLFGHLNPVPGWRLW*
>3D_helix;85
protein_name:cyto.c oxidase. Chain II (Thermus thermophilus)
file_name:COX-therm-II.txt
entry_date:11jul00
refman_number:18830,18879
endnote_number:
author:Soulimane, T., Buse, G., Bourenkov, G.P., Bartunik, H.D., Huber, R., and Than, M.E. (2000) [Structure and mechanism of the aberrant ba3-cytochrome c oxidase from Thermus thermophilus] {EMBO J., 19, 1766-1776}
remarks:Chain B in PDB file. Sequence from Swiss-Prot. cytoplasm = in. TMhelices=1.
pir_number:T52480
Swiss_Prot_entry:COX2_THETH
Swiss_Prot_number:P98052
Swiss_Prot_gene:CBAB,CTAC
Swiss_Prot_name:Cytochrome c oxidase polypeptide II
PDB_title:Ba3-Type Cytochrome-C Oxidase, chain B
PDB_Identifier:1EHK
N_terminal:in
number_tmsegs:1
tm_segments:A.4,38
sequence:MVDEHKAHKAILAYEKGWLAFSLAMLFVFIALIAYTLATHTAGVIPAGKLERVDPTTVRQEGPWADPAQAVVQTGPNQYTVYVLAFAFGYQPNPIEVPQGAEIVFKITSPDVIHGFHVEGTNINVEVLPGEVSTVRYTFKRPGEYRIICNQYCGLGHQNMFGTIVVKE*
>3D_helix;93
protein_name:cyto.c oxidase. Chain IIa (Thermus thermophilus)
file_name:COX-therm-IIa.txt
entry_date:27jan01
refman_number:19492
endnote_number:
author:Soulimane,T., Than,M.E., Dewor,M., Huber,R., and Buse,G. (2000) [Primary structure of a novel subunit in ba3-cytochrome c oxidase from Thermus thermophilus] {Protein Sci, 9, 2068-2073}
remarks:Chain C in PDB file. Sequence is from Swiss-Prot. cytoplasm = in. TMhelices=1.
pir_number:
Swiss_Prot_entry:COXA_THETH
Swiss_Prot_number:P82543
Swiss_Prot_gene:CBAD
Swiss_Prot_name:Cytochrome c oxidase polypeptide IIA
PDB_title:Ba3-Type Cytochrome-C Oxidase, chain C
PDB_Identifier:1EHK
N_terminal:in
number_tmsegs:1
tm_segments:A.4,34
sequence:MEEKPKGALAVILVLTLTILVFWLGVYAVFFARG*
>3D_helix;228
protein_name:F-type Na+-ATPase Subunit C (Ilyobacter tartaricus)
file_name:Na+-ATPase_Ilyo_tart.txt
entry_date:27jul05
refman_number:21818
endnote_number:
author:Meier,T., Polzer,P., Diederichs,K., Welte,W., Dimroth,P. (2005) [Structure of the rotor ring of F-type Na+-ATPase from Ilyobacter tartaricus] {Science, 308, 659-662}
remarks:Homodimer. Sequence for monomer from Swiss-Prot. For context of this protein, see 1QO1 (ATP synthase rotary motor)
pir_number:
Swiss_Prot_entry:Q8KRV3_9FUSO
Swiss_Prot_number:Q8KRV3
Swiss_Prot_gene:atpE
Swiss_Prot_name:Subunit C
PDB_title:Structure of the rotor ring of F-type Na+-ATPase from Ilyobacter tartaricus
PDB_Identifier:1YCE
N_terminal:out
number_tmsegs:2
tm_segments:A.4,44;B.48,80
sequence:MDMLFAKTVVLAASAVGAGTAMIAGIGPGVGQGYAAGKAVESVARQPEAKGDIISTMVLGAVAESTGIYSLVIALILLYANPFVGLLG*
>3D_helix;80
protein_name:F1F0 ATPsynthase Subunit C (E. coli)
file_name:ATPsynthase_C.txt
entry_date:12dec99
refman_number:16266,17900,17977
endnote_number:
author:Girvin,M.E., Rastogi,V.K., Abildgaard,F., Markley,J.L., Fillingame,R.H. (1998) [Solution structure of the transmembrane H+-transporting subunit c of the F1F0 ATP synthase] {Biochemistry, 37, 8817-8824}
remarks:Sequence is from Swiss-Prot. For context of this protein, see 1QO1 (ATP synthase rotary motor). TMhelices=2.
pir_number:LWECA
Swiss_Prot_entry:ATPL_ECOLI
Swiss_Prot_number:P00844
Swiss_Prot_gene:ATPE,UNCE,PAPH,B3737,C4665,Z5235,ECS4679,STM3870,STY3908,SF3817,YPO4126,Y4140
Swiss_Prot_name:ATP synthase C chain
PDB_title:F1F0 Atpase Subunit C
PDB_Identifier:1A91
N_terminal:out
number_tmsegs:2
tm_segments:A.2,39;B.47,77
sequence:MENLNMDLLYMAAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDLIPLLRTQFFIVMGLVDAIPMIAVGLGLYVMFAVA*
>3D_helix;117
protein_name:formate dehydrogenase-N, beta chain (E. coli)
file_name:Fdn-N_beta.txt
entry_date:20oct02
refman_number:20602
endnote_number:
author:Jormakka,M., Törnroth,S., Byrne,B., Iwata,S. (2002) [Molecular basis of proton motive force generation: Structure of formate dehydrogenase-N] {Science, 295, 1863-1868}
remarks:Chain B in PDB. Sequence from Swiss-Prot. TMhelices=1.
pir_number:JS0629
Swiss_Prot_entry:FDNH_ECOLI
Swiss_Prot_number:P24184
Swiss_Prot_gene:FDNH,B1475,SF1750
Swiss_Prot_name:Formate dehydrogenase, nitrate-inducible, iron-sulfur subunit
PDB_title:formate dehydrogenase, nitrate-inducible, major subunit
PDB_Identifier:1KQF,1KQG
N_terminal:out
number_tmsegs:1
tm_segments:A.248,280
sequence:MAMETQDIIKRSATNSITPPSQVRDYKAEVAKLIDVSTCIGCKACQVACSEWNDIRDEVGHCVGVYDNPADLSAKSWTVMRFSETEQNGKLEWLIRKDGCMHCEDPGCLKACPSAGAIIQYANGIVDFQSENCIGCGYCIAGCPFNIPRLNKEDNRVYKCTLCVDRVSVGQEPACVKTCPTGAIHFGTKKEMLELAEQRVAKLKARGYEHAGVYNPEGVGGTHVMYVLHHADQPELYHGLPKDPKIDTSVSLWKGALKPLAAAGFIATFAGLIFHYIGIGPNKEVDDDEEDHHE*
>3D_helix;118
protein_name:formate dehydrogenase-N, gamma chain (E. coli)
file_name:Fdn-N_gamma.txt
entry_date:20oct02
refman_number:20602
endnote_number:
author:Jormakka,M., Törnroth,S., Byrne,B., Iwata,S. (2002) [Molecular basis of proton motive force generation: Structure of formate dehydrogenase-N] {Science, 295, 1863-1868}
remarks:Chain C in PDB. Sequence from Swiss-Prot. TMhelices=4.
pir_number:JS0630
Swiss_Prot_entry:FDNI_ECOLI
Swiss_Prot_number:P24185
Swiss_Prot_gene:FDNI,B1476,Z2234,ECS2080,SF1749
Swiss_Prot_name:Formate dehydrogenase, nitrate-inducible, cytochrome b556(FDN) subunit
PDB_title:formate dehydrogenase, nitrate-inducible, major subunit
PDB_Identifier:1KQG,1KQF
N_terminal:in
number_tmsegs:4
tm_segments:A.15,37;B.51,74;C.112,134;D.146,175
sequence:MSKSKMIVRTKFIDRACHWTVVICFFLVALSGISFFFPTLQWLTQTFGTPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLLVTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPRWYREIEKAEAKKESEEGI*
>3D_helix;79
protein_name:Fumarate Reductase alpha subunit (W. succinogenes)
file_name:Fum_Reduct_Wsuccin.txt
entry_date:14dec99
refman_number:17951
endnote_number:
author:Lancaster,C.R.D., Kröger, A., Auer,M., Michel,H. (1999) [Structure of fumarate reductase from Wolinella succinogenes at 2.2 Å resolution] {Nature, 402, 377-385}
remarks:Chain C in PDB file. Nterm in = cytoplasm. Sequence from Swiss-Prot. TMhelices=5.
pir_number:S10164
Swiss_Prot_entry:FRDC_WOLSU
Swiss_Prot_number:P17413
Swiss_Prot_gene:FRDC
Swiss_Prot_name:Fumarate reductase cytochrome B subunit
PDB_title:Fumarate Reductase Cytochrome B Subunit, Chain C, F. Other details - Haem Axial Ligands - His 44, His 93, His 143, His 182
PDB_Identifier:1QLA
N_terminal:in
number_tmsegs:5
tm_segments:A.22,52;B.77,100;C.121,149;D.169,194;E.202,237
sequence:MTNESILESYSGVTPERKKSRMPAKLDWWQSATGLFLGLFMIGHMFFVSTILLGDNVMLWVTKKFELDFIFEGGKPIVVSFLAAFVFAVFIAHAFLAMRKFPINYRQYLTFKTHKDLMRHGDTTLWWIQAMTGFAMFFLGSVHLYIMMTQPQTIGPVSSSFRMVSEWMWPLYLVLLFAVELHGSVGLYRLAVKWGWFDGETPDKTRANLKKLKTLMSAFLIVLGLLTFGAYVKKGLEQTDPNIDYKYFDYKRTHHR*
>3D_helix;75
protein_name:Fumarate Reductase. 13 kD anchor (E. coli)
file_name:Fum_Reduct_Ecoli_Ancr13.txt
entry_date:25aug99
refman_number:17670
endnote_number:
author:Iverson,T.M., Luna-Chavez,C., Cecchini,G., Rees,D.C. (1999) [Structure of the Escherichia coli fumarate reductase respiratory complex] {Science, 284, 1961-1966}
remarks:Chain D in PDB file. Helix A strongly (strangely!) kinked at about Ile26. Nterm in = cytoplasm. Sequence from Swiss-Prot. TMhelices=3.
pir_number:WMEC13
Swiss_Prot_entry:FRDD_ECOLI
Swiss_Prot_number:P03806
Swiss_Prot_gene:FRDD,B4151,Z5758,ECS5132,SF4309
Swiss_Prot_name:Fumarate reductase 13 kDa hydrophobic protein
PDB_title:Fumarate Reductase 13 Kda Hydrophobic Protein
PDB_Identifier:1L0V
N_terminal:in
number_tmsegs:3
tm_segments:A.9,35;B.61,89;C.97,115
sequence:MINPNPKRSDEPVFWGLFGAGGMWSAIIAPVMILLVGILLPLGLFPGDALSYERVLAFAQSFIGRVFLFLMIVLPLWCGLHRMHHAMHDLKIHVPAGKWVFYGLAAILTVVTLIGVVTI*
>3D_helix;74
protein_name:Fumarate Reductase. 15 kD anchor (E. coli)
file_name:Fum_Reduct_Ecoli_Ancr15.txt
entry_date:25aug99
refman_number:17670
endnote_number:
author:Iverson,T.M., Luna-Chavez,C., Cecchini,G., Rees,D.C. (1999) [Structure of the Escherichia coli fumarate reductase respiratory complex] {Science, 284, 1961-1966}
remarks:Chain C in PDB file. Helix A and B connected by very short turns to an interfacial helix (N51-L63). Nterm in = cytoplasm. Sequence from Swiss-Prot. TMhelices=3.
pir_number:S56380
Swiss_Prot_entry:FRDC_ECOLI
Swiss_Prot_number:P03805
Swiss_Prot_gene:FRDC,B4152,C5240,Z5759,ECS5133
Swiss_Prot_name:Fumarate reductase 15 kDa hydrophobic protein
PDB_title:fumarate reductase 15 kD hydrophobic protein, Chain C
PDB_Identifier:1FUM
N_terminal:in
number_tmsegs:3
tm_segments:A.22,49;B.66,90;C.105,128
sequence:MTTKRKPYVRPMTSTWWKKLPFYRFYMLREGTAVPAVWFSIELIFGLFALKNGPEAWAGFVDFLQNPVIVIINLITLAAALLHTKTWFELAPKAANIIVKDEKMGPEPIIKSLWAVTVVATIVILFVALYW*
>3D_helix;92
protein_name:Glycerol Channel, GlpF* (E. coli)
file_name:glycerol_channel.txt
entry_date:08nov00
refman_number:19203
endnote_number:
author:Fu,D., Libson,A., Miercke,L.J.W., Weitzman,C., Nollert,P., Krucinski,J., Stroud,R.M. (2000) [Structure of a glycerol-conducting channel and the basis for its selectivity] {Science, 290, 481-486}
remarks:One of the TM segments, C* + *C, is composed of two end-to-end helical segments. The two partial segments are counted as 2 TM segments topologically. Sequence from Swiss-Prot. TMhelices=6.
pir_number:XMECGF
Swiss_Prot_entry:GLPF_ECOLI
Swiss_Prot_number:P11244
Swiss_Prot_gene:GLPF,B3927,C4879,Z5472,ECS4852
Swiss_Prot_name:Glycerol uptake facilitator protein
PDB_title:Glycerol Uptake Facilitator Protein, Chain A
PDB_Identifier:1FX8
N_terminal:in
number_tmsegs:8
tm_segments:A.6,35;B.40,60;C*.68,77;D.85,108;E.144,169;F.178,194;*C.204,217;G.232,254
sequence:MSQTSTLKGQCIAEFLGTGLLIFFGVGCVAALKVAGASFGQWEISVIWGLGVAMAIYLTAGVSGAHLNPAVTIALWLFACFDKRKVIPFIVSQVAGAFCAAALVYGLYYNLFFDFEQTHHIVRGSVESVDLAGTFSTYPNPHINFVQAFAVEMVITAILMGLILALTDDGNGVPRGPLAPLLIGLLIAVIGASMGPLTGFAMNPARDFGPKVFAWLAGWGNVAFTGGRDIPYFLVPLFGPIVGAIVGAFAYRKLIGRHLPCDICVVEEKETTTPSEQKASL*
>3D_helix;138
protein_name:glycerol-3-phosphate transporter (E. coli)
file_name:GlpT.txt
entry_date:4dec03
refman_number:21092
endnote_number:
author:Huang,Y.F., Lemieux,M.J., Song,J.M., Auer,M., Wang,D.-N. (2003) [Structure and mechanism of the glycerol-3-phosphate transporter from Escherichia coli] {Science, 301, 616-620}
remarks:sequence is from Swiss-Prot, which differs somewhat from PDB. Sequence numbering in PDB corresponds to Swiss-Prot sequence. TMhelices=12.
pir_number:JNECGT
Swiss_Prot_entry:GLPT_ECOLI
Swiss_Prot_number:P08194
Swiss_Prot_gene:Glycerol-3-phosphate transporter
Swiss_Prot_name:GLPT or B2240
PDB_title:Glycerol-3-phosphate transporter
PDB_Identifier:1PW4
N_terminal:in
number_tmsegs:12
tm_segments:A.20,57;B.64,88;C.94,112;D.121,147;E.153,180;F.190,207;G.253,282;H.288,316;I.322,341;J.347,374;K.380,409;L.415,448
sequence:MLSIFKPAPHKARLPAAEIDPTYRRLRWQIFLGIFFGYAAYYLVRKNFALAMPYLVEQGFSRGDLGFALSGISIAYGFSKFIMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFVLLFLCGWFQGMGWPPCGRTMVHWWSQKERGGIVSVWNCAHNVGGGIPPLLFLLGMAWFNDWHAALYMPAFCAILVALFAFAMMRDTPQSCGLPPIEEYKNDYPDDYNEKAEQELTAKQIFMQYVLPNKLLWYIAIANVFVYLLRYGILDWSPTYLKEVKHFALDKSSWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTVDFFGWDGGFMVMIGGSILAVILLIVVMIGEKRRHEQLLQERNGG*
>3D_helix;78
protein_name:glycophorin A (human)
file_name:glycophorin.txt
entry_date:16nov99
refman_number:11728,5803
endnote_number:
author:Furthmayr,H., Galardy,R.E., Tomita,M., Marchesi,V.T. (1978) [The intramembranous segment of human erythrocyte glycophorin A] {Arch Biochem Biophys, 185, 21-29}
remarks:Sequence is processed sequence from Swiss-Prot (19 AA signal sequence removed). TMhelices=1.
pir_number:GFHUE
Swiss_Prot_entry:GLPA_HUMAN
Swiss_Prot_number:P02724
Swiss_Prot_gene:GYPA,GPA
Swiss_Prot_name:Glycophorin A [Precursor]
PDB_title:Glycophorin A, Chain A
PDB_Identifier:1AFO
N_terminal:out
number_tmsegs:1
tm_segments:A.73,95
sequence:SSTTGVAMHTSTSSSVTKSYISSQTNDTHKRDTYAATPRAHEVSEISVRTVYPPEEETGERVQLAHHFSEPEITLIIFGVMAGVIGTILLISYGIRRLIKKSPSDVKPLPSPDTDVPLSSVEIENPETSDQ*
>3D_helix;62
protein_name:halorhodopsin (H. salinarium)
file_name:HR.txt
entry_date:8June00
refman_number:18678,1665,6650
endnote_number:
author:Kolbe,M., Besir, H., Essen,L.-O., Oesterhelt, D. (2000) [Structure of the light-driven chloride pump halorhodopsin at 1.8 Å resolution] {Science, 288, 1390-1396}
remarks:Sequence below is unprocessed sequence from Swiss-Prot. AA numbering in PDB file and in the 'tmseg' assignments correspond to unprocessed sequence. Signal sequence corresponds to first 21 AA. TMhelices=7.
pir_number:A26161
Swiss_Prot_entry:BACH_HALSA
Swiss_Prot_number:P16102
Swiss_Prot_gene:HOP,VNG0180G
Swiss_Prot_name:Halorhodopsin [Precursor]
PDB_title:Halorhodopsin - Chain A
PDB_Identifier:1E12
N_terminal:out
number_tmsegs:7
tm_segments:A.26,51;B.58,81;C.106,127;D.131,154;E.158,180;F.193,216;G.227,255
sequence:MSITSVPGVVDAGVLGAQSAAAVRENALLSSSLWVNVALAGIAILVFVYMGRTIRPGRPRLIWGATLMIPLVSISSYLGLLSGLTVGMIEMPAGHALAGEMVRSQWGRYLTWALSTPMILLALGLLADVDLGSLFTVIAADIGMCVTGLAAAMTTSALLFRWAFYAISCAFFVVVLSALVTDWAASASSAGTAEIFDTLRVLTVVLWLGYPIVWAVGVEGLALVQSVGVTSWAYSVLDVFAKYVFAFILLRWVANNERTVAVAGQTLGTMSSDD*
>3D_helix;56
protein_name:KcsA potassium channel* (S. lividans)
file_name:KcsA.txt
entry_date:25jun98
refman_number:15161
endnote_number:
author:Doyle,D.A., Cabral,J.M., Pfuetzner,R.A., Kuo,A., Gulbis,J.M., Cohen,S.L., Chait,B.T., MacKinnon,R. (1998) [The structure of the potassium channel: Molecular basis of K+ conduction and selectivity] {Science, 280, 69-77}
remarks:*The 'tmsegs' marked below include the so-called pore helix (P) associated with the pore region. 'tmseg' B corresponds to P. TMhelices=2.
pir_number:S60172
Swiss_Prot_entry:KCSA_STRCO
Swiss_Prot_number:Q54397
Swiss_Prot_gene:KCSA,SKC1,SCO7660,SC10F4.33
Swiss_Prot_name:Voltage-gated potassium channel
PDB_title:Potassium Channel (KcsA) from Streptomyces lividans
PDB_Identifier:1BL8
N_terminal:in
number_tmsegs:3
tm_segments:A.28,52;B.62,72;C.87,113
sequence:MPPMLSGLLARLVKLLLGRHGSALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSFGLVTAALATWFVGREQ*
>3D_helix;131
protein_name:KirBac1.1 potassium channel* (Burkholderia pseudomallei)
file_name:KirBac1.1.txt
entry_date:2july03
refman_number:21009
endnote_number:
author:Kuo,A., Gulbis,J.M., Antcliff,J.F., Rahman,T., Lowe,E.D., Zimmer,J., Cuthbertson,J., Ashcroft,F.M., Ezaki,T. Doyle,D.A. (2003) [Crystal structure of the potassium channel KirBac1.1 in the closed state] {Science, 300, 1922-1926}
remarks:*The 'tmsegs' marked below include the so-called pore-helix (P) associated with the pore region, and the so-called slide-helix (Sl). For 'tmsegs' below, A corresponds to Sl and C to P. Sequence is from TrEMBL. TMhelices=2.
pir_number:
Swiss_Prot_entry:P83698
Swiss_Prot_number:P83698
Swiss_Prot_gene:
Swiss_Prot_name:potassium channel
PDB_title:potassium channel
PDB_Identifier:1P7B
N_terminal:in
number_tmsegs:4
tm_segments:A.47,51;B.60,81;C.98,104;D.121,149
sequence:MNVDPFSPHSSDSFAQAASPARKPPRGGRRIWSGTREVIAYGMPASVWRDLYYWALKVSWPVFFASLAALFVVNNTLFALLYQLGDAPIANQSPPGFVGAFFFSVETLATVGYGDMHPQTVYAHAIATLEIFVGMSGIALSTGLVFARFARPRAKIMFARHAIVRPFNGRMTLMVRAANARQNVIAEARAKMRLMRREHSSEGYSLMKIHDLKLVRNEHPIFLLGWNMMHVIDESSPLFGETPESLAEGRAMLLVMIEGSDETTAQVMQARHAWEHDDIRWHHRYVDLMSDVDGMTHIDYTRFNDTEPVEPPGAAPDAQAFAAKPGEGDARPV*
>3D_helix;123
protein_name:KvAP potassium channel* (Aeropyrum pernix)
file_name:KvAP.txt
entry_date:13may03
refman_number:20977,20978,20979
endnote_number:
author:Jiang,Y.X., Lee,A., Chen,J.Y., Ruta,V., Cadene,M., Chait,B.T., MacKinnon,R.(2003) [X-ray structure of a voltage-dependent K+ channel] {Nature, 423, 33-41}
remarks:*The KvAP K-channel is complex. Of the 'tm segs' marked below, only tmsegs G and I are tmsegs in the usual sense. The others are associated with the pore helix and the voltage sensor domains. Using terminology from the Jiang et al. paper, the 'tmsegs' below have the following correspondence: A=S1, B=S2, C=S3a, D=S3b, E=S4, F=S4-S5 linker, G=S5, H=P, and I=S6.
pir_number:
Swiss_Prot_entry:below from TrEMBL
Swiss_Prot_number:Q9YDF8
Swiss_Prot_gene:APE0955
Swiss_Prot_name:295AA long hypothetical potassium channel
PDB_title:Voltage-Dependent Potassium Channel in complex with an Fab
PDB_Identifier:1ORQ
N_terminal:in
number_tmsegs:9
tm_segments:A.26,50;B.54,79;C.84,92;D.96,112;E.116,132;F.135,146;G.148,171;H.183,195;I.209,240
sequence:MARFRRGLSDLGGRVRNIGDVMEHPLVELGVSYAALLSVIVVVVEYTMQLSGEYLVRLYLVDLILVIILWADYAYRAYKSGDPAGYVKKTLYEIPALVPAGLLALIEGHLAGLGLFRLVRLLRFLRILLIISRGSKFLSAIADAADKIRFYHLFGAVMLTVLYGAFAIYIVEYPDPNSSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIGIAVMLTGISALTLLIGTVSNMFQKILVGEPEPSCSPAKLAEMVSSMSEEEFEEFVRTLKNLRRLENSMK*
>3D_helix;134
protein_name:lactose permease, 3D structure (E. coli)
file_name:LacPerm_3D.txt
entry_date:1dec03
refman_number:21091,19962,19600,17480,4992,16336
endnote_number:
author:Huang,Y.F., Lemieux,M.J., Song,J.M., Auer,M., Wang,D.-N.(2003) [Structure and mechanism of the glycerol-3-phosphate transporter from Escherichia coli] {Science, 301, 610-615}
remarks:protein is a mutant:C154G. Sequence is thus from PDB file. TMhelices=12.
pir_number:GREC
Swiss_Prot_entry:LACY_ECOLI
Swiss_Prot_number:P02920
Swiss_Prot_gene:LACY,B0343
Swiss_Prot_name:Lactose permease
PDB_title:Lactose Permease
PDB_Identifier:1PV6,1PV7
N_terminal:in
number_tmsegs:12
tm_segments:A.6,34;B.42,70;C.75,100;D.104,136;E.140,164;F.166,186;G.221,247;H.254,276;I.288,304;J.312,340;K.343,376;L.378,399
sequence:MYYLKNTNFWMFGLFFFFYFFIMGAYFPFFPIWLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMFGCVGWALGASIVGIMFTINNQFVFWLGSGCALILAVLLFFAKTDAPSSATVANAVGANHSAFSLKLALELFRQPKLWFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSGPGPLSLLRRQVNEVA*
>3D_helix;187
protein_name:LHC-II (Spinacia oleracea)
file_name:LHC_II-spinach.txt
entry_date:31mar04
refman_number:21404
endnote_number:
author:Liu,Z., Yan,H., Wang,K., Kuang,T., Zhang,J., Gui,L., An,X., Chang,W. (2004) [Crystal structure of spinach major light-harvesting complex at 2.72 Å resolution] {Nature, 428, 287-292}
remarks:Sequence is from Swiss-Prot. The 35AA pre-sequence has been removed, consistent with PDB sequence. Stroma=in.
pir_number:JQ0020
Swiss_Prot_entry:CB21_SPIOL
Swiss_Prot_number:P12333
Swiss_Prot_gene:
Swiss_Prot_name:Chlorophyll a-b binding protein, chloroplast [Precursor]
PDB_title:Chlorophyll A-B Binding Protein, Chloroplast
PDB_Identifier:1RWT
N_terminal:in
number_tmsegs:3
tm_segments:A.55,86;B.124,144;C.170,201
sequence:RKTAGKPKTVQSSSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWNFATNFVPGK*
>3D_helix;52
protein_name:Light Harvesting Complex. alpha chain (R. acidophila)
file_name:LHC-Racido-A.txt
entry_date:8jun98
refman_number:6653
endnote_number:
author:McDermott,G., Prince,S.M., Freer,A.A., Hawthornthwaite-Lawless,A.M., Papiz,M.Z., Cogdell,R.J., Issacs,N.W. (1995) [Crystal structure of an integral membrane light-harvesting complex from photosynthetic bacteria] {Nature, 374, 517-521}
remarks:Chain A of PDB file. Sequence from Swiss-Prot. TMhelices=1.
pir_number:S06365
Swiss_Prot_entry:LHA4_RHOAC
Swiss_Prot_number:P26789
Swiss_Prot_gene:
Swiss_Prot_name:Light-harvesting protein B-800/850, alpha chain
PDB_title:integral membrane peripheral light harvesting complex from Rhodopseudomonas acidophila strain 10050
PDB_Identifier:1KZU
N_terminal:in
number_tmsegs:1
tm_segments:A.11,36
sequence:MNQGKIWTVVNPAIGIPALLGSVTVIAILVHLAILSHTTWFPAYWQGGVKKAA*
>3D_helix;54
protein_name:Light Harvesting Complex. alpha chain (R. molischianum)
file_name:LHC-Rmolis-A.txt
entry_date:8jun98
refman_number:8540
endnote_number:
author:Koepke,J., Hu,X., Muenke,C., Schulten,K., Michel,H. (1996) [The crystal structure of the light-harvesting complex II (B800-850) from Rhodospirillum molischianum] {Structure, 4, 581-597}
remarks:Chain A of PDB file. Sequence from Swiss-Prot. TMhelices=1.
pir_number:A49290
Swiss_Prot_entry:LHA_RHOMO
Swiss_Prot_number:P97253
Swiss_Prot_gene:A1,A2,A3
Swiss_Prot_name:Light-harvesting protein B-800/850, alpha chain
PDB_title:crystal structure of the light-harvesting complex II 2 (B00-850) from Rhodospirillum molischianum
PDB_Identifier:1LGH
N_terminal:in
number_tmsegs:1
tm_segments:A.16,40
sequence:SNPKDDYKIWLVINPSTWLPVIWIVATVVAIAVHAAVLAAPGSNWIALGAAKSAAK*
>3D_helix;53
protein_name:Light Harvesting Complex. beta chain (R. acidophila)
file_name:LHC-Racido-B.txt
entry_date:8jun98
refman_number:6653
endnote_number:
author:McDermott,G., Prince,S.M., Freer,A.A., Hawthornthwaite-Lawless,A.M., Papiz,M.Z., Cogdell,R.J., Issacs,N.W. (1995) [Crystal structure of an integral membrane light-harvesting complex from photosynthetic bacteria] {Nature, 374, 517-521}
remarks:Chain B of PDB file. Sequence from Swiss-Prot. TMhelices=1.
pir_number:S07673
Swiss_Prot_entry:LHB5_RHOAC
Swiss_Prot_number:P26790
Swiss_Prot_gene:
Swiss_Prot_name:Light-harvesting protein B-800/850, beta chain
PDB_title:integral membrane peripheral light harvesting complex from Rhodopseudomonas acidophila strain 10050
PDB_Identifier:1KZU
N_terminal:in
number_tmsegs:1
tm_segments:A.11,36
sequence:ATLTAEQSEELHKYVIDGTRVFLGLALVAHFLAFSATPWLH*
>3D_helix;55
protein_name:Light Harvesting Complex. beta chain (R. molischianum)
file_name:LHC-Rmolis-B.txt
entry_date:8jun98
refman_number:8540
endnote_number:
author:Koepke,J., Hu,X., Muenke,C., Schulten,K., Michel,H. (1996) [The crystal structure of the light-harvesting complex II (B800-850) from Rhodospirillum molischianum] {Structure, 4, 581-597}
remarks:Chain B in PDB file. Sequence from Swiss-Prot. TMhelices=1.
pir_number:B49290
Swiss_Prot_entry:LHB1_RHOMO
Swiss_Prot_number:P95673
Swiss_Prot_gene:B1
Swiss_Prot_name:Light-harvesting protein B-800/850, beta 1 chain
PDB_title:crystal structure of the light-harvesting complex II 2 (B00-850) from Rhodospirillum molischianum
PDB_Identifier:1LGH
N_terminal:in
number_tmsegs:1
tm_segments:A.10,41
sequence:AERSLSGLTEEEAIAVHDQFKTTFSAFIILAAVAHVLVWVWKPWF*
>3D_helix;86
protein_name:M13 coat protein
file_name:m13.txt
entry_date:28jun01
refman_number:19804
endnote_number:
author:Bashtovy,D. Marsh,D., Hemminga,M.A., Páli,T. (2001) [Constrained modeling of spin-labeled major coat protein mutants from M13 bacteriophage in a phospholipid bilayer] {Protein Sci, 10, 979-987}
remarks:S-P differs from PDB sequence at two residue positions. Sequence from PDB. TMhelices=1.
pir_number:
Swiss_Prot_entry:COAB_BPZJ2
Swiss_Prot_number:P03618
Swiss_Prot_gene:VIII
Swiss_Prot_name:Coat protein B
PDB_title:M13 major coat protein
PDB_Identifier:2CPB,2CPS
N_terminal:out
number_tmsegs:1
tm_segments:A.24,45
sequence:AEGDDPAKAAFNSLQASATEYIGYAWAMVVVIVGATIGIKLFKKFTSKAS*
>3D_helix;259
protein_name:Metalloenzyme pMMO subunit pmoA (Methylococcus capsulatus)
file_name:Metalloenzyme_pMMO_subunit_pmoA_Methyl_capsul.txt
entry_date:07feb07
refman_number:
endnote_number:22072
author:Lieberman, R.L., Rosenzweig, A.C. (2005) [Crystal structure of a membrane-bound metalloenzyme that catalyses the biological oxidation of methane] {Nature, 434, 177-182}
remarks:Homotrimer. Sequence for monomer from Swiss-Prot. This corresponds to chain B in PDB file. 2 TM segments, F and G are not a full TM helices. TM segment F is probably not a helix and TM segment G is only a partial helix.
pir_number:
Swiss_Prot_entry:Q607G3_METCA
Swiss_Prot_number:Q607G3
Swiss_Prot_gene:pmoA
Swiss_Prot_name:Methane monooxygenase, A subunit
PDB_title:Crystal structure of particulate methane monooxygenase
PDB_Identifier:1YEW
N_terminal:in
number_tmsegs:7
tm_segments:A.11,43;B.59,79;C.88,105;D.125,136;E.141,167;F.193,216;G.220,242
sequence:MSAAQSAVRSHAEAVQVSRTIDWMALFVVFFVIVGSYHIHAMLTMGDWDFWSDWKDRRLWVTVTPIVLVTFPAAVQSYLWERYRLPWGATVCVLGLLLGEWINRYFNFWGWTYFPINFVFPASLVPGAIILDTVLMLSGSYLFTAIVGAMGWGLIFYPGNWPIIAPLHVPVEYNGMLMSIADIQGYNYVRTGTPEYIRMVEKGTLRTFGKDVAPVSAFFSAFMSILIYFMWHFIGRWFSNERFLQST*
>3D_helix;260
protein_name:Metalloenzyme pMMO subunit pmoB (Methylococcus capsulatus)
file_name:Metalloenzyme_pMMO_subunit pmoB_Methyl_capsul.txt
entry_date:07feb07
refman_number:
endnote_number:22072
author:Lieberman, R.L., Rosenzweig, A.C. (2005) [Crystal structure of a membrane-bound metalloenzyme that catalyses the biological oxidation of methane] {Nature, 434, 177-182}
remarks:Homotrimer. Sequence for monomer from Swiss-Prot. This corresponds to chain A in PDB file.
pir_number:B57266
Swiss_Prot_entry:Q49104_METCA
Swiss_Prot_number:Q49104
Swiss_Prot_gene:pmoB
Swiss_Prot_name:Particulate methane monooxygenase 45 kDa subunit [Precursor]
PDB_title:Crystal structure of particulate methane monooxygenase
PDB_Identifier:1YEW
N_terminal:out
number_tmsegs:2
tm_segments:A.185,207;B.232,256
sequence:MKTIKDRIAKWSAIGLLSAVAATAFYAPSASAHGEKSQAAFMRMRTIHWYDLSWSKEKVKINETVEIKGKFHVFEGWPETVDEPDVAFLNVGMPGPVFIRKESYIGGQLVPRSVRLEIGKTYDFRVVLKARRPGDWHVHTMMNVQGGGPIIGPGKWITVEGSMSEFRNPVTTLTGQTVDLENYNEGNTYFWHAFWFAIGVAWIGYWSRRPIFIPRLLMVDAGRADELVSATDRKVAMGFLAATILIVVMAMSSANSKYPITIPLQAGTMRGMKPLELPAPTVSVKVEDATYRVPGRAMRMKLTITNHGNSPIRLGEFYTASVRFLDSDVYKDTTGYPEDLLAEDGLSVSDNSPLAPGETRTVDVTASDAAWEVYRLSDIIYDPDSRFAGLLFFFDATGNRQVVQIDAPLIPSFM*
>3D_helix;261
protein_name:Metalloenzyme pMMO subunit pmoC (Methylococcus capsulatus)
file_name:Metalloenzyme_pMMO_subunit pmoC_Methyl_capsul.txt
entry_date:07feb07
refman_number:
endnote_number:22072
author:Lieberman, R.L., Rosenzweig, A.C. (2005) [Crystal structure of a membrane-bound metalloenzyme that catalyses the biological oxidation of methane] {Nature, 434, 177-182}
remarks:Homotrimer. Sequence for monomer from Swiss-Prot. This corresponds to chain C in PDB file.
pir_number:
Swiss_Prot_entry:O05111_METCA
Swiss_Prot_number:O05111
Swiss_Prot_gene:pmoC2
Swiss_Prot_name:Methane monooxygenase subunit C2
PDB_title:Crystal structure of particulate methane monooxygenase
PDB_Identifier:1YEW
N_terminal:in
number_tmsegs:5
tm_segments:A.51,76;B.90,113;C.126,149;D.171,198;E.202,249
sequence:MHETKQGGEKRFTGAICRCSHRYNSMEVKMAATTIGGAAAAEAPLLDKKWLTFALAIYTVFYLWVRWYEGVYGWSAGLDSFAPEFETYWMNFLYTEIVLEIVTASILWGYLWKTRDRNLAALTPREELRRNFTHLVWLVAYAWAIYWGASYFTEQDGTWHQTIVRDTDFTPSHIIEFYLSYPIYIITGFAAFIYAKTRLPFFAKGISLPYLVLVVGPFMILPNVGLNEWGHTFWFMEELFVAPLHYGFVIFGWLALAVMGTLTQTFYSFAQGGLGQSLCEAVDEGLIAK*
>3D_helix;224
protein_name:Mito. Respiratory Complex protein CybL (pig)
file_name:Mito_respir_complex_CybL_pig.txt
entry_date:26jul05
refman_number:21880
endnote_number:
author:Sun,F., Huo,X., Zhai,Y., Wang,A., Xu,J., Su,D., Bartlam,M., Rao,Z. (2005) [Crystal structure of mitochondrial respiratory membrane protein complex II] {Cell, 121, 1043-1057}
remarks:Sequence from PDB,chain C. PDB sequence starts from res#4. Assigned TM segments account for this. TM helices correspond to 2L,4L and 5L in the article. No Swiss-Prot file for this protein. Matrix=in.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Crystal Structure of Mitochondrial Respiratory Complex II from porcine heart at 2.4 Angstroms
PDB_Identifier:1ZOY
N_terminal:in
number_tmsegs:3
tm_segments:A.34,62;B.81,109;C.116,137
sequence:LGTTAKEEMERFWNKNLGSNRPLSPHITIYRWSLPMAMSICHRGTGIALSAGVSLFGLSALLLPGNFESHLELVKSLCLGPTLIYTAKFGIVFPLMYHTWNGIRHLIWDLGKGLTIPQLTQSGVVVLILTVLSSVGLAAM*
>3D_helix;225
protein_name:Mito. Respiratory protein CybS (pig)
file_name:Mito_respir_complex_CybS_pig.txt
entry_date:26jul05
refman_number:21880
endnote_number:
author:Sun,F., Huo,X., Zhai,Y., Wang,A., Xu,J., Su,D., Bartlam,M., Rao,Z. (2005) [Crystal structure of mitochondrial respiratory membrane protein complex II] {Cell, 121, 1043-1057}
remarks:Sequence from PDB, chain D. PDB sequence starts with res#34. Assigned TM segments account for this. TM helices correspond to 1S,2S and 3S in the article. No Swiss-Prot file for this protein. Matrix=in.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Crystal Structure of Mitochondrial Respiratory Complex II from porcine heart at 2.4 Angstroms
PDB_Identifier:1ZOY
N_terminal:in
number_tmsegs:3
tm_segments:A.4,29;B.34,58;C.65,88
sequence:ASSKAASLHWTGERVVSVLLLGLLPAAYLNPCSAMDYSLAAALTLHGHWGIGQVVTDYVRGDALQKAAKAGLLALSAFTFAGLCYFNYHDVGICKAVAMLWKL*
>3D_helix;69
protein_name:MscL mechanosensor channel monomer (M. tuberculosis)
file_name:MscL.txt
entry_date:23apr99
refman_number:16898
endnote_number:
author:Chang,G., Spencer,R.H., Lee,A.T., Barclay,M.T., Rees,D.C. (1998) [Structure of the MscL homolog from Mycobacterium tuberculosis: A gated mechanosensitive ion channel] {Science, 282, 2220-2226}
remarks:Biological unit is a pentamer. Sequence from Swiss-Prot. TMhelices=2.
pir_number:E70821
Swiss_Prot_entry:MSCL_MYCTU
Swiss_Prot_number:O53898
Swiss_Prot_gene:Large-conductance mechanosensitive channel
Swiss_Prot_name:MSCL,RV0985C,MT1013,MTV044.13C
PDB_title:mechanosensitive ion channel
PDB_Identifier:1MSL
N_terminal:in
number_tmsegs:2
tm_segments:A.15,39;B.71,89
sequence:MLKGFKEFLARGNIVDLAVAVVIGTAFTALVTKFTDSIITPLINRIGVNAQSDVGILRIGIGGGQTIDLNVLLSAAINFFLIAFAVYFLVVLPYNTLRKKGEVEQPGDTQVVLLTEIRDLLAQTNGDSPGRHGGRGTPSPTDGPRASTESQ*
>3D_helix;119
protein_name:MscS mechanosensor channel monomer (E. coli)
file_name:MscS.txt
entry_date:26nov02
refman_number:20684
endnote_number:
author:Bass,R.B., Strop,P., Barclay,M., Rees,D.C. (2002) [Crystal structure of Escherichia coli McsS, a voltage-modulated and mechanosensitive channel] {Science, 298, 1582-1587}
remarks:Biological unit is a heptamer. Sequence from Swiss-Prot. PDB sequence is truncated relative to Swiss-Prot. TMhelices=3.
pir_number:QQEC4
Swiss_Prot_entry:MSCS_ECOLI
Swiss_Prot_number:P0C0S1
Swiss_Prot_gene:mscS,B2924
Swiss_Prot_name:small-conductance mechanosensitive channel
PDB_title:mechanosensitive channel protein
PDB_Identifier:1MXM
N_terminal:out
number_tmsegs:3
tm_segments:A.29,57;B.68,91;C.96,127
sequence:MEDLNVVDSINGAGSWLVANQALLLSYAVNIVAALAIIIVGLIIARMISNAVNRLMISRKIDATVADFLSALVRYGIIAFTLIAALGRVGVQTASVIAVLGAAGLAVGLALQGSLSNLAAGVLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSREPVRRNEFIIGVAYDSDIDQVKQILTNIIQSEDRILKDREMTVRLNELGASSINFVVRVWSNSGDLQNVYWDVLERIKREFDAAGISFPYPQMDVNFKRVKEDKAA*
>3D_helix;122
protein_name:MthK K+ channel* (Methanobacterium thermoautotrophicum)
file_name:MthK.txt
entry_date:17July02
refman_number:20342
endnote_number:
author:Jiang,Y.X., Lee,A., Chen,J.Y., Cadene,M., Chait,B.T., MacKinnon,R. (2002) [Crystal structure and mechanism of a calcium-gated potassium channel] {Nature, 417, 515-522}
remarks:*The 'tmsegs' marked below include the so-called pore-helix (P) associated with the pore region. 'tmseg' B corresponds to P. Sequence from Swiss-Prot. TMhelices=2.
pir_number:H69069
Swiss_Prot_entry:MTHK_METTH
Swiss_Prot_number:O27564
Swiss_Prot_gene:MTHK,MTH1520
Swiss_Prot_name:Calcium-gated potassium channel MthK
PDB_title:Potassium channel related protein
PDB_Identifier:1LNQ
N_terminal:in
number_tmsegs:3
tm_segments:A.19,40;B.49,57;C.72,95
sequence:MVLVIEIIRKHLPRVLKVPATRILLLVLAVIIYGTAGFHFIEGESWTVSLYWTFVTIATVGYGDSPSTPLGMYFTVTLIVLGIGTFAVAVERLLEFLINREQMKLMGLIDVAKSRHVVICGWSESTLECLRELRGSEVFVLAEDENVRKKVLRSGANFVHGDPTRVSDLEKANVRGARAVIVDLESDSETIHCILGIRKIDESVRIIAEAERYENIEQLRMAGADQVISPFVISGRLMSRSIDDGYEAMFVQDVLAEESTRRMVEVPIPEGSKLEGVSVLDADIHDVTGVIIIGVGRGDELIIDPPRDYSFRAGDIILGIGKPEEIERLKNYISA*
>3D_helix;233
protein_name:multidrug resistance protein EmrD (E.coli)
file_name:EmrD_Ecoli.txt
entry_date:23jul06
refman_number:
endnote_number:22063
author:Yin,Y., He,X., Szewczyk,P., Nguyen,T., Chang,G. (2006) [Structure of the multidrug transporter EmrD from Escherichia coli] {Science, 312, 741-744}
remarks:Sequence from Swiss-Prot
pir_number:
Swiss_Prot_entry:EMRD_ECOLI
Swiss_Prot_number:P31442
Swiss_Prot_gene:emrD
Swiss_Prot_name:Multidrug resistance protein D
PDB_title:Structure of the Multidrug Transporter EmrD from Escherichia coli
PDB_Identifier:2GFP
N_terminal:in
number_tmsegs:12
tm_segments:A.9,35;B.43,68;C.72,91;D.99,125;E.133,155;F.161,178;G.203,230;H.236,261;I.267,285;J.290,312;K.320,349;L.356,378
sequence:MKRQRNVNLLLMLVLLVAVGQMAQTIYIPAIADMARDLNVREGAVQSVMGAYLLTYGVSQLFYGPISDRVGRRPVILVGMSIFMLATLVAVTTSSLTVLIAASAMQGMGTGVGGVMARTLPRDLYERTQLRHANSLLNMGILVSPLLAPLIGGLLDTMWNWRACYLFLLVLCAGVTFSMARWMPETRPVDAPRTRLLTSYKTLFGNSGFNCYLLMLIGGLAGIAAFEACSGVLMGAVLGLSSMTVSILFILPIPAAFFGAWFAGRPNKRFSTLMWQSVICCLLAGLLMWIPDWFGVMNVWTLLVPAALFFFGAGMLFPLATSGAMEPFPFLAGTAGALVGGLQNIGSGVLASLSAMLPQTGQGSLGLLMTLMGLLIVLCWLPLATRMSHQGQPV*
>3D_helix;226
protein_name:Na+_H+_antiporter (E. coli)
file_name:Na+_H+_antiporter_Ecoli.txt
entry_date:26jul05
refman_number:21873
endnote_number:
author:Hunte,C., Screpanti,E., Venturi,M., Rimon,A., Padan,E., Michel,H. (2005) [Structure of a Na+/H+ antiporter and insights into mechanism of action and regulation by pH] {Nature, 435, 1197-1202}
remarks:Sequence from PDB. TM segment D and K consists two short alpha-Helices
pir_number:C64722
Swiss_Prot_entry:NHAA_ECOLI
Swiss_Prot_number:P13738
Swiss_Prot_gene:nhaA
Swiss_Prot_name:Na(+)/H(+) antiporter 1
PDB_title:Crystal structure of the Na+/H+ antiporter NhaA
PDB_Identifier:1ZCD
N_terminal:in
number_tmsegs:12
tm_segments:A.12,30;B.59,85;C.95,116;D.121,143;E.150,175;F.182,200;G.205,218;H.223,236;I.247,271;J.290,311;K.327,350;L.357,382
sequence:MKHLHRFFSSDASGGIILIIAAILAMIMANSGATSGWYHDFLETPVQLRVGSLEINKNMLLWINDALMAVFFLLVGLEVKRELMQGSLASLRQAAFPVIAAIGGMIVPALLYLAFNYADPITREGWAIPAATDIAFALGVLALLGSRVPLALKIFLMALAIIDDLGAIIIIALFYTNDLSMASLGVAAVAIAVLAVLNLCGARRTGVYILVGVVLWTAVLKSGVHATLAGVIVGFFIPLKEKHGRSPAKRLEHVLHPWVAYLILPLFAFANAGVSLQGVTLDGLTSILPLGIIAGLLIGKPLGISLFCWLALRLKLAHLPEGTTYQQIMVVGILCGIGFTMSIFIASLAFGSVDPELINWAKLGILVGSISSAVIGYSWLRVRLRPSV*
>3D_helix;249
protein_name:NaK channel, Na+ complex (Bacillus cereus)
file_name:NaK_channel_Na+_Bcereus.txt
entry_date:29jan07
refman_number:
endnote_number:21983
author:Shi,N., Ye,S., Alam,A., Chen,L., Jiang,Y.(2006) [Atomic structure of a Na+- and K+-conducting channel] {Nature, 440, 570-574}
remarks:Tetrameric form. Sequence for monomer from Swiss_Prot.
pir_number:
Swiss_Prot_entry:Q81HW2_BACCR
Swiss_Prot_number:Q81HW2
Swiss_Prot_gene:BC_0669
Swiss_Prot_name:Potassium channel protein
PDB_title:Na+ complex of the NaK Channel
PDB_Identifier:2AHY
N_terminal:in
number_tmsegs:2
tm_segments:A.22,44;B.74,102
sequence:MLSFLLTLKRMLRACLRAWKDKEFQVLFVLTILTLISGTIFYSTVEGLRPIDALYFSVVTLTTVGDGNFSPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNVQLPSILSNRKKE*
>3D_helix;163
protein_name:nitrate reductase A, NarI membrane anchor (E. coli)
file_name:NarI.txt
entry_date:23dec03
refman_number:21146
endnote_number:
author:Bertero,M.G., Rothery,R.A., Palak,M., Hou,C., Lim,D., Blasco,F., Weiner,J.H., Strynadka,N.C.J. (2003) [Insights into the respiratory electron transfer pathway from the structure of nitrate reductase A] {Nature Struct Biol, 10, 681-687}
remarks:Sequence from Swiss-Prot. TMhelices=5.
pir_number:C27737, RDECNG
Swiss_Prot_entry:NARI_ECOLI
Swiss_Prot_number:P11350
Swiss_Prot_gene:NARI,CHLI,B1227
Swiss_Prot_name:Respiratory nitrate reductase 1 gamma chain
PDB_title:Respiratory Nitrate Reductase 1 gamma Chain
PDB_Identifier:1Q16
N_terminal:out
number_tmsegs:5
tm_segments:A.2,28;B.49,72;C.82,119;D.122,149;E.182,200
sequence:MQFLNMFFFDIYPYIAGAVFLIGSWLRYDYGQYTWRAASSQMLDRKGMNLASNLFHIGILGIFVGHFFGMLTPHWMYEAWLPIEVKQKMAMFAGGASGVLCLIGGVLLLKRRLFSPRVRATTTGADILILSLLVIQCALGLLTIPFSAQHMDGSEMMKLVGWAQSVVTFHGGASQHLDGVAFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQLVRARH*
>3D_helix;235
protein_name:NrfH (Desulfovibrio vulgaris)
file_name:NfrH_Desul_vulgaris.txt
entry_date:18dec06
refman_number:
endnote_number:22330
author:Rodrigues,M.L., Oliveira,T.F., Pereira,I.A.C., Archer,M. (2006) [X-ray structure of the membrane-bound cytochrome c quinol dehydrogenase NrfH reveals novel haem coordination] {EMBO J, 25, 5951-5960}
remarks:Sequence from PDB, chain C.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:CRYSTAL STRUCTURE OF CYTOCHROME C NITRITE REDUCTASE NRFHA COMPLEX FROM DESULFOVIBRIO VULGARIS
PDB_Identifier:2J7A
N_terminal:in
number_tmsegs:1
tm_segments:A.14,38
sequence:MSEEKSRNGPARLKLVLGGATLGVVALATVAFGMKYTDQRPFCTSCHIMNPVGVTHKLSGHANISCNDCHAPHNLLAKLPFKAIAGARDVYMNTLGHPGDLILAGMETKEVVNANCKACHTMTNVEVASMEAKKYCTDCHRNVQHMRMKPISTREVADE*
>3D_helix;232
protein_name:phospholamban pentamer (human)
file_name:phospholamban_human.txt
entry_date:11jul06
refman_number:
endnote_number:21386
author:Oxenoid,K., Chou,J.J. (2005) [The structure of phospholamban pentamer reveals a channel-like architecture in membranes] {Proc Natl Acad Sci USA, 102, 10870-10875}
remarks:Sequence from PDB. Sequence is for one monomer in pentamer. Also see 1FJK, 1FJP (cardiac phospholamban from pig)
pir_number:A40424
Swiss_Prot_entry:P26678
Swiss_Prot_number:PPLA_HUMAN
Swiss_Prot_gene:PLN
Swiss_Prot_name:Cardiac phospholamban
PDB_title:NMR Structure of Unphosphorylated Human Phospholamban Pentamer
PDB_Identifier:1ZLL
N_terminal:in
number_tmsegs:1
tm_segments:A.23,52
sequence:MEKVQYLTRSAIRRASTIEMPQQARQKLQNLFINFCLILICLLLICIIVMLL*
>3D_helix;98
protein_name:photosystem I A subunit (Synechococcus elongatus)
file_name:PS_I_PsaA.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma=in. Sequence from Swiss-Prot. TMhelices=11.
pir_number:
Swiss_Prot_entry:PSAA_SYNEL
Swiss_Prot_number:P25896
Swiss_Prot_gene:PSAA,TLR0731
Swiss_Prot_name:Photosystem I P700 chlorophyll A apoprotein A1
PDB_title:PHOTOSYSTEM I P700 CHLOROPHYLL A APOPROTEIN A1
PDB_Identifier:1JB0
N_terminal:in
number_tmsegs:11
tm_segments:A.65,97;B.155,181;C.193,227;D.294,311;E.352,376;F.387,418;G.437,468;H.533,558;I.591,620;J.670,691;K.724,755
sequence:MTISPPEREPKVRVVVDNDPVPTSFEKWAKPGHFDRTLARGPQTTTWIWNLHALAHDFDTHTSDLEDISRKIFSAHFGHLAVVFIWLSGMYFHGAKFSNYEAWLADPTGIKPSAQVVWPIVGQGILNGDVGGGFHGIQITSGLFQLWRASGITNEFQLYCTAIGGLVMAGLMLFAGWFHYHKRAPKLEWFQNVESMLNHHLAGLLGLGSLAWAGHQIHVSLPINKLLDAGVAAKDIPLPHEFILNPSLMAELYPKVDWGFFSGVIPFFTFNWAAYSDFLTFNGGLNPVTGGLWLSDTAHHHLAIAVLFIIAGHMYRTNWGIGHSLKEILEAHKGPFTGAGHKGLYEVLTTSWHAQLAINLAMMGSLSIIVAQHMYAMPPYPYLATDYPTQLSLFTHHMWIGGFLVVGGAAHGAIFMVRDYDPAMNQNNVLDRVLRHRDAIISHLNWVCIFLGFHSFGLYVHNDTMRAFGRPQDMFSDTGIQLQPVFAQWVQNLHTLAPGGTAPNAAATASVAFGGDVVAVGGKVAMMPIVLGTADFMVHHIHAFTIHVTVLILLKGVLFARSSRLIPDKANLGFRFPCDGPGRGGTCQVSGWDHVFLGLFWMYNCISVVIFHFSWKMQSDVWGTVAPDGTVSHITGGNFAQSAITINGWLRDFLWAQASQVIGSYGSALSAYGLLFLGAHFIWAFSLMFLFSGRGYWQELIESIVWAHNKLKVAPAIQPRALSIIQGRAVGVAHYLLGGIATTWAFFLARIISVG*
>3D_helix;99
protein_name:photosystem I B subunit (Synechococcus elongatus)
file_name:PS_I_PsaB.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma=in. Sequence from Swiss-Prot. TMhelices=11.
pir_number:
Swiss_Prot_entry:PSAB_SYNEL
Swiss_Prot_number:P25897
Swiss_Prot_gene:PSAB,TLR0732
Swiss_Prot_name:Photosystem I P700 chlorophyll A apoprotein A2
PDB_title:PHOTOSYSTEM I P700 CHLOROPHYLL A APOPROTEIN A2
PDB_Identifier:1JB0
N_terminal:in
number_tmsegs:11
tm_segments:A.38,70;B.131,154;C.170,201;D.269,286;E.333,357;F.368,399;G.418,448;H.520,545;I.578,609;J.650,671;K.707,738
sequence:ATKFPKFSQDLAQDPTTRRIWYAIAMAHDFESHDGMTEENLYQKIFASHFGHLAIIFLWVSGSLFHVAWQGNFEQWVQDPVNTRPIAHAIWDPQFGKAAVDAFTQAGASNPVDIAYSGVYHWWYTIGMRTNGDLYQGAIFLLILASLALFAGWLHLQPKFRPSLSWFKNAESRLNHHLAGLFGVSSLAWAGHLIHVAIPESRGQHVGWDNFLSTMPHPAGLAPFFTGNWGVYAQNPDTASHVFGTAQGAGTAILTFLGGFHPQTESLWLTDMAHHHLAIAVLFIVAGHMYRTQFGIGHSIKEMMDAKDFFGTKVEGPFNMPHQGIYETYNNSLHFQLGWHLACLGVITSLVAQHMYSLPPYAFIAQDHTTMAALYTHHQYIAGFLMVGAFAHGAIFLVRDYDPAQNKGNVLDRVLQHKEAIISHLSWVSLFLGFHTLGLYVHNDVVVAFGTPEKQILIEPVFAQFIQAAHGKLLYGFDTLLSNPDSIASTAWPNYGNVWLPGWLDAINSGTNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALDARGSKLMPDKKDFGYAFPCDGPGRGGTCDISAWDAFYLAMFWMLNTIGWVTFYWHWKHLGVWEGNVAQFNESSTYLMGWLRDYLWLNSSQLINGYNPFGTNNLSVWAWMFLFGHLVWATGFMFLISWRGYWQELIETLVWAHERTPLANLVRWKDKPVALSIVQARLVGLAHFSVGYILTYAAFLIASTAAKFG*
>3D_helix;100
protein_name:photosystem I F subunit* (Synechococcus elongatus)
file_name:PS_I_PsaF.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:*Only helix A is transmembrane. Helix B does not cross the membrane, but is buried in it with a kink so that it enters and leaves from the same side (stromal) of the membrane. Stroma = in. Sequence is the processed sequence from Swiss-Prot (23 AA signal sequence removed).
pir_number:
Swiss_Prot_entry:PSAF_SYNEL
Swiss_Prot_number:P0A401
Swiss_Prot_gene:PSAF,TLR2411
Swiss_Prot_name:Photosystem I reaction centre subunit III [Precursor]
PDB_title:PHOTOSYSTEM 1 REACTION CENTRE SUBUNIT III
PDB_Identifier:1JB0
N_terminal:out
number_tmsegs:2
tm_segments:A.64,89;B.104,126
sequence:DVAGLVPCKDSPAFQKRAAAAVNTTADPASGQKRFERYSQALCGEDGLPHLVVDGRLSRAGDFLIPSVLFLYIAGWIGWVGRAYLIAVRNSGEANEKEIIIDVPLAIKCMLTGFAWPLAALKELASGELTAKDNEITVSPR*
>3D_helix;101
protein_name:photosystem I I subunit(Synechococcus elongatus)
file_name:PS_I_PsaI.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma=in. Sequence from Swiss-Prot. TMhelices=1.
pir_number:
Swiss_Prot_entry:PSAI_SYNEL
Swiss_Prot_number:P25900
Swiss_Prot_gene:PSAI,TSR2405
Swiss_Prot_name:Photosystem I reaction center subunit VIII
PDB_title:PHOTOSYSTEM 1 REACTION CENTRE SUBUNIT VIII
PDB_Identifier:1JB0
N_terminal:out
number_tmsegs:1
tm_segments:A.10,35
sequence:MMGSYAASFLPWIFIPVVCWLMPTVVMGLLFLYIEGEA*
>3D_helix;102
protein_name:photosystem I J subunit (Synechococcus elongatus)
file_name:PS_I_PsaJ.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma=in. Sequence from Swiss-Prot. TMhelices=1.
pir_number:
Swiss_Prot_entry:PSAJ_SYNEL
Swiss_Prot_number:P25901
Swiss_Prot_gene:PSAJ,TSR2412
Swiss_Prot_name:Photosystem I reaction center subunit IX
PDB_title:PHOTOSYSTEM 1 REACTION CENTRE SUBUNIT IX
PDB_Identifier:1JB0
N_terminal:out
number_tmsegs:1
tm_segments:A.11,31
sequence:MKHFLTYLSTAPVLAAIWMTITAGILIEFNRFYPDLLFHPL*
>3D_helix;103
protein_name:photosystem I K subunit (Synechococcus elongatus)
file_name:PS_I_PsaK.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma=in. Sequence is unprocessed sequence from Swiss-Prot, which corresponds to AA numbering in PDB file. TMhelices=2.
pir_number:
Swiss_Prot_entry:PSAK_SYNEL
Swiss_Prot_number:P20453
Swiss_Prot_gene:PSAK,TSR2273
Swiss_Prot_name:Photosystem I reaction center subunit psaK [Precursor]
PDB_title:PHOTOSYSTEM 1 REACTION CENTRE SUBUNIT X
PDB_Identifier:1JB0
N_terminal:out
number_tmsegs:2
tm_segments:A.20,36;B.55,77
sequence:MVLATLPDTTWTPSVGLVVILCNLFAIALGRYAIQSRGKGPGLPIALPALFEGFGLPELLATTSFGHLLAAGVVSGLQYAGAL*
>3D_helix;104
protein_name:photosystem I L subunit (Synechococcus elongatus)
file_name:PS_I_PsaL.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma = in. Sequence is from Swiss-Prot, with Met1 removed in order to agree with AA numbering in PDB file. TMhelices=3.
pir_number:
Swiss_Prot_entry:PSAL_SYNEN
Swiss_Prot_number:P25902
Swiss_Prot_gene:PSAL,TLR2404
Swiss_Prot_name:Photosystem I subunit XI
PDB_title:PHOTOSYSTEM 1 REACTION CENTRE SUBUNIT XI
PDB_Identifier:1JB0
N_terminal:in
number_tmsegs:3
tm_segments:A.43,65;B.74,99;C.114,140
sequence:AEELVKPYNGDPFVGHLSTPISDSGLVKTFIGNLPAYRQGLSPILRGLEVGMAHGYFLIGPWVKLGPLRDSDVANLGGLISGIALILVATACLAAYGLVSFQKGGSSSDPLKTSEGWSQFTAGFFVGAMGSAFVAFFLLENFLVVDGIMTGLFN*
>3D_helix;105
protein_name:photosystem I M subunit (Synechococcus elongatus)
file_name:PS_I_PsaM.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma=in. Sequence from Swiss-Prot. TMhelices=1.
pir_number:
Swiss_Prot_entry:PSAM_SYNEL
Swiss_Prot_number:P25903
Swiss_Prot_gene:PSAM,TSR0197
Swiss_Prot_name:Photosystem I reaction centre subunit XII
PDB_title:PHOTOSYSTEM 1 REACTION CENTRE SUBUNIT XII
PDB_Identifier:1JB0
N_terminal:out
number_tmsegs:1
tm_segments:A.6,30
sequence:MALTDTQVYVALVIALLPAVLAFRLSTELYK*
>3D_helix;106
protein_name:photosystem I X subunit (Synechococcus elongatus)
file_name:PS_I_PsaX.txt
entry_date:6jul01
refman_number:19835,16396,19598,16394,13836,20928
endnote_number:
author:Jordan,P., Fromme,P., Witt,H.T., Klukas,O., Saenger,W., Krauss,N. (2001) [Three-dimensional structure of cyanobacterial photosystem I at 2.5 Å resolution] {Nature, 411, 909-917}
remarks:Stroma=in. Sequence from TrEMBL. TMhelices=1.
pir_number:
Swiss_Prot_entry:Q8DKP6
Swiss_Prot_number:Q8DKP6
Swiss_Prot_gene:TSR0813
Swiss_Prot_name:Photosystem I 4.8K protein
PDB_title:X PHOTOSYSTEM I SUBUNIT PSAX
PDB_Identifier:1JB0
N_terminal:in
number_tmsegs:1
tm_segments:A.11,31
sequence:ATKSAKPTYAFRTFWAVLLLAINFLVAAYYFAAAA*
>3D_helix;200
protein_name:photosystem II core light harvesting protein (Thermosynechococcus elongatus)
file_name:PSII_CP47_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain B in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:Q8DIQ1_SYNEL
Swiss_Prot_number:Q8DIQ1
Swiss_Prot_gene:psbB
Swiss_Prot_name:Photosystem II core light harvesting protein
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:6
tm_segments:A.16,44;B.93,112;C.135,155;D.196,214;E.236,258;F.447,472
sequence:MGLPWYRVHTVLINDPGRLIAAHLMHTALVAGWAGSMALYELATFDPSDPVLNPMWRQGMFVLPFMARLGVTGSWSGWSITGETGIDPGFWSFEGVALAHIVLSGLLFLAACWHWVYWDLELFRDPRTGEPALDLPKMFGIHLFLAGLLCFGFGAFHLTGLFGPGMWVSDPYGLTGSVQPVAPEWGPDGFNPYNPGGVVAHHIAAGIVGIIAGLFHILVRPPQRLYKALRMGNIETVLSSSIAAVFFAAFVVAGTMWYGSATTPIELFGPTRYQWDSSYFQQEINRRVQASLASGATLEEAWSAIPEKLAFYDYIGNNPAKGGLFRTGPMNKGDGIAQAWKGHAVFRNKEGEELFVRRMPAFFESFPVILTDKNGVVKADIPFRRAESKYSFEQQGVTVSFYGGELNGQTFTDPPTVKSYARKAIFGEIFEFDTETLNSDGIFRTSPRGWFTFAHAVFALLFFFGHIWHGARTLFRDVFSGIDPELSPEQVEWGFYQKVGDVTTRRKEAV*
>3D_helix;201
protein_name:Photosystem II CP43 protein (Thermosynechococcus elongatus)
file_name:PSII_CP43_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain C in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:Q8DIF8_SYNEL
Swiss_Prot_number:Q8DIF8
Swiss_Prot_gene:psbC
Swiss_Prot_name:Photosystem II CP43 protein
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:6
tm_segments:A.49,74;B.111,134;C.154,177;D.231,253;E.268,291;F.423,446
sequence:MKTLSSQKRYSPVVTLSSNSIFATNRDQESSGFAWWAGNARLINLSGKLLGAHVAHAGLIVFWAGAMTLFELAHFIPEKPMYEQGLILIPHIATLGWGVGPGGEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILGFHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGDVRVITNPTLDPRVIFGYLLKSPFGGEGWIVSVNNLEDVVGGHIWIGLICIAGGIWHILTTPFGWARRAFIWSGEAYLSYSLGALSMMGFIATCFVWFNNTVYPSEFYGPTGPEASQAQAMTFLIRDQKLGANVGSAQGPTGLGKYLMRSPTGEIIFGGETMRFWDFRGPWLEPLRGPNGLDLNKIKNDIQPWQERRAAEYMTHAPLGSLNSVGGVATEINSVNFVSPRSWLATSHFVLAFFFLVGHLWHAGRARAAAAGFEKGIDRESEPVLSMPSLD*
>3D_helix;203
protein_name:Photosystem II Cytochrome b559 alpha subunit (Thermosynechococcus elongatus)
file_name:PSII_cyt.b559-alpha_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain E in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBE_SYNEL
Swiss_Prot_number:Q8DIP0
Swiss_Prot_gene:psbE
Swiss_Prot_name:Cytochrome b559 alpha subunit
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:1
tm_segments:A.16,38
sequence:AGTTGERPFSDIITSVRYWVIHSITIPALFIAGWLFVSTGLAYDVFGTPRPDSYYAQEQRSIPLVTDRFEAKQQVETFLEQLK*
>3D_helix;204
protein_name:Photosystem II Cytochrome b559 beta subunit(Thermosynechococcus elongatus)
file_name:PSII_cyt.b559-beta_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain F in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBF_SYNEL
Swiss_Prot_number:Q8DIN9
Swiss_Prot_gene:psbF
Swiss_Prot_name:Cytochrome b559 subunit beta
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:1
tm_segments:A.16,39
sequence:MTSNTPNQEPVSYPIFTVRWVAVHTLAVPTIFFLGAIAAMQFIQR*
>3D_helix;202
protein_name:Photosystem II D2 protein (Thermosynechococcus elongatus)
file_name:PSII_D2_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain D in PDB file. TM C and E contains of two helices. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:Q8CM25_SYNEL
Swiss_Prot_number:Q8CM25
Swiss_Prot_gene:psbD2
Swiss_Prot_name:Photosystem II reaction center D2 protein
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:5
tm_segments:A.34,54;B.110,131;C.142,157;D.195,220;E.265,289
sequence:MTIAIGRAPAERGWFDILDDWLKRDRFVFVGWSGILLFPCAYLALGGWLTGTTFVTSWYTHGLASSYLEGCNFLTVAVSTPANSMGHSLLLLWGPEAQGDFTRWCQLGGLWTFIALHGAFGLIGFMLRQFEIARLVGVRPYNAIAFSAPIAVFVSVFLIYPLGQSSWFFAPSFGVAAIFRFLLFFQGFHNWTLNPFHMMGVAGVLGGALLCAIHGATVENTLFQDGEGASTFRAFNPTQAEETYSMVTANRFWSQIFGIAFSNKRWLHFFMLFVPVTGLWMSAIGVVGLALNLRSYDFISQEIRAAEDPEFETFYTKNLLLNEGIRAWMAPQDQPHENFVFPEEVLPRGNAL*
>3D_helix;205
protein_name:Photosystem II PsbH protein(Thermosynechococcus elongatus)
file_name:PSII_PsbH_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain H in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBH_SYNEL
Swiss_Prot_number:Q8DJ43
Swiss_Prot_gene:psbH
Swiss_Prot_name:photosystem II reaction center protein H
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:1
tm_segments:A.27,48
sequence:MARRTWLGDILRPLNSEYGKVAPGWGTTPLMAVFMGLFLVFLLIILEIYNSTLILDGVNVSWKALG*
>3D_helix;206
protein_name:Photosystem II PsbI protein (Thermosynechococcus elongatus)
file_name:PSII_PsbI_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain I in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBI_SYNEL
Swiss_Prot_number:Q8DJZ6
Swiss_Prot_gene:psbI
Swiss_Prot_name:Photosystem II reaction center protein I
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:out
number_tmsegs:1
tm_segments:A.3,20
sequence:METLKITVYIVVTFFVLLFVFGFLSGDPARNPKRKDLE*
>3D_helix;207
protein_name:Photosystem II PsbJ protein (Thermosynechococcus elongatus)
file_name:PSII_PsbJ_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain J in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBJ_SYNEL
Swiss_Prot_number:P59087
Swiss_Prot_gene:psbJ
Swiss_Prot_name:Photosystem II reaction center protein J
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:1
tm_segments:A.13,30
sequence:MMSEGGRIPLWIVATVAGMGVIVIVGLFFYGAYAGLGSSL*
>3D_helix;208
protein_name:Photosystem II PsbK protein (Thermosynechococcus elongatus)
file_name:PSII_PsbK_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from PDB, chain K. In Swiss-Prot file there is aditional 9 aa at the beginning so res#1 in PBD file corresponds to res#10 in Swiss-Prot file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBK_SYNEL
Swiss_Prot_number:Q9F1K9
Swiss_Prot_gene:psbK
Swiss_Prot_name:Photosystem II reaction center protein K
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:out
number_tmsegs:1
tm_segments:A.4,33
sequence:KLPEAYAIFDPLVDVLPVIPVLFLALAFVWQAAVGFR*
>3D_helix;209
protein_name:Photosystem II PsbL protein (Thermosynechococcus elongatus)
file_name:PSII_PsbL_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain L in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBL_SYNEL
Swiss_Prot_number:Q8DIN8
Swiss_Prot_gene:psbL
Swiss_Prot_name:Photosystem II reaction center protein L
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:1
tm_segments:A.14,36
sequence:MEPNPNRQPVELNRTSLYLGLLLILVLALLFSSYFFN*
>3D_helix;210
protein_name:Photosystem II PsbM protein (Thermosynechococcus elongatus)
file_name:PSII_PsbM_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain M in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBM_SYNEL
Swiss_Prot_number:Q8DHA7
Swiss_Prot_gene:psbM
Swiss_Prot_name:Photosystem II reaction center protein M
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:out
number_tmsegs:1
tm_segments:A.6,29
sequence:MEVNQLGLIATALFVLVPSVFLIILYVQTESQQKSS*
>3D_helix;213
protein_name:Photosystem II PsbN protein (Thermosynechococcus elongatus)
file_name:PSII_PsbN_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain N in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBN_SYNEL
Swiss_Prot_number:Q8DJ42
Swiss_Prot_gene:psbN
Swiss_Prot_name:Photosystem II reaction center protein N
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:out
number_tmsegs:1
tm_segments:A.2,30
sequence:MEPATVLSIALAAVCIGVTGYSIYLSFGPPSKELADPFDDHED
>3D_helix;211
protein_name:Photosystem II PsbT protein (Thermosynechococcus elongatus)
file_name:PSII_PsbT_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain T in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBT_SYNEL
Swiss_Prot_number:Q8DIQ0
Swiss_Prot_gene:psbT
Swiss_Prot_name:photosystem II reaction center protein T
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:out
number_tmsegs:1
tm_segments:A.5,22
sequence:METITYVFIFACIIALFFFAIFFREPPRITKK*
>3D_helix;212
protein_name:Photosystem II PsbX protein (Thermosynechococcus elongatus)
file_name:PSII_PsbX_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain X in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:Q8DHE6_SYNEL
Swiss_Prot_number:Q8DHE6
Swiss_Prot_gene:psbX
Swiss_Prot_name:photosystem II PsbX protein
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:out
number_tmsegs:1
tm_segments:A.15,43
sequence:MIQSASSLLLTITPSLKGFFIGLLSGAVVLGLTFAVLIAISQIDKVQRSL*
>3D_helix;214
protein_name:Photosystem II PsbZ protein (Thermosynechococcus elongatus)
file_name:PSII_PsbZ_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain Z in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:
Swiss_Prot_entry:PSBZ_SYNEL
Swiss_Prot_number:Q8DHJ2
Swiss_Prot_gene:psbZ
Swiss_Prot_name:Photosystem II reaction center protein Z
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:out
number_tmsegs:2
tm_segments:A.2,19;B.33,56
sequence:MTILFQLALAALVILSFVMVIGVPVAYASPQDWDRSKQLIFLGSGLWIALVLVVGVLNFFVV*
>3D_helix;199
protein_name:Photosystem II Q(B) protein (Thermosynechococcus elongatus)
file_name:PSII_Psb1_Thermo_elong.txt
entry_date:15july04
refman_number:21418
endnote_number:
author:Ferreira,K.N., Iverson,T.M., Maghlaoui,K., Barber,J., Iwata,S. (2004) [Architecture of the photosynthetic oxygen-evolving center] {Science, 303, 1831-1838}
remarks:Sequence from Swiss-Prot. This corresponds to chain A in PDB file. See also 1FE1(earlier lower resolution structure)and 2AXT(later higher resolution structure). Stroma=in.
pir_number:S26586
Swiss_Prot_entry:PSBA1_SYNEL
Swiss_Prot_number:P0A444
Swiss_Prot_gene:psbA1
Swiss_Prot_name:Photosystem Q(B) protein
PDB_title:Architecture of the photosynthetic oxygen evolving center
PDB_Identifier:1S5L
N_terminal:in
number_tmsegs:5
tm_segments:A.34,54;B.111,136;C.145,158;D.199,221;E.268,295
sequence:MTTTLQRRESANLWERFCNWVTSTDNRLYVGWFGVIMIPTLLAATICFVIAFIAAPPVDIDGIREPVSGSLLYGNNIITGAVVPSSNAIGLHFYPIWEAASLDEWLYNGGPYQLIIFHFLLGASCYMGRQWELSYRLGMRPWICVAYSAPLASAFAVFLIYPIGQGSFSDGMPLGISGTFNFMIVFQAEHNILMHPFHQLGVAGVFGGALFCAMHGSLVTSSLIRETTETESANYGYKFGQEEETYNIVAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGVWFTALGISTMAFNLNGFNFNHSVIDAKGNVINTWADIINRANLGMEVMHERNAHNFPLDLASAESAPVAMIAPSING*
>3D_helix;179
protein_name:reaction center chain H (Thermochromatium tepidum)
file_name:PSRC_TT_H.txt
entry_date:23jan04
refman_number:21300,21301
endnote_number:
author:Nogi,T., Fathir,I., Kobayashi,M., Nozawa,T., Miki,K. (2000) [Crystal structures of photosynthetic reaction center and high-potential iron-sulfur protein from Thermochromatium tepidum: Thermostability and electron transfer] {Proc Nat Acad Sci USA, 97, 13561-13566}
remarks:Sequence from PDB. TMhelices=1.
pir_number:
Swiss_Prot_entry:Q93RD8
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Photosynthetic reaction center, H subunit
PDB_Identifier:1EYS
N_terminal:out
number_tmsegs:1
tm_segments:A.11,33
sequence:MPAGITHYIDAAQITIWAFWLFFFGLIIYLRREDKREGYPLDSNRTERSGGRYKVVGFPDLPDPKTFVLPHNGGTVVAPRVEAPVAVNATPFSPAPGSPLVPNGDPMLSGFGPAASPDRPKHCDLTFEGLPKIVPMRVAKEFSIAEGDPDPRGMTVVGLDGEVAGTVSDVWVDRSEPQIRYLEVEVAANKKKVLLPIGFSRFDKKARKVKVDAIKAAHFANVPTLSNPDQVTLYEEDKVCAYYAGGKLYATAERAGPLL*
>3D_helix;180
protein_name:reaction center chain L (Thermochromatium tepidum)
file_name:PSRC_TT_L.txt
entry_date:23jan04
refman_number:21300,21301
endnote_number:
author:Nogi,T., Fathir,I., Kobayashi,M., Nozawa,T., Miki,K. (2000) [Crystal structures of photosynthetic reaction center and high-potential iron-sulfur protein from Thermochromatium tepidum: Thermostability and electron transfer] {Proc Nat Acad Sci USA, 97, 13561-13566}
remarks:Sequence from PDB. TMhelices=5
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Photosynthetic reaction center, L subunit
PDB_Identifier:1EYS
N_terminal:in
number_tmsegs:5
tm_segments:A.33,55;B.93,119;C.124,147;D.179,205;E.234,258
sequence:AMLSFEKKYRVRGGTLIGGDLFDFWVGPFYVGFFGVVGFCFTLLGVLLIVWGATIGPTGPTSDLQTYNLWRISIAPPDLSYGLRMAPLTEGGLWQIITICAAGAFISWALREVEICRKLGIGFHVPFAFSFAIGAYLVLVFVRPLLMGAWGHGFPYGILSHLDWVSNVGYQFLHFHYNPAHMLAISFFFTNCLALSMHGSLILSVTNPQRGEPVKTSEHENTFFRDIVGYSIGALAIHRLGLFLALSAAFWSAVCILISGPFWTRGWPEWWNWWLELPLW*
>3D_helix;181
protein_name:reaction center chain M (Thermochromatium tepidum)
file_name:PSRC_TT_M.txt
entry_date:23jan04
refman_number:21300,21301
endnote_number:
author:Nogi,T., Fathir,I., Kobayashi,M., Nozawa,T., Miki,K. (2000) [Crystal structures of photosynthetic reaction center and high-potential iron-sulfur protein from Thermochromatium tepidum: Thermostability and electron transfer] {Proc Nat Acad Sci USA, 97, 13561-13566}
remarks:Sequence from PDB. TMhelices=5.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Photosynthetic reaction center, M subunit
PDB_Identifier:1EYS
N_terminal:in
number_tmsegs:5
tm_segments:A.54,77;B.112,134;C.144,167;D.196,224;E.265,284
sequence:PEYQNIFTAVQVRAPAYPGVPLPKGNLPRIGRPIFSYWLGKIGDAQIGPIYLGLTGTLSIFFGLVAISIIGFNMLASVHWDVFQFLKHFFWLGLEPPPPQYGLRIPPLSEGGWWLIAGLFLTLSILLWWVRTYKRAEALGMSQHLSWAFAAAIFFYLVLGFIRPVMMGSWAKAVPFGIFPHLDWTAAFSIRYGNLYYNPFHMLSIAFLYGSALLFAMHGATILSVSRFGGDREIDQITHRGTAAEGAALFWRWTMGFNATMESIHRWAWWCAVLTVITAGIGILLSGTVVDNWYLWAVKHGMAPAYPEVVTAVNPYETAAEVMQ*
>3D_helix;63
protein_name:Reaction center. Chain H (R. sphaeroides)
file_name:PSRC-RS-H.txt
entry_date:8Oct98
refman_number:1152,3551,1192,5719,5111,13834,13835,12247,1989,1980,2134,12155
endnote_number:
author:Allen,J.P., Feher,G., Yeates,T.O., Komiya,H., Rees,D.C. (1987) [Structure of the reaction center from Rhodobacter sphaeroides R-26: The protein subunits] {Proc Natl Acad Sci USA, 84, 6162-6166}
remarks:Sequence from Swiss-Prot. TMhelices=1.
pir_number:A26538
Swiss_Prot_entry:RCEH_RHOSH
Swiss_Prot_number:P11846
Swiss_Prot_gene:PUHA
Swiss_Prot_name:Reaction center protein H chain
PDB_title:Photosynthetic reaction center from (Rhodobacter sphaeroides)
PDB_Identifier:2RCR,4RCR
N_terminal:out
number_tmsegs:1
tm_segments:A.13,36
sequence:MVGVTAFGNFDLASLAIYSFWIFLAGLIYYLQTENMREGYPLENEDGTPAANQGPFPLPKPKTFILPHGRGTLTVPGPESEDRPIALARTAVSEGFPHAPTGDPMKDGVGPASWVARRDLPELDGHGHNKIKPMKAAAGFHVSAGKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLEVELKDGSTRLLPMQMVKVQSNRVHVNALSSDLFAGIPTIKSPTEVTLLEEDKICGYVAGGLMYAAPKRKSVVAAMLAEYA*
>3D_helix;33
protein_name:Reaction center. Chain H (R. viridis)
file_name:PSRC-RV-H.txt
entry_date:27may98
refman_number:1623,13870
endnote_number:
author:Deisenhofer,J., Epp,O., Miki,K., Huber,R., Michel,H. (1985) [Structure of the protein subunits in the photosynthetic reaction centre of Rhodopseudomonas viridis at 3 Å resolution] {Nature, 318, 618-624}
remarks:Sequence from Swiss-Prot. TMhelices=1.
pir_number:A22841
Swiss_Prot_entry:RCEH_RHOVI
Swiss_Prot_number:P06008
Swiss_Prot_gene:PUHA
Swiss_Prot_name:Reaction center protein H chain
PDB_title:photosynthetic reaction center
PDB_Identifier:1PRC
N_terminal:out
number_tmsegs:1
tm_segments:A.12,37
sequence:MYHGALAQHLDIAQLVWYAQWLVIWTVVLLYLRREDRREGYPLVEPLGLVKLAPEDGQVYELPYPKTFVLPHGGTVTVPRRRPETRELKLAQTDGFEGAPLQPTGNPLVDAVGPASYAERAEVVDATVDGKAKIVPLRVATDFSIAEGDVDPRGLPVVAADGVEAGTVTDLWVDRSEHYFRYLELSVAGSARTALIPLGFCDVKKDKIVVTSILSEQFANVPRLQSRDQITLREEDKVSAYYAGGLLYATPERAESLL*
>3D_helix;64
protein_name:Reaction center. Chain L (R. sphaeroides)
file_name:PSRC-RS-L.txt
entry_date:8Oct98
refman_number:1152,3551,1192,5719,5111,13834,13835,12247,1989,1980,2134,12155
endnote_number:
author:Allen,J.P., Feher,G., Yeates,T.O., Komiya,H., Rees,D.C. (1987) [Structure of the reaction center from Rhodobacter sphaeroides R-26: The protein subunits] {Proc Natl Acad Sci USA, 84, 6162-6166}
remarks:Sequence from Swiss-Prot. TMhelices=5.
pir_number:WNRFLS
Swiss_Prot_entry:RCEL_RHOSH
Swiss_Prot_number:P02954
Swiss_Prot_gene:PUFL
Swiss_Prot_name:Reaction center protein L chain
PDB_title:Photosynthetic reaction center from (Rhodobacter sphaeroides)
PDB_Identifier:2RCR,4RCR
N_terminal:in
number_tmsegs:5
tm_segments:A.32,55;B.84,111;C.115,140;D.170,199;E.225,251
sequence:ALLSFERKYRVPGGTLVGGNLFDFWVGPFYVGFFGVATFFFAALGIILIAWSAVLQGTWNPQLISVYPPALEYGLGGAPLAKGGLWQIITICATGAFVSWALREVEICRKLGIGYHIPFAFAFAILAYLTLVLFRPVMMGAWGYAFPYGIWTHLDWVSNTGYTYGNFHYNPAHMIAISFFFTNALALALHGALVLSAANPEKGKEMRTPDHEDTFFRDLVGYSIGTLGIHRLGLLLSLSAVFFSALCMIITGTIWFDQWVDWWQWWVKLPWWANIPGGING*
>3D_helix;34
protein_name:Reaction center. Chain L (R. viridis)
file_name:PSRC-RV-L.txt
entry_date:27may98
refman_number:1623,13870
endnote_number:
author:Deisenhofer,J., Epp,O., Miki,K., Huber,R., Michel,H. (1985) [Structure of the protein subunits in the photosynthetic reaction centre of Rhodopseudomonas viridis at 3 Å resolution] {Nature, 318, 618-624}
remarks:Sequence from Swiss-Prot. TMhelices=5.
pir_number:A25102
Swiss_Prot_entry:RCEL_RHOVI
Swiss_Prot_number:P06009
Swiss_Prot_gene:PUFL
Swiss_Prot_name:Reaction center protein L chain
PDB_title:photosynthetic reaction center
PDB_Identifier:1PRC
N_terminal:in
number_tmsegs:5
tm_segments:A.32,55;B.84,112;C.115,140;D.170,199;E.225,251
sequence:ALLSFERKYRVRGGTLIGGDLFDFWVGPYFVGFFGVSAIFFIFLGVSLIGYAASQGPTWDPFAISINPPDLKYGLGAAPLLEGGFWQAITVCALGAFISWMLREVEISRKLGIGWHVPLAFCVPIFMFCVLQVFRPLLLGSWGHAFPYGILSHLDWVNNFGYQYLNWHYNPGHMSSVSFLFVNAMALGLHGGLILSVANPGDGDKVKTAEHENQYFRDVVGYSIGALSIHRLGLFLASNIFLTGAFGTIASGPFWTRGWPEWWGWWLDIPFWS*
>3D_helix;65
protein_name:Reaction center. Chain M (R. sphaeroides)
file_name:PSRC-RS-M.txt
entry_date:8Oct98
refman_number:1152,3551,1192,5719,5111,13834,13835,12247,1989,1980,2134,12155
endnote_number:
author:Allen,J.P., Feher,G., Yeates,T.O., Komiya,H., Rees,D.C. (1987) [Structure of the reaction center from Rhodobacter sphaeroides R-26: The protein subunits] {Proc Natl Acad Sci USA, 84, 6162-6166}
remarks:Sequence from Swiss-Prot. TMhelices=5.
pir_number:WNRFMS
Swiss_Prot_entry:RCEM_RHOSH
Swiss_Prot_number:P02953
Swiss_Prot_gene:PUFM
Swiss_Prot_name:Reaction center protein M chain
PDB_title:Photosynthetic reaction center from (Rhodobacter sphaeroides)
PDB_Identifier:2RCR,4RCR
N_terminal:in
number_tmsegs:5
tm_segments:A.52,77;B.110,139;C.142,167;D.197,224;E.259,285
sequence:AEYQNIFSQVQVRGPADLGMTEDVNLANRSGVGPFSTLLGWFGNAQLGPIYLGSLGVLSLFSGLMWFFTIGIWFWYQAGWNPAVFLRDLFFFSLEPPAPEYGLSFAAPLKEGGLWLIASFFMFVAVWSWWGRTYLRAQALGMGKHTAWAFLSAIWLWMVLGFIRPILMGSWSEAVPYGIFSHLDWTNNFSLVHGNLFYNPFHGLSIAFLYGSALLFAMHGATILAVSRFGGERELEQIADRGTAAERAALFWRWTMGFNATMEGIHRWAIWMAVLVTLTGGIGILLSGTVVDNWYVWGQNHGMAPLN*
>3D_helix;35
protein_name:Reaction center. Chain M (R. viridis)
file_name:PSRC-RV-M.txt
entry_date:27may98
refman_number:1623,13870
endnote_number:
author:Deisenhofer,J., Epp,O., Miki,K., Huber,R., Michel,H. (1985) [Structure of the protein subunits in the photosynthetic reaction centre of Rhodopseudomonas viridis at 3 Å resolution] {Nature, 318, 618-624}
remarks:Sequence from Swiss-Prot. TMhelices=5.
pir_number:B25102
Swiss_Prot_entry:RCEM_RHOVI
Swiss_Prot_number:P06010
Swiss_Prot_gene:PUFM
Swiss_Prot_name:Reaction center protein M chain
PDB_title:photosynthetic reaction center
PDB_Identifier:1PRC
N_terminal:in
number_tmsegs:5
tm_segments:A.52,78;B.110,139;C.142,167;D.197,225;E.259,285
sequence:ADYQTIYTQIQARGPHITVSGEWGDNDRVGKPFYSYWLGKIGDAQIGPIYLGASGIAAFAFGSTAILIILFNMAAEVHFDPLQFFRQFFWLGLYPPKAQYGMGIPPLHDGGWWLMAGLFMTLSLGSWWIRVYSRARALGLGTHIAWNFAAAIFFVLCIGCIHPTLVGSWSEGVPFGIWPHIDWLTAFSIRYGNFYYCPWHGFSIGFAYGCGLLFAAHGATILAVARFGGDREIEQITDRGTAVERAALFWRWTIGFNATIESVHRWGWFFSLMVMVSASVGILLTGTFVDNWYLWCVKHGAAPDYPAYLPATPDPASLPGAPK*
>3D_helix;66
protein_name:rhodopsin (bovine)
file_name:Rhodopsin-bov.txt
entry_date:8oct98
refman_number:19008,12836,13790,12169,9140,12372
endnote_number:
author:Palczewski,K., Kumasaka,T., Hori, T., Behnke, C. A., Motoshima, H., Fox, B. A., Le Trong, I., Teller,D. C., Okada, T., Stenkamp, R. E., Yamamoto, M., Miyano, M. (2000) [Crystal structure of rhodopsin: A G protein-coupled receptor] {Science, 289, 739-745}
remarks:Sequence from Swiss-Prot. TMhelices=7.
pir_number:OOBO
Swiss_Prot_entry:OPSD_BOVIN
Swiss_Prot_number:P02699
Swiss_Prot_gene:RHO
Swiss_Prot_name:Rhodopsin
PDB_title:crystal structure of bovine rhodopsin - Chain A, B
PDB_Identifier:1F88
N_terminal:out
number_tmsegs:7
tm_segments:A.35,64;B.71,100;C.107,139;D.151,173;E.200,225;F.247,277;G.286,306
sequence:MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA*
>3D_helix;242
protein_name:Rhomboid peptidase (Haemophilus influenzae)
file_name:GlpG_Hae_influenzae.txt
entry_date:17jan07
refman_number:
endnote_number:22366
author:Lemieux,M.J., Fischer,S.J., Cherney,M.M., Bateman,K.S., James,M.N.G. (2007) [The crystal structure of the rhomoboid peptidase from Haemophilus influenzae provides insight into intramembrane proteolysis] {Proc Natl Acad Sci USA, 104, 750-754}
remarks:Sequence from Swiss-Prot. TM E is unusual in that it is not fully alpha helical but rather is deformed. check orginal article for details.
pir_number:I64081
Swiss_Prot_entry:GLPG_HAEIN
Swiss_Prot_number:P44783
Swiss_Prot_gene:glpG
Swiss_Prot_name:Protein glpG homolog
PDB_title:Crystal structure of GlpG, Rhomboid Peptidase from Haemophilus influenzae
PDB_Identifier:2NR9
N_terminal:in
number_tmsegs:6
tm_segments:A.10,26;B.63,84;C.86,108;D.116,131;E.137,156;F.166,191
sequence:MKNFLAQQGKITLILTALCVLIYLAQQLGFEDDIMYLMHYPAYEEQDSEVWRYISHTLVHLSNLHILFNLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYVQNYVSGPAFFGLSGVVYAVLGYVFIRDKLNHHLFDLPEGFFTMLLVGIALGFISPLFGVEMGNAAHISGLIVGLIWGFIDSKLRKNSLE*
>3D_helix;243
protein_name:Rhomboid Protease GlpG (Escherichia coli)
file_name:GlpG_Ecoli.txt
entry_date:17jan07
refman_number:
endnote_number:22277
author:Wang,Y., Zhang,Y., Ha,Y. (2006) [Crystal structure of a rhomboid family intramembrane protease] {Nature, 444, 179-183}
remarks:Sequence from Swiss-Prot.
pir_number:
Swiss_Prot_entry:P09391
Swiss_Prot_number:GLPG_ECOLI
Swiss_Prot_gene:glpG
Swiss_Prot_name:Protein glpG
PDB_title:Crystal structure of GlpG
PDB_Identifier:2IC8
N_terminal:out
number_tmsegs:6
tm_segments:A.95,114;B.148,169;C.171,193;D.201,217;E.227,241;F.251,268
sequence:MLMITSFANPRVAQAFVDYMATQGVILTIQQHNQSDVWLADESQAERVRAELARFLENPADPRYLAASWQAGHTGSGLHYRRYPFFAALRERAGPVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFDLFGMSMANGAHIAGLAVGLAMAFVDSLNARKRK*
>3D_helix;165
protein_name:SecY complex, alpha subunit (Methanococcus jannaschii)
file_name:SecY_alpha_Methjann.txt
entry_date:30dec03
refman_number:21231
endnote_number:
author:Van den Berg,B., Clemons,W.M.,Jr., Collinson,I., Modis,Y., Hartmann,E., Harrison,S.C., Rapoport,T.A. (2003) [X-ray structure of a protein-conducting channel] {Nature, 427, 36-44}
remarks:SecY protein. Cytoplasm = in. Sequence is from Swiss-Prot with Met1 removed so that it corresponds to the sequence in the PDB file. TMhelices=10.
pir_number:
Swiss_Prot_entry:SECY_METJA
Swiss_Prot_number:Q60175
Swiss_Prot_gene:SECY,MJ0478
Swiss_Prot_name:Preprotein translocase secY subunit
PDB_title:Preprotein translocase Secy subunit
PDB_Identifier:1RHZ,1RH5
N_terminal:in
number_tmsegs:10
tm_segments:A.22,45;B.74,90;C.101,129;D.137,164;E.169,202;F.207,229;G.254,276;H.313,333;I.364,396;J.400,425
sequence:KKLIPILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFWQTITASRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVLFVGAGAFGILTPLLAFLVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGALGPEGYLWKFLNSLIQGVPNIEYIAPIIGTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGLALYRMGIPILGHYEGGRAVDGIAYYLSTPYGLSSVISDPIHAIVYMIAMIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSSAFVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSELHPAIAKLLNK*
>3D_helix;166
protein_name:SecY complex, beta subunit (Methanococcus jannaschii)
file_name:SecY_beta_Methjann.txt
entry_date:30dec03
refman_number:21231
endnote_number:
author:Van den Berg,B., Clemons,W.M.,Jr., Collinson,I., Modis,Y., Hartmann,E., Harrison,S.C., Rapoport,T.A. (2003) [X-ray structure of a protein-conducting channel] {Nature, 427, 36-44}
remarks:SecG protein equivalent. Cytoplasm = in. Sequence from PDB. There is no sequence in Swiss-Prot. TMhelices=1.
pir_number:
Swiss_Prot_entry:
Swiss_Prot_number:
Swiss_Prot_gene:
Swiss_Prot_name:
PDB_title:Preprotein Translocase Secy Subunit
PDB_Identifier:1RHZ,1RH5
N_terminal:in
number_tmsegs:1
tm_segments:A.30,48
sequence:MSKREETGLATSAGLIRYMDETFSKIRVKPEHVIGVTVAFVIIEAILTYGRFL*
>3D_helix;167
protein_name:SecY complex, gamma subunit (Methanococcus jannaschii)
file_name:SecY_gamma_Methjann.txt
entry_date:30dec03
refman_number:21231
endnote_number:
author:Van den Berg,B., Clemons,W.M.,Jr., Collinson,I., Modis,Y., Hartmann,E., Harrison,S.C., Rapoport,T.A. (2003) [X-ray structure of a protein-conducting channel] {Nature, 427, 36-44}
remarks:SecE protein. Cytoplasm = in. Sequence from Swiss-Prot, with Met1 removed so that sequence corresponds to that in PDB. TMhelices=1.
pir_number:
Swiss_Prot_entry:SECE_METJA
Swiss_Prot_number:Q57817
Swiss_Prot_gene:SECE, MJ0371
Swiss_Prot_name:Preprotein translocase secE subunit
PDB_title:Preprotein Translocase Secy subunit
PDB_Identifier:1RHZ,1RH5
N_terminal:in
number_tmsegs:1
tm_segments:A.30,64
sequence:KTDFNQKIEQLKEFIEECRRVWLVLKKPTKDEYLAVAKVTALGISLLGIIGYIIHVPATYIKGILKPPTTPRV*
>3D_helix;222
protein_name:sensory rhodopsin (Anabaena)
file_name:sensory_rhodopsin_Anabaena.txt
entry_date:08mar05
refman_number:21688
endnote_number:
author:Vogeley,L., Sineshchekov,O.A., Trivedi,V.D., Sasaki,J., Spudich,J.L., Luecke,H. (2004) [Anabaena sensory rhodopsin: A photochromic color sensor at 2.0 Å] {Science, 306, 1390-1393}
remarks:Sequence from PDB
pir_number:AF2201
Swiss_Prot_entry:Q8YSC4_ANASP
Swiss_Prot_number:Q8YSC4
Swiss_Prot_gene:alr3165
Swiss_Prot_name:bacteriorhodopsin
PDB_title:Anabaena sensory rhodopsin
PDB_Identifier:1XIO
N_terminal:out
number_tmsegs:7
tm_segments:A.3,26;B.34,56;C.72,91;D.99,121;E.125,147;F.159,185;G.195,209
sequence:MNLESLLHWIYVAGMTIGALHFWSLSRNPRGVPQYEYLVAMFIPIWSGLAYMAMAIDQGK VEAAGQIAHYARYIDWMVTTPLLLLSLSWTAMQFIKKDWTLIGFLMSTQIVVITSGLIADLSERDWVRYLWYICGVCAFLIILWGIWNPLRAKTRTQSSELANLYDKLVTYFTVLWIGYPIVWIIGPSGFGWINQTIDTFLFCLLPFFSKVGFSFLDLHGLRNLNDSRQTTGDRFAENTLQFVENITLFANSRRQQSRRRV*
>3D_helix;113
protein_name:sensory rhodopsin II (N. pharaonis)
file_name:sensor_rhodop_II.txt
entry_date:16July02
refman_number:19958,20398
endnote_number:
author:Royant,A., Nollert,P., Edman,K., Neutze,R., Landau,E.M., Pebay-Peyroula,E., Navarro,J. (2001) [X-ray structure of sensory rhodopsin II at 2.1-Å resolution] {Proc Natl Acad Sci USA, 98, 10131-10136}
remarks:Sequence is from Swiss-Prot. TMhelices=7.
pir_number:S55300
Swiss_Prot_entry:BACT_NATPH
Swiss_Prot_number:P42196
Swiss_Prot_gene:SOP2,SOPII
Swiss_Prot_name:Sensory rhodopsin II
PDB_title:Sensory Rhodopsin II
PDB_Identifier:1H68,1JGJ
N_terminal:out
number_tmsegs:7
tm_segments:A.3,26;B.33,56;C.70,92;D.94,118;E.122,150;F.153,181;G.189,219
sequence:MVGLTTLFWLGAIGMLVGTLAFAWAGRDAGSGERRYYVTLVGISGIAAVAYVVMALGVGWVPVAERTVFAPRYIDWILTTPLIVYFLGLLAGLDSREFGIVITLNTVVMLAGFAGAMVPGIERYALFGMGAVAFLGLVYYLVGPMTESASQRSSGIKSLYVRLRNLTVILWAIYPFIWLLGPPGVALLTPTVDVALIVYLDLVTKVGFGFIALDAAATLRAEHGESLAGVDTDAPAVAD*
>3D_helix;115
protein_name:sensory rhodopsin transducer (N. pharaonis)
file_name:SRII_transducer.txt
entry_date:10Oct02
refman_number:20557
endnote_number:
author:Gordeliy,V.I., Labahn,J., Moukhametzianov,R., Efremov,R., Granzin,J., Schlesinger,R., Büldt,G., Savopol,T., Scheldig,A.J., Klare,J.P. (2002) [Molecular basis of transmembrane signalling by sensory rhodopsin II-transducer complex] {Nature, 419, 484-487}
remarks:Sequence from Swiss-Prot. PDB sequence is truncated at N- & C-terminii. TMhelices=2.
pir_number:S55299
Swiss_Prot_entry:HTR2_NATPH
Swiss_Prot_number:P42259
Swiss_Prot_gene:HTR2,HTRII
Swiss_Prot_name:Sensory rhodopsin II transducer
PDB_title:rhodopsin II-transducer complex
PDB_Identifier:1H2S
N_terminal:in
number_tmsegs:2
tm_segments:A.24,49;B.54,80
sequence:MSLNVSRLLLPSRVRHSYTGKMGAVFIFVGALTVLFGAIAYGEVTAAAATGDAAAVQEAAVSAILGLIILLGINLGLVAATLGGDTAASLSTLAAKASRMGDGDLDVELETRREDEIGDLYAAFDEMRQSVRTSLEDAKNAREDAEQAQKRAEEINTELQAEAERFGEVMDRCADGDFTQRLDAETDNEAMQSIEGSFNEMMDGIEALVGRIERFADAVSEDAEAVRANAESVMEASEDVNRAVQNISDAAGDQTETVQQIALEMDDVSATTEEVAASADDIAKTARQAAETGEAGRETAETAITEMNEVESRTEQAVASMEELNEDVREIGEVSEMIADIAEQTNILALNASIEAARADGNSEGFAVVADEVKALAEETKAATEEIDDLIGTVQDRTQTTVDDIRETSDQVSEGVETVEDTVDALERIVDSVERTNDGIQEINQSTDAQADAAQKATTMVEDMAATSEQTASDAETAAETTETQAESVKEVFDLIDGLSEQADSLSETLSRTDTEEASAADLDDQPTLAAGDD*
>3D_helix;120
protein_name:succinate dehydrogenase C subunit (Escherichia coli)
file_name:SQR_SdhC.txt
entry_date:10feb03
refman_number:20846
endnote_number:
author:Yankovskaya,V., Horsefield,R., Törnroth,S., Luna-Chavez,C., Miyoshi,H., Léger,C., Byrne,B., Cecchini,G., Iwata,S. (2003) [Architecture of succinate dehydrogenase and reactive oxygen species generation] {Science, 299, 700-704}
remarks:Sequence is from Swiss-Prot. TMhelices=3.
pir_number:
Swiss_Prot_entry:DHSC_ECOLI
Swiss_Prot_number:P10446
Swiss_Prot_gene:SDHC,CYBA,B0721,Z0875,ECS0746
Swiss_Prot_name:Succinate dehydrogenase cytochrome b-556 subunit
PDB_title:Succinate Dehydrogenase Cytochrome B-556 Subunit
PDB_Identifier:1NEK
N_terminal:in
number_tmsegs:3
tm_segments:A.21,51;B.67,96;C.102,128
sequence:MIRNVKKQRPVNLDLQTIRFPITAIASILHRVSGVITFVAVGILLWLLGTSLSSPEGFEQASAIMGSFFVKFIMWGILTALAYHVVVGIRHMMMDFGYLEETFEAGKRSAKISFVITVVLSLLAGVLVW*
>3D_helix;121
protein_name:succinate dehydrogenase D subunit (Escherichia coli)
file_name:SQR_SdhD.txt
entry_date:10feb03
refman_number:20846
endnote_number:
author:Yankovskaya,V., Horsefield,R., Törnroth,S., Luna-Chavez,C., Miyoshi,H., Léger,C., Byrne,B., Cecchini,G., Iwata,S. (2003) [Architecture of succinate dehydrogenase and reactive oxygen species generation] {Science, 299, 700-704}
remarks:Sequence is from Swiss-Prot. TMhelices=3.
pir_number:
Swiss_Prot_entry:DHSD_ECOLI
Swiss_Prot_number:P10445
Swiss_Prot_gene:SDHD,B0722,C0800,SF0575
Swiss_Prot_name:Succinate dehydrogenase hydrophobic membrane anchor protein
PDB_title:Succinate Dehydrogenase Hydrophobic Membrane Anchor Protein
PDB_Identifier:1NEK
N_terminal:in
number_tmsegs:3
tm_segments:A.11,36;B.53,81;C.86,113
sequence:MVSNASALGRNGVHDFILVRATAIVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSILIHAWIGMWQVLTDYVKPLALRLMLQLVIVVALVVYVIYGFVVVWGV*
>3D_helix;190
protein_name:ubiquinol oxidase subunit I (E. coli)
file_name:ubiquinol_oxidase_I.txt
entry_date:29apr04
refman_number:21436
endnote_number:
author:Abramson,J., Riistama,S., Larsson,G., Jasaitis,A., Svensson-Ek,M., Laakkonen,L., Puustinen,A., Iwata,S., Wikström,M. (2000) [The structure of the ubiquinol oxidase from Escherichia coli and its ubiquinone binding site] {Nature Struc Biol, 7, 910-917}
remarks:Sequence is from Swiss-Prot. Helices A & O are not reported in the 1EFT structure file. Their assignments are from Swiss-Prot.
pir_number:A85540,B42226,E90689
Swiss_Prot_entry:CYOB_ECOLI
Swiss_Prot_number:P18401
Swiss_Prot_gene:CYOB, B0431, C0542, Z0534, ECS0485
Swiss_Prot_name:Ubiquinol oxidase polypeptide I
PDB_title:Ubiquinol Oxidase, Chain A
PDB_Identifier:1FFT
N_terminal:out
number_tmsegs:15
tm_segments:A.17,35;B.53,80;C.96,132;D.138,161;E.185,215;F.225,260;G.271,307;H.312,326;I.341,369;J.378,409;K.413,445;L.449,477;M.490,521;N.588,606;O.614,632
sequence:MFGKLSLDAVPFHEPIVMVTIAGIILGGLALVGLITYFGKWTYLWKEWLTSVDHKRLGIMYIIVAIVMLLRGFADAIMMRSQQALASAGEAGFLPPHHYDQIFTAHGVIMIFFVAMPFVIGLMNLVVPLQIGARDVAFPFLNNLSFWFTVVGVILVNVSLGVGEFAQTGWLAYPPLSGIEYSPGVGVDYWIWSLQLSGIGTTLTGINFFVTILKMRAPGMTMFKMPVFTWASLCANVLIIASFPILTVTVALLTLDRYLGTHFFTNDMGGNMMMYINLIWAWGHPEVYILILPVFGVFSEIAATFSRKRLFGYTSLVWATVCITVLSFIVWLHHFFTMGAGANVNAFFGITTMIIAIPTGVKIFNWLFTMYQGRIVFHSAMLWTIGFIVTFSVGGMTGVLLAVPGADFVLHNSLFLIAHFHNVIIGGVVFGCFAGMTYWWPKAFGFKLNETWGKRAFWFWIIGFFVAFMPLYALGFMGMTRRLSQQIDPQFHTMLMIAASGAVLIALGILCLVIQMYVSIRDRDQNRDLTGDPWGGRTLEWATSSPPPFYNFAVVPHVHERDAFWEMKEKGEAYKKPDHYEEIHMPKNSGAGIVIAAFSTIFGFAMIWHIWWLAIVGFAGMIITWIVKSFDEDVDYYVPVAEIEKLENQHFDEITKAGLKNGN*
>3D_helix;191
protein_name:ubiquinol oxidase subunit II (E. coli)
file_name:ubiquinol_oxidase_II.txt
entry_date:29apr04
refman_number:21436
endnote_number:
author:Abramson,J., Riistama,S., Larsson,G., Jasaitis,A., Svensson-Ek,M., Laakkonen,L., Puustinen,A., Iwata,S., Wikström,M. (2000) [The structure of the ubiquinol oxidase from Escherichia coli and its ubiquinone binding site] {Nature Struc Biol, 7, 910-917}
remarks:Sequence is from Swiss-Prot. This corresponds to chain B in PDB file. Although the sequence has a signal sequence, helix numbering is for unprocessed sequence.
pir_number:A42226
Swiss_Prot_entry:CYOA_ECOLI
Swiss_Prot_number:P0ABJ1
Swiss_Prot_gene:cyoA
Swiss_Prot_name:Ubiquinol oxidase polypeptide II [precursor]
PDB_title:Ubiquinol Oxidase, Chain B
PDB_Identifier:1FFT
N_terminal:out
number_tmsegs:2
tm_segments:A.37,70;B.87,113
sequence:MRLRKYNKSLGWLSLFAGTVLLSGCNSALLDPKGQIGLEQRSLILTAFGLMLIVVIPAILMAVGFAWKYRASNKDAKYSPNWSHSNKVEAVVWTVPILIIIFLAVLTWKTTHALEPSKPLAHDEKPITIEVVSMDWKWFFIYPEQGIATVNEIAFPANTPVYFKVTSNSVMNSFFIPRLGSQIYAMAGMQTRLHLIANEPGTYDGISASYSGPGFSGMKFKAIATPDRAAFDQWVAKAKQSPNTMSDMAAFEKLAAPSEYNQVEYFSNVKPDLFADVINKFMAHGKSMDMTQPEGEHSAHEGMEGMDMSHAESAH*
>3D_helix;192
protein_name:ubiquinol oxidase subunit III(E. coli)
file_name:ubiquinol_oxidase_III.txt
entry_date:29apr04
refman_number:21436
endnote_number:
author:Abramson,J., Riistama,S., Larsson,G., Jasaitis,A., Svensson-Ek,M., Laakkonen,L., Puustinen,A., Iwata,S., Wikström,M. (2000) [The structure of the ubiquinol oxidase from Escherichia coli and its ubiquinone binding site] {Nature Struc Biol, 7, 910-917}
remarks:Sequence from Swiss-Prot.
pir_number:C4226
Swiss_Prot_entry:CYOC_ECOLI
Swiss_Prot_number:P18402
Swiss_Prot_gene:CYOC,B0430,C0541,SF0371,S0376
Swiss_Prot_name:Cytochrome o ubiquinol oxidase subunit III
PDB_title:Ubiquinol Oxidase, Chain C
PDB_Identifier:1FFT
N_terminal:in
number_tmsegs:5
tm_segments:A.21,48;B.64,91;C.95,125;D.139,166;E.175,200
sequence:MATDTLTHATAHAHEHGHHDAGGTKIFGFWIYLMSDCILFSILFATYAVLVNGTAGGPTGKDIFELPFVLVETFLLLFSSITYGMAAIAMYKNNKSQVISWLALTWLFGAGFIGMEIYEFHHLIVNGMGPDRSGFLSAFFALVGTHGLHVTSGLIWMAVLMVQIARRGLTSTNRTRIMCLSLFWHFLDVVWICVFTVVYLMGAM*
>1D_helix;125
protein_name:alkane hydroxylase (Pseudomonas oleovorans)
file_name:AlkB.txt
entry_date:30apr03
refman_number:14034
endnote_number:
author:van Beilen,J.B., Penninga,D., Witholt,B. (1992) [Topology of the membrane-bound alkane hydroxylase of Pseudomonas oleovorans] {J Biol Chem, 267, 9194-9201}
remarks:Sequence is from Swiss-Prot. TMhelices=6.
pir_number:A31266
Swiss_Prot_entry:ALKB_PSEOL
Swiss_Prot_number:P12691
Swiss_Prot_gene:ALKB
Swiss_Prot_name:Alkane-1 monooxygenase
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:6
tm_segments:A.21,39;B.42,62;C.89,111;D.114,134;E.229,249;F.251,271
sequence:MLEKHRVLDSAPEYVDKKKYLWILSTLWPATPMIGIWLANETGWGIFYGLVLLVWYGALPLLDAMFGEDFNNPPEEVVPKLEKERYYRVLTYLTVPMHYAALIVSAWWVGTQPMSWLEIGALALSLGIVNGLALNTGHELGHKKETFDRWMAKIVLAVVGYGHFFIEHNKGHHRDVATPMDPATSRMGESIYKFSIREIPGAFIRAWGLEEQRLSRRGQSVWSFDNEILQPMIITVILYAVLLALFGPKMLVFLPIQMAFGWWQLTSANYIEHYGLLRQKMEDGRYEHQKPHHSWNSNHIVSNLVLFHLQRHSDHHAHPTRSYQSLRDFPGLPALPTGYPGAFLMAMIPQWFRSVMDPKVVDWAGGDLNKIQIDDSMRETYLKKFGTSSAGHSSSTSAVAS*
>1D_helix;252
protein_name:Antigen peptide transporter TAP1 (human)
file_name:TAP1_human.txt
entry_date:29jan07
refman_number:
endnote_number:21966
author:Schrodt,S., Koch,J., Tampé,R.(2006) [Membrane topology of the transporter associated with antigen processing (TAP1) within an assembled functional peptide-loading complex] {J Biol Chem, 281, 6455-6462}
remarks:Sequence from Swiss-Prot.
pir_number:
Swiss_Prot_entry:TAP1_HUMAN
Swiss_Prot_number:Q03518
Swiss_Prot_gene:TAP1
Swiss_Prot_name:Antigen peptide transporter 1
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:10
tm_segments:A.13,36;B.54,76;C.91,113;D.134,154;E.187,207;F.228,248;G.299,319;H.329,349;I.410,432;J.444,464
sequence:MASSRCPAPRGCRCLPGASLAWLGTVLLLLADWVLLRTALPRIFSLLVPTALPLLRVWAVGLSRWAVLWLGACGVLRATVGSKSENAGAQGWLAALKPLAAALGLALPGLALFRELISWGAPGSADSTRLLHWGSHPTAFVVSYAAALPAAALWHKLGSLWVPGGQGGSGNPVRRLLGCLGSETRRLSLFLVLVVLSSLGEMAIPFFTGRLTDWILQDGSADTFTRNLTLMSILTIASAVLEFVGDGIYNNTMGHVHSHLQGEVFGAVLRQETEFFQQNQTGNIMSRVTEDTSTLSDSLSENLSLFLWYLVRGLCLLGIMLWGSVSLTMVTLITLPLLFLLPKKVGKWYQLLEVQVRESLAKSSQVAIEALSAMPTVRSFANEEGEAQKFREKLQEIKTLNQKEAVAYAVNSWTTSISGMLLKVGILYIGGQLVTSGAVSSGNLVTFVLYQMQFTQAVEVLLSIYPRVQKAVGSSEKIFEYLDRTPRCPPSGLLTPLHLEGLVQFQDVSFAYPNRPDVLVLQGLTFTLRPGEVTALVGPNGSGKSTVAALLQNLYQPTGGQLLLDGKPLPQYEHRYLHRQVAAVGQEPQVFGRSLQENIAYGLTQKPTMEEITAAAVKSGAHSFISGLPQGYDTEVDEAGSQLSGGQRQAVALARALIRKPCVLILDDATSALDANSQLQVEQLLYESPERYSRSVLLITQHLSLVEQADHILFLEGGAIREGGTHQQLMEKKGCYWAMVQAPADAPE*
>1D_helix;3
protein_name:Arginine permease (yeast)
file_name:ArgPerm-yeast.txt
entry_date:19may98
refman_number:13872
endnote_number:
author:Ahmed,M., Bussey,H. (1988) [Topology of membrane insertion in vitro and plasma membrane assembly in vivo of the yeast arginine permease] {Mol Microbiol, 2, 627-635}
remarks:Sequence from Swiss-Prot. TMhelices=10.
pir_number:QRBYPR
Swiss_Prot_entry:CAN1_YEAST
Swiss_Prot_number:P04817
Swiss_Prot_gene:CAN1,YEL063C
Swiss_Prot_name:Arginine permease
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:10
tm_segments:A.119,150;B.158,188;C.225,250;D.260,285;E.287,301;F.330,340;G.412,445;H.450,470;I.475,520;J.525,558
sequence:MTNSKEDADIEEKHMYNEPVTTLFHDVEASQTHHRRGSIPLKDEKSKELYPLRSFPTRVNGEDTFSMEDGIGDEDEGEVQNAEVKRELKQRHIGMIALGGTIGTGLFIGLSTPLTNAGPVGALISYLFMGSLAYSVTQSLGEMATFIPVTSSFTVFSQRFLSPAFGAANGYMYWFSWAITFALELSVVGQVIQFWTYKVPLAAWISIFWVIITIMNLFPVKYYGEFEFWVASIKVLAIIGFLIYCFCMVCGAGVTGPVGFRYWRNPGAWGPGIISKDKNEGRFLGWVSSLINAAFTFQGTELVGITAGEAANPRKSVPRAIKKVVFRILTFYIGSLLFIGLLVPYNDPKLTQSTSYVSTSPFIIAIENSGTKVLPHIFNAVILTTIISAANSNIYVGSRILFGLSKNKLAPKFLSRTTKGGVPYIAVFVTAAFGALAYMETSTGGDKVFEWLLNITGVAGFFAWLFISISHIRFMQALKYRGISRDELPFKAKLMPGLAYYAATFMTIIIIIQGFTAFAPKFNGVSFAAAYISIFLFLAVWILFQCIFRCRFIWKIGDVDIDSDRRDIEAIVWEDHEPKTFWDKFWNVVA*
>1D_helix;111
protein_name:ArsB protein (E. coli)
file_name:ArsB_ATPase.txt
entry_date:6Aug02
refman_number:14032
endnote_number:
author:Wu,J.H., Tisa,L.S., Rosen,B.P. (1992) [Membrane topology of the ArsB protein, the membrane subunit of an anion-translocating ATPase] {J Biol Chem, 267, 12570-12576}
remarks:Sequence from Swiss-Prot. TMhelices=12.
pir_number:B25937
Swiss_Prot_entry:ARB1_ECOLI
Swiss_Prot_number:P08691
Swiss_Prot_gene:ARSB
Swiss_Prot_name:Arsenical pump membrane protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:12
tm_segments:A.6,26;B.60,80;C.93,111;D.121,141;E.149,168;F.178,197;G.221,241;H.246,263;I.280,299;J.317,336;K.351,371;L.401,421
sequence:MLLAGAIFILTIVLVIWQPKGLGIGWSATLGAVLALASGVIHIADIPVVWNIVWNATATFIAVIIISLLLDESGFFEWAALHVSRWGNGRGRLLFTYIVLLGAAVAALFANDGAALILTPIVIAMLLALGFSKSTTLAFVMAAGFISDTASLPLIVSNLVNIVSADFFKLGFTEYASVMVPVDIAAIIATLVMLHLFFRKDIPPTYELARLKEPAKAIKDPATFRTGWVVLLLLLVGFFVLEPMGIPVSAIAAVGAAVLFAVAKKGHGINTGKVLRGAPWQIVIFSLGMYLVIYGLRNAGLTDYLSDVLNELADKGLWAATLGTGFLTALLSSIMNNMPTVLIGALSIDGSTATGVIKEAMIYANVIGCDLGPKITPIGSLATLLWLHVLSQKNMTITWGYYFRTGIVMTLPVLFVTLAALALRLSVTL*
>1D_helix;5
protein_name:colicin A immunity protein (C. freundii)
file_name:colicinA-immunity.txt
entry_date:19may98
refman_number:13598
endnote_number:
author:Geli, V., Baty,D., Pattus,F., Lazdunski,C. (1989) [Topology and function of the integral membrane protein conferring immunity to colicin A] {Mol Microbiol, 3, 679-687}
remarks:Sequence from Swiss-Prot. It differs slightly from that of cited paper. TMhelices=4.
pir_number:IMEBAC
Swiss_Prot_entry:IMMA_CITFR
Swiss_Prot_number:P05701
Swiss_Prot_gene:CAI
Swiss_Prot_name:Colicin A immunity protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:4
tm_segments:A.14,37;B.69,89;C.106,123;D.143,166
sequence:MMNEHSIDTDNRKANNALYLFIIIGLIPLLCIFVVYYKTPDALLLRKIATSTENLPSITSSYNPLMTKVMDIYCKTAPFLALILYILTFKIRKLINNTDRNTVLRSCLLSPLVYAAIVYLFCFRNFELTTAGRPVRLMATNDATLLLFYIGLYSIIFFTTYITLFTPVTAFKLLKKRQ*
>1D_helix;23
protein_name:colicin E1 immunity protein (E. coli)
file_name:E1_immunity.txt
entry_date:20may98
refman_number:13609
endnote_number:
author:Song,H.Y., Cramer,W.A. (1991) [Membrane topography of ColE1 gene products: The immunity protein] {J Bacteriol, 173, 2935-2943}
remarks:Sequence from Swiss-Prot. TMhelices=3.
pir_number:IMECE1
Swiss_Prot_entry:IMM1_ECOLI
Swiss_Prot_number:P02985
Swiss_Prot_gene:IMM
Swiss_Prot_name:Colicin E1 immunity protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:3
tm_segments:A.8,29;B.44,66;C.83,105
sequence:MSLRYYIKNILFGLYCTLIYIYLITKNSEGYYFLVSDKMLYAIVISTILCPYSKYAIEYIAFNFIKKDFFERRKNLNNAPVAKLNLFMLYNLLCLVLAIPFGLLGLFISIKNN*
>1D_helix;21
protein_name:CpxA chemotaxis protein (E. coli)
file_name:Cpxa-chemotaxis.txt
entry_date:20may98
refman_number:13612
endnote_number:
author:Weber,R.F., Silverman,P.M. (1988) [The Cpx proteins of Escherichia coli K12: Structure of the CpxA polypeptide as an inner membrane component] {J Mol Biol, 203, 467-478}
remarks:Sequence from Swiss-Prot. TMhelices=2.
pir_number:S40855
Swiss_Prot_entry:CPXA_ECOLI
Swiss_Prot_number:P08336
Swiss_Prot_gene:CPXA,ECFB,SSD,EUP,B3911,C4863,Z5456,ECS4837
Swiss_Prot_name:Sensor protein cpxA
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:2
tm_segments:A.8,29;B.164,189
sequence:MIGSLTARIFAIFWLTLALVLMLVLMLPKLDSRQMTELLDSEQRQGLMIEQHVEAELANDPPNDLMWWRRLFRAIDKWAPPGQRLLLVTTEGRVIGAERSEMQIIRNFIGQADNADHPQKKKYGRVELVGPFSVRDGEDNYQLYLIRPASSSQSDFINLLFDRPLLLLIVTMLVSTPLLLWLAWSLAKPARKLKNAADEVAQGNLRQHPELEAGPQEFLAAGASFNQMVTALERMMTSQQRLLSDISHELRTPLTRLQLGTALLRRRSGESKELERIETEAQRLDSMINDLLVMSRNQQKNALVSETIKANQLWSEVLDNAAFEAEQMGKSLTVNFPPGPWPLYGNPNALESALENIVRNALRYSHTKIEVGFAVDKDGITITVDDDGPGVSPEDREQIFRPFYRTDEARDRESGGTGLGLAIVETAIQQHRGWVKAEDSPLGGLRLVIWLPLYKRS*
>1D_helix;77
protein_name:Cytosine Permease (E. coli)
file_name:Cytosine-perm.txt
entry_date:28sep99
refman_number:14056
endnote_number:
author:Danielsen,S., Boyd,D., Neuhard,J. (1995) [Membrane topology analysis of the Escherichia coli cytosine permease] {Microbiology, 141, 2905-2913}
remarks:Sequence from Swiss-Prot. TMhelices=12.
pir_number:S22661
Swiss_Prot_entry:CODB_ECOLI
Swiss_Prot_number:P25525
Swiss_Prot_gene:CODB,B0336,C0455
Swiss_Prot_name:Cytosine permease
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:12
tm_segments:A.20,39;B.52,71;C.101,120;D.128,147;E.153,172;F.193,212;G.223,242;H.258,277;I.301,320;J.322,341;K.359,378;L.381,400
sequence:MSQDNNFSQGPVPQSARKGVLALTFVMLGLTFFSASMWTGGTLGTGLSYHDFFLAVLIGNLLLGIYTSFLGYIGAKTGLTTHLLARFSFGVKGSWLPSLLLGGTQVGWFGVGVAMFAIPVGKATGLDINLLIAVSGLLMTVTVFFGISALTVLSVIAVPAIACLGGYSVWLAVNGMGGLDALKAVVPAQPLDFNVALALVVGSFISAGTLTADFVRFGRNAKLAVLVAMVAFFLGNSLMFIFGAAGAAALGMADISDVMIAQGLLLPAIVVLGLNIWTTNDNALYASGLGFANITGMSSKTLSVINGIIGTVCALWLYNNFVGWLTFLSAAIPPVGGVIIADYLMNRRRYEHFATTRMMSVNWVAILAVALGIAAGHWLPGIVPVNAVLGGALSYLILNPILNRKTTAAMTHVEANSVE*
>1D_helix;11
protein_name:diacylglycerol kinase (E. coli)
file_name:DAGK.txt
entry_date:19May98
refman_number:14048
endnote_number:
author:Smith,R.L., O'Toole,J.F., Maguire,M.E., Sanders,C.R,Jr. (1994) [Membrane topology of Escherichia coli diacylglycerol kinase] {J Bacteriol, 176, 5459-5465}
remarks:Sequence from Swiss-Prot. TMhelices=3.
pir_number:KIECDG
Swiss_Prot_entry:KDGL_ECOLI
Swiss_Prot_number:P00556
Swiss_Prot_gene:DGKA,B4042,C5013,Z5641,ECS5025,SF4163
Swiss_Prot_name:Diacylglycerol kinase
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:3
tm_segments:A.32,48;B.51,68;C.95,118
sequence:ANNTTGFTRIIKAAGYSWKGLRAAWINEAAFRQEGVAVLLAVVIACWLDVDAITRVLLISSVMLVMIVEILNSAIEAVVDRIGSEYHELSGRAKDMGSAAVLIAIIVAVITWCILLWSHFG*
>1D_helix;112
protein_name:FtsL
file_name:FtsL_Cell_div_protein.txt
entry_date:6Aug02
refman_number:14045
endnote_number:
author:Guzman,L.-M., Barondess,J.J., Beckwith,J. (1992) [FtsL, an essential cytoplasmic membrane protein involved in cell division in Escherichia coli] {J Bacteriol, 174, 7716-7728}
remarks:Sequence is from Swiss_Prot. TMhelices=1.
pir_number:A45278
Swiss_Prot_entry:FTSL_ECOLI
Swiss_Prot_number:P22187
Swiss_Prot_gene:FTSL,MRAR,B0083,C0101,Z0093,ECS0087,SF0080
Swiss_Prot_name:Cell division protein ftsL
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:1
tm_segments:A.38,57
sequence:MISRVTEALSKVKGSMGSHERHALPGVIGDDLLRFGKLPLCLFICIILTAVTVVTTAHHTRLLTAQREQLVLERDALDIEWRNLILEENALGDHSRVERIATEKLQMQHVDPSQENIVVQK*
>1D_helix;12
protein_name:FtsQ cell division protein (E. coli)
file_name:ftsQ.txt
entry_date:19may98
refman_number:13596
endnote_number:
author:Carson,M.J., Barondess,J., Beckwith,J. (1991) [The ftsQ protein of Escherichia coli: Membrane topology, abundance, and cell division phenotypes due to overproduction and insertion mutations] {J Bacteriol, 173, 2187-2195}
remarks:Sequence from Swiss-Prot. TMhelices=1.
pir_number:CEECQ
Swiss_Prot_entry:FTSQ_ECOLI
Swiss_Prot_number:P06136
Swiss_Prot_gene:FTSQ,B0093
Swiss_Prot_name:Cell division protein ftsQ
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:1
tm_segments:A.25,50
sequence:MSQAALNTRNSEEEVSSRRNNGTRLAGILFLLTVLTTVLVSGWVVLGWMEDAQRLPLSKLVLTGERHYTRNDDIRQSILALGEPGTFMTQDVNIIQTQIEQRLPWIKQVSVRKQWPDELKIHLVEYVPIARWNDQHMVDAEGNTFSVPPERTSKQVLPMLYGPEGSANEVLQGYREMGQMLAKDRFTLKEAAMTARRSWQLTLNNDIKLNLGRGDTMKRLARFVELYPVLQQQAQTDGKRISYVDLRYDSGAAVGWAPLPPEESTQQQNQAQAEQQ*
>1D_helix;184
protein_name:Gamma secretase APH-1 subunit (human)
file_name:APH-1.txt
entry_date:12feb04
refman_number:21318
endnote_number:
author:Fortna,R.R., Crystal,A.S., Morais,V.A., Pijak,D.S., Lee,V.M.-Y., Doms,R.W. (2004) [Membrane topology and nicastrin-enhanced endoproteolysis of APH-1, a component of the g-secretase complex] {J Biol Chem, 279, 3685-3693}
remarks:Located in ER. in = ER lumen. The sequence is from Swiss-Prot, which differs in the C-terminus from the sequence published in the paper. In the paper, beginning at residue 241, the terminal sequence is QRSLLCDK. In Swiss-Prot, the terminal sequence is QRSLLCRRQEDSRVMVYSALRIPPED
pir_number:
Swiss_Prot_entry:AP1A_HUMAN
Swiss_Prot_number:Q96BI3
Swiss_Prot_gene:APH1A,PSF
Swiss_Prot_name:Gamma-secretase subunit APH-1A
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:7
tm_segments:A.6,26;B.32,55;C.71,91;D.118,138;E.156,179;F.188,208;G.214,238
sequence:MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVTDRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYVSGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFDACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSLRSIQRSLLCRRQEDSRVMVYSALRIPPED*
>1D_helix;95
protein_name:gamma-aminobutyrate transporter (E. coli)
file_name:gabP.txt
entry_date:29jun01
refman_number:19706
endnote_number:
author:Hu,L.A., King,S.C. (1998) [Membrane topology of the Escherichia coli gamma-aminobutyrate transporter: implications on the topography and mechanism of prokaryotic and eukaryotic transporters from the APC superfamily] {Biochem. J., 336, 69-76}
remarks:Sequence is from Swiss-Prot. TMhelices=12.
pir_number:H65045
Swiss_Prot_entry:GABP_ECOLI
Swiss_Prot_number:P25527
Swiss_Prot_gene:GABP,B2663
Swiss_Prot_name:GABA permease
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:12
tm_segments:A.18,40;B.42,63;C.87,109;D.123,145;E.158,180;F.195,217;G.244,266;H.288,310;I.333,356;J.362,384;K.398,420;L.427,449
sequence:MGQSSQPHELGGGLKSRHVTMLSIAGVIGASLFVGSSVAIAEAGPAVLLAYLFAGLLVVMIMRMLAEMAVATPDTGSFSTYADKAIGRWAGYTIGWLYWWFWVLVIPLEANIAAMILHSWVPGIPIWLFSLVITLALTGSNLLSVKNYGEFEFWLALCKVIAILAFIFLGAVAISGFYPYAEVSGISRLWDSGGFMPNGFGAVLSAMLITMFSFMGAEIVTIAAAESDTPEKHIVRATNSVIWRISIFYLCSIFVVVALIPWNMPGLKAVGSYRSVLELLNIPHAKLIMDCVILLSVTSCLNSALYTASRMLYSLSRRGDAPAVMGKINRSKTPYVAVLLSTGAAFLTVVVNYYAPAKVFKFLIDSSGAIALLVYLVIAVSQLRMRKILRAEGSEIRLRMWLYPWLTWLVIGFITFVLVVMLFRPAQQLEVISTGLLAIGIICTVPIMARWKKLVLWQKTPVHNTR*
>1D_helix;144
protein_name:gamma-secretase component PEN-2 (Caenorhabditis elegans)
file_name:PEN_2.txt
entry_date:4dec03
refman_number:20995
endnote_number:
author:Crystal,A.S., Morais,V.A., Pierson,T.C., Pijak,D.S., Carlin,D., Lee,V.M.-Y., Doms,R.W. (2003) [Membrane topology of gamma-secretase component PEN-2] {J Biol Chem, 278, 20117-20123}
remarks:Sequence is from Swiss_Prot. Helix assignments from Swiss-Prot. TMhelices=2.
pir_number:T25417
Swiss_Prot_entry:PEN2_CAEEL
Swiss_Prot_number:Q9U357
Swiss_Prot_gene:PEN-2,T28D6.9
Swiss_Prot_name:Gamma-secretase subunit pen-2
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:2
tm_segments:A.18,38;B.58,78
sequence:MDISKLTDVKKVDLCKKYFLIGACFLPLVWIVNTFWFFSDAFCKPINAHRRQIRKYVIASIVGSIFWIIVLSAWEIFFQHYRAQGLVWTDFLTFVFPTGRV*
>1D_helix;76
protein_name:Glucose 6-PO4 translocase (human)
file_name:Glu6Pho_trans.txt
entry_date:25aug99
refman_number:17609
endnote_number:
author:Pan,C.-J., Lin,B., Chou,J.Y. (1999) [Transmembrane topology of human glucose 6-phosphate transporter] {J Biol Chem, 274, 13865-13869}
remarks:Sequence from Swiss-Prot. TMhelices=10.
pir_number:
Swiss_Prot_entry:G6PU_HUMAN
Swiss_Prot_number:O43826
Swiss_Prot_gene:G6PT1,G6PT
Swiss_Prot_name:Glucose 6-phosphate translocase
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:10
tm_segments:A.8,26;B.78,107;C.137,163;D.169,187;E.220,239;F.265,283;G.303,320;H.329,349;I.367,388;J.396,414
sequence:MAAQGYGYYRTVIFSAMFGGYSLYYFNRKTFSFVMPSLVEEIPLDKDDLGFITSSQSAAYAISKFVSGVLSDQMSARWLFSSGLLLVGLVNIFFAWSSTVPVFAALWFLNGLAQGLGWPPCGKVLRKWFEPSQFGTWWAILSTSMNLAGGLGPILATILAQSYSWRSTLALSGALCVVVSFLCLLLIHNEPADVGLRNLDPMPSEGKKGSLKEESTLQELLLSPYLWVLSTGYLVVFGVKTCCTDWGQFFLIQEKGQSALVGSSYMSALEVGGLVGSIAAGYLSDRAMAKAGLSNYGNPRHGLLLFMMAGMTVSMYLFRVTVTSDSPKLWILVLGAVFGFSSYGPIALFGVIANESAPPNLCGTSHAIVGLMANVGGFLAGLPFSTIAKHYSWSTAFWVAEVICAASTAAFFLLRNIRTKMGRVSKKAE*
>1D_helix;216
protein_name:H+-translocating pyrophosphatase (Streptomyces coelilcolor)
file_name:H+PPase_Scoelilcolor.txt
entry_date:08mar05
refman_number:21569
endnote_number:
author:Mimura,H., Nakanishi,Y., Hirono,M., Maeshima,M. (2004) [Membrane topology of the H+-pyrophosphatase of Streptomyces coelicolor determined by cysteine-scanning mutagenesis] {J Biol Chem, 279, 35106-35112}
remarks:Sequence from Swiss-Prot
pir_number:T36668
Swiss_Prot_entry:HPPA_STRCO
Swiss_Prot_number:Q9X913
Swiss_Prot_gene:hppA
Swiss_Prot_name:Pyrophosphate-energized proton pump
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:17
tm_segments:A.20,39;B.75,91;C.101,123;D.164,186;E.201,213;F.260,278;G.284,306;H.319,341;I.365,387;J.408,430;K.445,467;L.512,534;M.563,585;N.629,651;O.655,677;P.716,737;Q.747,766
sequence:MAELPTSHLAAAVLTDGNRALVAVIAVVALAALVLAGVLVRQVLAAGEGTDSMKKIAAAVQEGANAYLARQLRTLGVFAVVVFFLLMLLPADDWNQRAGRSIFFLIGAAFSAATGYIGMWLAVRSNVRVAAAAREATPAPGEPEKDLALVSHKATKIAFRTGGVVGMFTVGLGLLGACCVVLVYAADAPKVLEGFGLGAALIAMFMRVGGGIFTKAADVGADLVGKVEQGIPEDDPRNAATIADNVGDNVGDCAGMAADLFESYAVTLVAALILGKVAFGDFGLAFPLLVPAIGVLTAMIGIFAVAPRRSDRSGMSAINRGFFISAVISLVLVAVAVFVYLPGKYADLDGVTDAAIAGKSGDPRILALVAVAIGIVLAALIQQLTGYFTETTRRPVKDIGKSSLTGPATVVLAGISLGLESAVYTALLIGLGVYGAFLLGGTSIMLALFAVALAGTGLLTTVGVIVAMDTFGPVSDNAQGIAEMSGDVEGAGAQVLTDLDAVGNTTKAITKGIAIATAVLAAAALFGSYRDAITTGAADVGEKLSGEGAPMTLMMDISQPNNLVGLIAGAAVVFLFSGLAINAVSRSAGAVVYEVRRQFRERPGIMDYSEKPEYGKVVDICTRDALRELATPGLLAVMAPIFIGFTLGVGALGAFLAGAIGAGTLMAVFLANSGGSWDNAKKLVEDGHHGGKGSEAHAATVIGDTVGDPFKDTAGPAINPLLKVMNLVALLIAPAVIKFSYGADKSVVVRVLIAVVAFAVIAAAVYVSKRRGIAMGDEDDADPEPKSADPAVVS*
>1D_helix;91
protein_name:High-affinity nickel transporter (A. eutrophus)
file_name:Ni_xport_Aeutrop.txt
entry_date:30aug00
refman_number:14052
endnote_number:
author:Eitinger,T., Friedrich, B. (1994) [A topological model for the high-affinity nickel transporter of Alcaligenes eutrophus] {Mol Microbiol, 12, 1025-1032}
remarks:Sequence from PIR, which corresponds to sequence in cited reference. The Swiss-Prot sequence is considerably longer at the C-terminus. TMhelices=7.
pir_number:A39512
Swiss_Prot_entry:HOXN_ALCEU
Swiss_Prot_number:P23516
Swiss_Prot_gene:HOXN
Swiss_Prot_name:High-affinity nickel transport protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:7
tm_segments:A.20,40;B.52,72;C.95,115;D.129,149;E.200,220;F.244,264;G.270,290
sequence:MFQLLAGVRMNSTGRPRAKIILLYALLIAFNIGAWLCALAAFRDHPVLLGTALLAYGLGLRHAVDADHLAAIDNVTRKLMQDGRRPITAGLWFSLGHSSVVVLASVLIAVMATTLQERLDRFHEVGSVIGTLASALFLFAIAAINLVILRSAYRAFRRVRRGGIYVEEDFDLLFGNRGFLARIFRPLFRFITRSWHMYPLGMLFALGFDTATEVALLGISTMEASRGVPIWSILVFPALFTAGMALIDTIDSILMCGAYAWAYAKPVRKLYYNMTITFVSAIVALIVGGIETLASWPTSSC*
>1D_helix;14
protein_name:His periplasmic permease. M protein (S. typhimurium)
file_name:HisPerm-M.txt
entry_date:19may98
refman_number:13601
endnote_number:
author:Kerppola,R.E., Ferro-Luzzi Ames, G. (1992) [Topology of the hydrophobic membrane-bound components of the histidine periplasmic permease: Comparison with other members of the family] {J Biol Chem, 267, 2329-2336}
remarks:Sequence from Swiss-Prot. TMhelices=5.
pir_number:MMEBMT
Swiss_Prot_entry:HISM_SALTY
Swiss_Prot_number:P02912
Swiss_Prot_gene:HISM,STM2352,STY2582
Swiss_Prot_name:Histidine transport system permease protein hisM
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:5
tm_segments:A.20,57;B.68,85;C.100,128;D.159,182;E.200,221
sequence:MIEIIQEYWKSLLWTDGYRFTGVAITLWLLISSVVMGGLLAVILAVGRVSSNKFIRFPIWLFTYIFRGTPLYVQLLVFYSGMYTLEIVKGTDLLNAFFRSGLNCTVLALTLNTCAYTTEIFAGAIRSVPHGEIEAARAYGFSSFKMYRCIILPSALRIALPAYSNEVILMLHSTALAFTATVPDLLKIARDINSATYQPFTAFGIAAVLYLLISYVLISLFRRAERRWLQHVSSK*
>1D_helix;15
protein_name:His periplasmic permease. Q protein (S. typhimurium)
file_name:HisPerm-Q.txt
entry_date:19may98
refman_number:13601
endnote_number:
author:Kerppola,R.E., Ferro-Luzzi Ames, G. (1992) [Topology of the hydrophobic membrane-bound components of the histidine periplasmic permease: Comparison with other members of the family] {J Biol Chem, 267, 2329-2336}
remarks:Sequence from Swiss-Prot. TMhelices=5.
pir_number:MMEBQT
Swiss_Prot_entry:HISQ_SALTY
Swiss_Prot_number:P02913
Swiss_Prot_gene:HISQ,STM2353,STY2583
Swiss_Prot_name:Histidine transport system permease protein hisQ
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:5
tm_segments:A.19,37;B.57,80;C.92,109;D.149,173;E.192,215
sequence:MLYGFSGVILQGAIVTLELALSSVVLAVLIGLVGAGAKLSQNRVTGLIFEGYTTLIRGVPDLVLMLLIFYGLQIALNVVTDSLGIDQIDIDPMVAGIITLGFIYGAYFTETFRGAFMAVPKGHIEAATAFGFTHGQTFRRIMFPAMMRYALPGIGNNWQVILKATALVSLLGLEDVVKATQLAGKSTWEPFYFAVVCGLIYLVFTTVSNGVLLLLERRYSVGVKRADL*
>1D_helix;24
protein_name:HMG-CoA. HMG1 gene (yeast)
file_name:HMG-1.txt
entry_date:20may98
refman_number:2598
endnote_number:
author:Sengstag,C., Stirling,C., Schekman,R., Rine,J. (1990) [Genetic and biochemical evaluation of eucaryotic membrane protein topology: Multiple transmembrane domains of Saccharomyces cerevisiae 3-hydroxy-3-methylglutaryl coenzyme A reductase] {Mol Cell Biol, 10, 672-680}
remarks:For Nterm, in = cytoplasm. Sequence from Swiss-Prot. TMhelices=7.
pir_number:A30239
Swiss_Prot_entry:HMD1_YEAST
Swiss_Prot_number:P12683
Swiss_Prot_gene:HMG1,YML075C
Swiss_Prot_name:3-hydroxy-3-methylglutaryl-coenzyme A reductase 1
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:7
tm_segments:A.26,55;B.187,212;C.241,270;D.295,324;E.333,358;F.400,425;G.500,525
sequence:MPPLFKGLKQMAKPIAYVSRFSAKRPIHIILFSLIISAFAYLSVIQYYFNGWQLDSNSVFETAPNKDSNTLFQECSHYYRDSSLDGWVSITAHEASELPAPHHYYLLNLNFNSPNETDSIPELANTVFEKDNTKYILQEDLSVSKEISSTDGTKWRLRSDRKSLFDVKTLAYSLYDVFSENVTQADPFDVLIMVTAYLMMFYTIFGLFNDMRKTGSNFWLSASTVVNSASSLFLALYVTQCILGKEVSALTLFEGLPFIVVVVGFKHKIKIAQYALEKFERVGLSKRITTDEIVFESVSEEGGRLIQDHLLCIFAFIGCSMYAHQLKTLTNFCILSAFILIFELILTPTFYSAILALRLEMNVIHRSTIIKQTLEEDGVVPSTARIISKAEKKSVSSFLNLSVVVIIMKLSVILLFVFINFYNFGANWVNDAFNSLYFDKERVSLPDFITSNASENFKEQAIVSVTPLLYYKPIKSYQRIEDMVLLLLRNVSVAIRDRFVSKLVLSALVCSAVINVYLLNAARIHTSYTADQLVKTEVTKKSFTAPVQKASTPVLTNKTVISGSKVKSLSSAQSSSSGPSSSSEEDDSRDIESLDKKIRPLEELEALLSSGNTKQLKNKEVAALVIHGKLPLYALEKKLGDTTRAVAVRRKALSILAEAPVLASDRLPYKNYDYDRVFGACCENVIGYMPLPVGVIGPLVIDGTSYHIPMATTEGCLVASAMRGCKAINAGGGATTVLTKDGMTRGPVVRFPTLKRSGACKIWLDSEEGQNAIKKAFNSTSRFARLQHIQTCLAGDLLFMRFRTTTGDAMGMNMISKGVEYSLKQMVEEYGWEDMEVVSVSGNYCTDKKPAAINWIEGRGKSVVAEATIPGDVVRKVLKSDVSALVELNIAKNLVGSAMAGSVGGFNAHAANLVTAVFLALGQDPAQNVESSNCITLMKEVDGDLRISVSMPSIEVGTIGGGTVLEPQGAMLDLLGVRGPHATAPGTNARQLARIVACAVLAGELSLCAALAAGHLVQSHMTHNRKPAEPTKPNNLDATDINRLKDGSVTCIKS*
>1D_helix;25
protein_name:HMG-CoA. HMG2 gene (yeast)
file_name:HMG-2.txt
entry_date:20may98
refman_number:2598
endnote_number:
author:Sengstag,C., Stirling,C., Schekman,R., Rine,J. (1990) [Genetic and biochemical evaluation of eucaryotic membrane protein topology: Multiple transmembrane domains of Saccharomyces cerevisiae 3-hydroxy-3-methylglutaryl coenzyme A reductase] {Mol Cell Biol, 10, 672-680}
remarks:For Nterm, in = cytoplasm. Sequence from Swiss-Prot. TMhelices=7.
pir_number:B30239
Swiss_Prot_entry:HMD2_YEAST
Swiss_Prot_number:P12684
Swiss_Prot_gene:HMG2,YLR450W,L9324.2
Swiss_Prot_name:3-hydroxy-3-methylglutaryl-coenzyme A reductase 2
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:7
tm_segments:A.26,55;B.187,212;C.241,270;D.295,324;E.333,358;F.400,425;G.500,525
sequence:MSLPLKTIVHLVKPFACTARFSARYPIHVIVVAVLLSAAAYLSVTQSYLNEWKLDSNQYSTYLSIKPDELFEKCTHYYRSPVSDTWKLLSSKEAADIYTPFHYYLSTISFQSKDNSTTLPSLDDVIYSVDHTRYLLSEEPKIPTELVSENGTKWRLRNNSNFILDLHNIYRNMVKQFSNKTSEFDQFDLFIILAAYLTLFYTLCCLFNDMRKIGSKFWLSFSALSNSACALYLSLYTTHSLLKKPASLLSLVIGLPFIVVIIGFKHKVRLAAFSLQKFHRISIDKKITVSNIIYEAMFQEGAYLIRDYLFYISSFIGCAIYARHLPGLVNFCILSTFMLVFDLLLSATFYSAILSMKLEINIIHRSTVIRQTLEEDGVVPTTADIIYKDETASEPHFLRSNVAIILGKASVIGLLLLINLYVFTDKLNATILNTVYFDSTIYSLPNFINYKDIGNLSNQVIISVLPKQYYTPLKKYHQIEDSVLLIIDSVSNAIRDQFISKLLFFAFAVSISINVYLLNAAKIHTGYMNFQPQSNKIDDLVVQQKSATIEFSETRSMPASSGLETPVTAKDIIISEEIQNNECVYALSSQDEPIRPLSNLVELMEKEQLKNMNNTEVSNLVVNGKLPLYSLEKKLEDTTRAVLVRRKALSTLAESPILVSEKLPFRNYDYDRVFGACCENVIGYMPIPVGVIGPLIIDGTSYHIPMATTEGCLVASAMRGCKAINAGGGATTVLTKDGMTRGPVVRFPTLIRSGACKIWLDSEEGQNSIKKAFNSTSRFARLQHIQTCLAGDLLFMRFRTTTGDAMGMNMISKGVEYSLKQMVEEYGWEDMEVVSVSGNYCTDKKPAAINWIEGRGKSVVAEATIPGDVVKSVLKSDVSALVELNISKNLVGSAMAGSVGGFNAHAANLVTALFLALGQDPAQNVESSNCITLMKEVDGDLRISVSMPSIEVGTIGGGTVLEPQGAMLDLLGVRGPHPTEPGANARQLARIIACAVLAGELSLCSALAAGHLVQSHMTHNRKTNKANELPQPSNKGPPCKTSALL*
>1D_helix;185
protein_name:Insig-1 Lipid Synthesis Regulator (human)
file_name:Insig-1.txt
entry_date:27feb04
refman_number:21368
endnote_number:
author:Deramisco,J.D., Goldstein,J.L., Brown,M.S. (2004) [Membrane topology of human Insig-1, a protein regulator of lipid synthesis] {J Biol Chem, 279, 8487-8496}
remarks:Located in ER. in = ER lumen.
pir_number:
Swiss_Prot_entry:ISI1_HUMAN
Swiss_Prot_number:O15503
Swiss_Prot_gene:INSIG1
Swiss_Prot_name:Insulin-induced protein 1
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:6
tm_segments:A.88,107;B.118,144;C.161,179;D.186,204;E.211,230;F.246,263
sequence:MPRLHDHFWSCSCAHSARRRGPPRASTAGLPPKVGEMINVSVSGPSLLAAHGAPDADPAPRGRSAAMSGPEPGSPYPNTWHHRLLQRSLVLFSVGVVLALVLNLLQIQRNVTLFPEEVIATIFSSAWWVPPCCGTAAAVVGLLYPCIDSHLGEPHKFKREWASVMRCIAVFVGINHASAKLDFANNVQLSLTLAALSLGLWWTFDRSRSGLGLGITIAFLATLITQFLVYNGVYQYTSPDFLYIRSWLPCIFFSGGVTVGNIGRQLAMGVPEKPHSD*
>1D_helix;17
protein_name:maltose transport protein. malF (E.coli)
file_name:malF.txt
entry_date:19may98
refman_number:1663,3956
endnote_number:
author:Froshauer,S., Green,G.N., Boyd,D., McGovern,K., Beckwith,J. (1988) [Genetic analysis of the membrane insertion and topology of MalF, a cytoplasmic membrane protein of Escherichia coli] {J Mol Biol, 200, 501-511}
remarks:Topology verified in rfm# 3956. Sequence from Swiss-Prot. TMhelices=8.
pir_number:MMECMF
Swiss_Prot_entry:MALF_ECOLI
Swiss_Prot_number:P02916
Swiss_Prot_gene:MALF,B4033
Swiss_Prot_name:Maltose transport system permease protein malF
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:8
tm_segments:A.17,36;B.40,59;C.67,92;D.276,306;E.319,355;F.370,392;G.425,453;H.484,506
sequence:MDVIKKKHWWQSDALKWSVLGLLGLLVGYLVVLMYAQGEYLFAITTLILSSAGLYIFANRKAYAWRYVYPGMAGMGLFVLFPLVCTIAIAFTNYSSTNQLTFERAQEVLLDRSWQAGKTYNFGLYPAGDEWQLALSDGETGKNYLSDAFKFGGEQKLQLKETTAQPEGERANLRVITQNRQALSDITAILPDGNKVMMSSLRQFSGTQPLYTLDGDGTLTNNQSGVKYRPNNQIGFYQSITADGNWGDEKLSPGYTVTTGWKNFTRVFTDEGIQKPFLAIFVWTVVFSLITVFLTVAVGMVLACLVQWEALRGKAVYRVLLILPYAVPSFISILIFKGLFNQSFGEINMMLSALFGVKPAWFSDPTTARTMLIIVNTWLGYPYMMILCMGLLKAIPDDLYEASAMDGAGPFQNFFKITLPLLIKPLTPLMIASFAFNFNNFVLIQLLTNGGPDRLGTTTPAGYTDLLVNYTYRIAFEGGGGQDFGLAAAIATLIFLLVGALAIVNLKATRMKFD*
>1D_helix;18
protein_name:maltose transport protein. malG (E. coli)
file_name:malG.txt
entry_date:19may98
refman_number:4915
endnote_number:
author:Boyd,D., Traxler,B., Beckwith,J. (1993) [Analysis of the topology of a membrane protein by using a minimum number of alkaline phosphatase fusions] {J Bacteriol, 175, 553-556}
remarks:Sequence from Swiss-Prot. TMhelices=6.
pir_number:MMECMG
Swiss_Prot_entry:MALG_ECOLI
Swiss_Prot_number:P07622
Swiss_Prot_gene:MALG,B4032,C5002,Z5630,ECS5015,SF4173
Swiss_Prot_name:Maltose transport system permease protein malG
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:6
tm_segments:A.18,37;B.91,111;C.124,144;D.160,177;E.205,227;F.263,281
sequence:MAMVQPKSQKARLFITHLLLLLFIAAIMFPLLMVVAISLRQGNFATGSLIPEQISWDHWKLALGFSVEQADGRITPPPFPVLLWLWNSVKVAGISAIGIVALSTTCAYAFARMRFPGKATLLKGMLIFQMFPAVLSLVALYALFDRLGEYIPFIGLNTHGGVIFAYLGGIALHVWTIKGYFETIDSSLEEAAALDGATPWQAFRLVLLPLSVPILAVVFILSFIAAITEVPVASLLLRDVNSYTLAVGMQQYLNPQNYLWGDFAAAAVMSALPITIVFLLAQRWLVNGLTAGGVKG*
>1D_helix;26
protein_name:manitol permease (E. coli)
file_name:manitol-perm.txt
entry_date:20may98
refman_number:3903
endnote_number:
author:Sugiyama,J.E., Mahmoodian,S., Jacobson,G.R. (1991) [Membrane topology analysis of Escherichia coli mannitol permease by using a nested-deletion method to create mtlA-phoA fusions] {Proc Natl Acad Sci U S A, 88, 9603-9607}
remarks:Sequence from Swiss-Prot. TMhelices=6.
pir_number:WQEC2M
Swiss_Prot_entry:PTMA_ECOLI
Swiss_Prot_number:P00550
Swiss_Prot_gene:MTLA,B3599
Swiss_Prot_name:PTS system, mannitol-specific IIABC component
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:6
tm_segments:A.24,45;B.50,70;C.134,155;D.165,185;E.273,292;F.313,334
sequence:MSSDIKIKVQSFGRFLSNMVMPNIGAFIAWGIITALFIPTGWLPNETLAKLVGPMITYLLPLLIGYTGGKLVGGERGGVVGAITTMGVIVGADMPMFLGSMIAGPLGGWCIKHFDRWVDGKIKSGFEMLVNNFSAGIIGMILAILAFLGIGPIVEALSKMLAAGVNFMVVHDMLPLASIFVEPAKILFLNNAINHGIFSPLGIQQSHELGKSIFFLIEANPGPGMGVLLAYMFFGRGSAKQSAGGAAIIHFLGGIHEIYFPYVLMNPRLILAVILGGMTGVFTLTILGGGLVSPASPGSILAVLAMTPKGAYFANIAGVCAAMAVSFVVSAILLKTSKVKEEDDIEAATRRMQDMKAESKGASPLSAGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKIQDAGLSQISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQHISLTNFLDSGLYTSLTERLVAAQRHTANEEKVKDSLKDSFDDSSANLFKLGAENIFLGRKAATKEEAIRFAGEQLVKGGYVEPEYVQAMLDREKLTPTYLGESIAVPHGTVEAKDRVLKTGVVFCQYPEGVRFGEEEDDIARLVIGIAARNNEHIQVITSLTNALDDESVIERLAHTTSVDEVLELLAGRK*
>1D_helix;89
protein_name:melibiose carrier (Escherichia coli)
file_name:melb.txt
entry_date:27aug00
refman_number:14042
endnote_number:
author:Botfield, M. C., Naguchi, K., Tsuchiya, T., Wilson, T. H. (1992) [Membrane topology of the melibiose carrier of Escherichia coli] {J Biol Chem, 267, 1818-1822}
remarks:Sequence from Swiss-Prot. TMhelices=12.
pir_number:BDEC
Swiss_Prot_entry:MELB_ECOLI
Swiss_Prot_number:P02921
Swiss_Prot_gene:MELB,MEL-4,B4120
Swiss_Prot_name:Melibiose carrier protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:12
tm_segments:A.16,36;B.42,63;C.74,95;D.110,130;E.146,166;F.174,194;G.236,256;H.263,283;I.293,314;J.326,348;K.374,394;L.401,422
sequence:MTTKLSYGFGAFGKDFAIGIVYMYLMYYYTDVVGLSVGLVGTLFLVARIWDAINDPIMGWIVNATRSRWGKFKPWILIGTLANSVILFLLFSAHLFEGTTQIVFVCVTYILWGMTYTIMDIPFWSLVPTITLDKREREQLVPYPRFFASLAGFVTAGVTLPFVNYVGGGDRGFGFQMFTLVLIAFFIVSTIITLRNVHEVFSSDNQPSAEGSHLTLKAIVALIYKNDQLSCLLGMALAYNVASNIITGFAIYYFSYVIGDADLFPYYLSYAGAANLVTLVFFPRLVKSLSRRILWAGASILPVLSCGVLLLMALMSYHNVVLIVIAGILLNVGTALFWVLQVIMVADIVDYGEYKLHVRCESIAYSVQTMVVKGGSAFAAFFIAVVLGMIGYVPNVEQSTQALLGMQFIMIALPTLFFMVTLILYFRFYRLNGDTLRRIQIHLLDKYRKVPPEPVHADIPVGAVSDVKA*
>1D_helix;130
protein_name:metal-tetracycline/H+ antiporter (E. coli)
file_name:metal_tetracycline_antiporter.txt
entry_date:4dec03
refman_number:20407
endnote_number:
author:Tamura,N., Konishi,S., Iwaki,S., Kimura-Someya,T., Nada,S., Yamaguchi,A. (2001) [Complete cysteine-scanning mutagenesis and site-directed chemical modification of the Tn10-encoded metal-tetracycline/H+ antiporter] {J Biol Chem, 276, 20330-20339}
remarks:Sequence is from Swiss_Prot. TMhelices=12.
pir_number:YTECT0
Swiss_Prot_entry:TCR2_ECOLI
Swiss_Prot_number:P02980
Swiss_Prot_gene:TETA
Swiss_Prot_name:TETA(B), Metal-tetracycline/H+ antiporter
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:12
tm_segments:A.5,25;B.45,61;C.73,91;D.99,118;E.136,152;F.159,178;G.212,234;H.244,265;I.276,295;J.299,322;K.337,360;L.367,386
sequence:MNSSTKIALVITLLDAMGIGLIMPVLPTLLREFIASEDIANHFGVLLALYALMQVIFAPWLGKMSDRFGRRPVLLLSLIGASLDYLLLAFSSALWMLYLGRLLSGITGATGAVAASVIADTTSASQRVKWFGWLGASFGLGLIAGPIIGGFAGEISPHSPFFIAALLNIVTFLVVMFWFRETKNTRDNTDTEVGVETQSNSVYITLFKTMPILLIIYFSAQLIGQIPATVWVLFTENRFGWNSMMVGFSLAGLGLLHSVFQAFVAGRIATKWGEKTAVLLGFIADSSAFAFLAFISEGWLVFPVLILLAGGGIALPALQGVMSIQTKSHQQGALQGLLVSLTNATGVIGPLLFAVIYNHSLPIWDGWIWIIGLAFYCIIILLSMTFMLTPQAQGSKQETSA*
>1D_helix;88
protein_name:MotA protein (E. coli)
file_name:MotA.txt
entry_date:26aug00
refman_number:6994,19012
endnote_number:
author:Zhou, J., Fazzio, R. T., Blair, D. F. (1995) [Membrane topology of the MotA protein of Escherichia coli] {J Mol Biol, 251, 237-242}
remarks:Some TM helix ends estimated by White Lab. Sequence from Swiss-Prot. TMhelices=4.
pir_number:QRECMA
Swiss_Prot_entry:MOTA_ECOLI
Swiss_Prot_number:P09348
Swiss_Prot_gene:MOTA,B1890
Swiss_Prot_name:Chemotaxis motA protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:4
tm_segments:A.2,21;B.28,46;C.164,190;D.198,227
sequence:MLILLGYLVVLGTVFGGYLMTGGSLGALYQPAELVIIAGAGIGSFIVGNNGKAIKGTLKALPLLFRRSKYTKAMYMDLLALLYRLMAKSRQMGMFSLERDIENPRESEIFASYPRILADSVMLDFIVDYLRLIISGHMNTFEIEALMDEEIETHESEAEVPANSLALVGDSLPAFGIVAAVMGVVHALGSADRPAAELGALIAHAMVGTFLGILLAYGFISPLATVLRQKSAETSKMMQCVKVTLLSNLNGYAPPIAVEFGRKTLYSSERPSFIELEEHVRAVKNPQQQTTTEEA*
>1D_helix;19
protein_name:MotB chemotaxis protein (E. coli)
file_name:MotB.txt
entry_date:19may98
refman_number:1414
endnote_number:
author:Chun,S.Y., Parkinson,J.S. (1988) [Bacterial motility: Membrane topology of the Escherichia coli MotB protein] {Science, 239, 276-278}
remarks:Sequence from Swiss-Prot. TMhelices=1.
pir_number:QRECMB,C85802
Swiss_Prot_entry:MOTB_ECOLI
Swiss_Prot_number:P09349
Swiss_Prot_gene:MOTB,B1889,Z2943,ECS2599
Swiss_Prot_name:Chemotaxis motB protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:1
tm_segments:A.28,50
sequence:MKNQAHPIIVVKRRKAKSHGAAHGSWKIAYADFMTAMMAFFLVMWLISISSPKELIQIAEYFRTPLATAVTGGDRISNSESPIPGGGDDYTQSQGEVNKQPNIEELKKRMEQSRLRKLRGDLDQLIESDPKLRALRPHLKIDLVQEGLRIQIIDSQNRPMFRTGSADVEPYMRDILRAIAPVLNGIPNRISLSGHTDDFPYASGEKGYSNWELSADRANASRRELMVGGLDSGKVLRVVGMAATMRLSDRGPDDAVNRRISLLVLNKQAEQAILHENAESQNEPVSALEKPEVAPQVSVPTMPSAEPR*
>1D_helix;94
protein_name:Na+/proline transporter (E. coli)
file_name:Na+_proline.txt
entry_date:29jun01
refman_number:18654
endnote_number:
author:Wegener,C., Tebbe,S., Steinhoff,H.-J., Jung,H. (2000) [Spin labeling analysis of structure and dynamics of the Na+/proline transporter of Escherichia coli] {Biochemistry, 39, 4831-4837}
remarks:Sequence is from Swiss-Prot. TMhelices=13.
pir_number:JGECPP
Swiss_Prot_entry:PUTP_ECOLI
Swiss_Prot_number:P07117
Swiss_Prot_gene:PUTP,B1015
Swiss_Prot_name:Sodium/proline symporter
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:13
tm_segments:A.3,27;B.40,67;C.75,96;D.124,150;E.161,184;F.188,212;G.229,256;H.273,295;I.321,349;J.367,389;K.394,421;L.425,445;M.447,470
sequence:MAISTPMLVTFCVYIFGMILIGFIAWRSTKNFDDYILGGRSLGPFVTALSAGASDMSGWLLMGLPGAVFLSGISESWIAIGLTLGAWINWKLVAGRLRVHTEYNNNALTLPDYFTGRFEDKSRILRIISALVILLFFTIYCASGIVAGARLFESTFGMSYETALWAGAAATILYTFIGGFLAVSWTDTVQASLMIFALILTPVIVIISVGGFGDSLEVIKQKSIENVDMLKGLNFVAIISLMGWGLGYFGQPHILARFMAADSHHSIVHARRISMTWMILCLAGAVAVGFFGIAYFNDHPALAGAVNQNAERVFIELAQILFNPWIAGILLSAILAAVMSTLSCQLLVCSSAITEDLYKAFLRKHASQKELVWVGRVMVLVVALVAIALAANPENRVLGLVSYAWAGFGAAFGPVVLFSVMWSRMTRNGALAGMIIGALTVIVWKQFGWLGLYEIIPGFIFGSIGIVVFSLLGKAPSAAMQKRFAEADAHYHSAPPSRLQES*
>1D_helix;96
protein_name:NAD(P) transhydrogenase, alpha (Escherichia coli)
file_name:NADP_transhydrogenase_a.txt
entry_date:29jun01
refman_number:18679
endnote_number:
author:Meuller,J., Rydström,J. (1999) [the membrane topology of proton-pumping Escherichia coli transhydrogenase determined by cysteine labeling] {J. Biol. Chem., 274, 19072-19080}
remarks:Sequence is from Swiss-Prot. TMhelices=4.
pir_number:DEECXA
Swiss_Prot_entry:PNTA_ECOLI
Swiss_Prot_number:P07001
Swiss_Prot_gene:PNTA,B1603
Swiss_Prot_name:NAD(P) transhydrogenase subunit alpha
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:4
tm_segments:A.403,421;B.424,445;C.452,472;D.478,498
sequence:MRIGIPRERLTNETRVAATPKTVEQLLKLGFTVAVESGAGQLASFDDKAFVQAGAEIVEGNSVWQSEIILKVNAPLDDEIALLNPGTTLVSFIWPAQNPELMQKLAERNVTVMAMDSVPRISRAQSLDALSSMANIAGYRAIVEAAHEFGRFFTGQITAAGKVPPAKVMVIGAGVAGLAAIGAANSLGAIVRAFDTRPEVKEQVQSMGAEFLELDFKEEAGSGDGYAKVMSDAFIKAEMELFAAQAKEVDIIVTTALIPGKPAPKLITREMVDSMKAGSVIVDLAAQNGGNCEYTVPGEIFTTENGVKVIGYTDLPGRLPTQSSQLYGTNLVNLLKLLCKEKDGNITVDFDDVVIRGVTVIRAGEITWPAPPIQVSAQPQAAQKAAPEVKTEEKCTCSPWRKYALMALAIILFGWMASVAPKEFLGHFTVFALACVVGYYVVWNVSHALHTPLMSVTNAISGIIVVGALLQIGQGGWVSFLSFIAVLIASINIFGGFTVTQRMLKMFRKN*
>1D_helix;97
protein_name:NAD(P) transhydrogenase, beta (Escherichia coli)
file_name:NADP_transhydrogenase_b.txt
entry_date:29jun01
refman_number:18679
endnote_number:
author:Meuller,J., Rydström,J. (1999) [the membrane topology of proton-pumping Escherichia coli transhydrogenase determined by cysteine labeling] {J. Biol. Chem., 274, 19072-19080}
remarks:Sequence is from Swiss-Prot. TMhelices=9.
pir_number:DEECXB,D90917
Swiss_Prot_entry:PNTB_ECOLI
Swiss_Prot_number:P07002
Swiss_Prot_gene:PNTB,B1602,C1994,Z2597,ECS2308,SF1623
Swiss_Prot_name:NAD(P) transhydrogenase subunit beta
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:9
tm_segments:A.4,25;B.32,52;C.56,75;D.84,104;E.125,144;F.162,181;G.186,207;H.216,236;I.240,260
sequence:MSGGLVTAAYIVAAILFIFSLAGLSKHETSRQGNNFGIAGMAIALIATIFGPDTGNVGWILLAMVIGGAIGIRLAKKVEMTEMPELVAILHSFVGLAAVLVGFNSYLHHDAGMAPILVNIHLTEVFLGIFIGAVTFTGSVVAFGKLCGKISSKPLMLPNRHKMNLAALVVSFLLLIVFVRTDSVGLQVLALLIMTAIALVFGWHLVASIGGADMPVVVSMLNSYSGWAAAAAGFMLSNDLLIVTGALVGSSGAILSYIMCKAMNRSFISVIAGGFGTDGSSTGDDQEVGEHREITAEETAELLKNSHSVIITPGYGMAVAQAQYPVAEITEKLRARGINVRFGIHPVAGRLPGHMNVLLAEAKVPYDIVLEMDEINDDFADTDTVLVIGANDTVNPAAQDDPKSPIAGMPVLEVWKAQNVIVFKRSMNTGYAGVQNPLFFKENTHMLFGDAKASVDAILKAL*
>1D_helix;128
protein_name:NhaB Na/H antiporter (Vibrio alginolyticus)
file_name:NhaB.txt
entry_date:2may03
refman_number:20122
endnote_number:
author:Enomoto,H., Unemoto,T., Nishibuchi,M., Padan,E., Nakamura,T. (1998) [Topological study of Vibrio alginolyticus NhaB Na+/H+ antiporter using gene fusions in Escherichia coli cells] {Biochim Biophys Acta, 1370, 77-86}
remarks:Sequence is from TrEMBL. TMhelices=9.
pir_number:
Swiss_Prot_entry:Q56577
Swiss_Prot_number:
Swiss_Prot_gene:NHABV
Swiss_Prot_name:Sodium-hydrogen antiporter
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:9
tm_segments:A.23,43;B.96,115;C.138,156;D.244,262;E.301,319;F.321,340;G.352,370;H.392,411;I.481,500
sequence:MPISLGNAFIKNFLGKAPDWYKVAIIAFLIINPIVFFLINPFVAGWLLVAEFIFTLAMALKCYPLQPGGLLAIEAIAIGMTSPAQVKHELVANIEVLLLLVFMVAGIYFMKHLLLFIFTKILLGIRSKTLLSLAFCFAAAFLSAFLDALTVIAVVISVAIGFYSIYHKVASGNPIGDHDHTQDDTITELTRDDLENYRAFLRSLLMHAGVGTALGGVTTMVGEPQNLIIADQAGWLFGEFLIRMSPVTLPVFFCGLITCALVEKLKVFGYGAKLPNNVRQILVDFDNEERKTRTNQDVAKLWVQGLIAVWLIVALALHLAAVGLIGLSVIILATAFTGVIEEHSMGKAFEEALPFTALLAVFFSIVAVIIDQELFKPVIDAVLAVEDKGTQLALFYVANGLLSMVSDNVFVGTVYINEVKTALIEGLITREQFDLLAVAINTGTNLPSVATPNGQAAFLFLLTSALAPLIRLSYGRMVIMALPYTIVLAIVGLMGIMFFLEPATASFYDAGWILPHSGDLTPVVSGGH*
>1D_helix;183
protein_name:Nramp (Escherichia coli)
file_name:Nramp.txt
entry_date:02feb04
refman_number:21319
endnote_number:
author:Courville,P., Chaloupka,R., Veyrier,F., Cellier,M.F.M. (2004) [Determination of transmembrane topology of the Escherichia coli natural resistance-associated macrophage protein (Nramp) otholog] {J Biol Chem, 279, 3318-3326}
remarks:
pir_number:G91037
Swiss_Prot_entry:MNTH_ECOLI
Swiss_Prot_number:P77145
Swiss_Prot_gene:MNTH,B2392,C2931,Z3658,ECS3271
Swiss_Prot_name:Manganese transport protein mntH
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:11
tm_segments:A.20,38;B.49,71;C.92,114;D.121,145;E.156,174;F.195,219;G.239,262;H.281,302;I.324,344;J.351,371;K.388,408
sequence:MTNYRVESSSGRAARKMRLALMGPAFIAAIGYIDPGNFATNIQAGASFGYQLLWVVVWANLMAMLIQILSAKLGIATGKNLAEQIRDHYPRPVVWFYWVQAEIIAMATDLAEFIGAAIGFKLILGVSLLQGAVLTGIATFLILMLQRRGQKPLEKVIGGLLLFVAAAYIVELIFSQPNLAQLGKGMVIPSLPTSEAVFLAAGVLGATIMPHVIYLHSSLTQHLHGGSRQQRYSATKWDVAIAMTIAGFVNLAMMATAAAAFHFSGHTGVADLDEAYLTLQPLLSHAAATVFGLSLVAAGLSSTVVGTLAGQVVMQGFIRFHIPLWVRRTVTMLPSFIVILMGLDPTRILVMSQVLLSFGIALALVPLLIFTSDSKLMGDLVNSKRVKQTGWVIVVLVVALNIWLLVGTALGL*
>1D_helix;230
protein_name:O-antigen polymerase (Shigella flexneri)
file_name:O-antigen_polymerase_Sflexneri.txt
entry_date:27july05
refman_number:21866
endnote_number:
author:Daniels,C., Vindurampulle,C., Morona,R. (1998) [Overexpression and topology of the Shigella flexneri O-antigen polymerase (Rfc/Wzy)] {Mol Microbiol, 28, 1211-1222}
remarks:Sequence from Swiss-Prot
pir_number:C36966
Swiss_Prot_entry:RFC_SHIFL
Swiss_Prot_number:P37784
Swiss_Prot_gene:rfc
Swiss_Prot_name:O-antigen polymerase
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:12
tm_segments:A.4,22;B.35,54;C.63,81;D.95,112;E.126,146;F.168,187;G.190,206;H.209,226;I.230,247;J.301,318;K.330,349;L.353,370
sequence:MNNINKIFITFLCIELIIGGGGRLLEPLGIFPLRYLLFVFSFILLIFNLVTFNFSITQKCVSLFIWLLLFPFYGFFVGLLAGNKINDILFDVQPYLFMLSLIYLFTLRYTLKVFSCEIFIKIVNAFALYGSLLYISYIILLNFGLLNFNLIYEHLSLTSEFFFRPDGAFFSKSFYFFGVGAIISFVDKKYLKCLIIVLAILLTESRGVLLFTTLSLLLASFKLHKLYLNTIIIILGSVLFIIMLYMVGSRSEDSDSVRFNDLYFYYKNVDLATFLFGRGFGSFILDRLRIEIVPLEILQKTGVIGVFISLVPMLLIFLKGYFLNSTKTSLMMSLILFFSITVSITNPFLFTPMGIFIIGVVVLWVFSIENIQISNNLTSGAK*
>1D_helix;71
protein_name:plant light-harvesting complex (pea)
file_name:LHc-pea.txt
entry_date:05may99
refman_number:5872,17188,17186
endnote_number:
author:Kühlbrandt,W., Wang,D.N., Fujiyoshi,Y. (1994) [Atomic model of plant light-harvesting complex by electron crystallography] {Nature, 367, 614-621}
remarks:Sequence is processed sequence (37 AA signal sequence removed). Stroma = in.
pir_number:CDPM80
Swiss_Prot_entry:CB22_PEA
Swiss_Prot_number:P07371
Swiss_Prot_gene:AB80
Swiss_Prot_name:Chlorophyll A-B binding protein AB80, chloroplast [Precursor]
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:3
tm_segments:A.55,89;B.123,143;C.170,199
sequence:RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGCVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSYATNFVPGK*
>1D_helix;126
protein_name:sec61p (Saccharomyces cerevisiae)
file_name:sec61p.txt
entry_date:2may03
refman_number:9870
endnote_number:
author:Wilkinson,B.M., Critchley,A.J., Stirling,C.J. (1996) [Determination of the transmembrane topology of yeast Sec61p, an essential component of the endoplasmic reticulum translocation complex] {J Biol Chem, 271, 25590-25597}
remarks:Sequence is from Swiss-Prot. TMhelices=10.
pir_number:A60043
Swiss_Prot_entry:S61A_YEAST
Swiss_Prot_number:P32915
Swiss_Prot_gene:SEC61,YLR378C,L3502.5
Swiss_Prot_name:Protein transport protein SEC61 alpha subunit
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:10
tm_segments:A.33,55;B.76,95;C.120,141;D.147,167;E.213,224;F.241,260;G.291,311;H.362,381;I.417,434;J.438,459
sequence:MSSNRVLDLFKPFESFLPEVIAPERKVPYNQKLIWTGVSLLIFLILGQIPLYGIVSSETSDPLYWLRAMLASNRGTLLELGVSPIITSSMIFQFLQGTQLLQIRPESKQDRELFQIAQKVCAIILILGQALVVVMTGNYGAPSDLGLPICLLLIFQLMFASLIVMLLDELLSKGYGLGSGISLFTATNIAEQIFWRAFAPTTVNSGRGKEFEGAVIAFFHLLAVRKDKKRALVEAFYRTNLPNMFQVLMTVAIFLFVLYLQGFRYELPIRSTKVRGQIGIYPIKLFYTSNTPIMLQSALTSNIFLISQILFQKYPTNPLIRLIGVWGIRPGTQGPQMALSGLAYYIQPLMSLSEALLDPIKTIVYITFVLGSCAVFSKTWIEISGTSPRDIAKQFKDQGMVINGKRETSIYRELKKIIPTAAAFGGATIGALSVGSDLLGTLGSGASILMATTTIYGYYEAAAKEGGFTKNLVPGFSDLM*
>1D_helix;110
protein_name:TetA tetracycline resistance protein (E. coli)
file_name:tet-A.txt
entry_date:6Aug02
refman_number:14041
endnote_number:
author:Allard,J.D., Bertrand,K.P. (1992) [Membrane topology of the pBR322 tetracycline resistance protein: TetA-PhoA gene fusions and implications for the mechanism of TetA membrane insertion] {J Biol Chem, 267, 17809-17819}
remarks:Sequence from Swiss-Prot. TMhelices=12.
pir_number:YTEC32
Swiss_Prot_entry:TCR3_ECOLI
Swiss_Prot_number:P02981
Swiss_Prot_gene:TETA
Swiss_Prot_name:Tetracycline resistance protein, class C
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:12
tm_segments:A.7,27;B.46,66;C.80,100;D.104,124;E.139,159;F.161,181;G.211,231;H.247,267;I.278,298;J.300,320;K.340,360;L.365,385
sequence:MKSNNALIVILGTVTLDAVGIGLVMPVLPGLLRDIVHSDSIASHYGVLLALYALMQFLCAPVLGALSDRFGRRPVLLASLLGATIDYAIMATTPVLWILYAGRIVAGITGATGAVAGAYIADITDGEDRARHFGLMSACFGVGMVAGPVAGGLLGAISLHAPFLAAAVLNGLNLLLGCFLMQESHKGERRPMPLRAFNPVSSFRWARGMTIVAALMTVFFIMQLVGQVPAALWVIFGEDRFRWSATMIGLSLAVFGILHALAQAFVTGPATKRFGEKQAIIAGMAADALGYVLLAFATRGWMAFPIMILLASGGIGMPALQAMLSRQVDDDHQGQLQGSLAALTSLTSITGPLIVTAIYAASASTWNGLAWIVGAALYLVCLPALRRGAWSRATST*
>1D_helix;70
protein_name:tetracycline efflux protein. Tet(K) (S. aureus)
file_name:tet-k.txt
entry_date:3may99
refman_number:16910
endnote_number:
author:Hirata,T., Fujihira,E., Kimura-Someya,T., Yamaguchi,A. (1998) [Membrane topology of the Staphylococcal tetracycline efflux protein Tet(K) determined by antibacterial resistance gene fusion] {J Biochem, 124, 1206-1211}
remarks:Sequence is from PIR, which is the same as sequence used in the reference cited. The Swiss-Prot sequence is considerably shorter at the C-terminus. TMhelices=14.
pir_number:S42238
Swiss_Prot_entry:TCR_STAAU
Swiss_Prot_number:P02983
Swiss_Prot_gene:TET
Swiss_Prot_name:Tetracycline resistance protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:14
tm_segments:A.14,36;B.47,70;C.80,101;D.107,126;E.142,163;F.167,187;G.200,218;H.224,240;I.259,281;J.291,314;K.323,344;L.346,366;M.387,411;N.431,452
sequence:MFSLYKKFKGLFYSVLFWLCILSFFSVLNEMVLNVSLPDIANHFNTTPGITNWVNTAYMLTFSIGTAVYGKLSDYINIKKLLIIGISLSCLGSLIAFIGHNHFFILIFGRLVQGVGSAAFPSLIMVVVARNITRKKQGKAFGFIGSIVALGEGLGPSIGGIIAHYIHWSYLLILPMITIVTIPFLIKVMVPGKSTKNTLDIVGIVLMSISIICFMLFTTNYNWTFLILFTIFFVIFIKHISRVSNPFINPKLGKNIPFMLGLFSGGLIFSIVAGFISMVPYMMKTIYHVNVATIGNSVIFPGTMSVIVFGYFGGFLVDRKGSLFVFILGSLSISISFLTIAFFVEFSMWLTTFMFIFVMGGLSFTKTVISKIVSSSLSEEEVASGMSLLNFTSFLSEGTGIAIVGGLLSLQLINRKLVLEFINYSSGVYSNILVAMAILIILCCLLTIIVFKRSEKQFE*
>1D_helix;90
protein_name:TolQ protein (Escherichia coli)
file_name:TolQ.txt
entry_date:30aug00
refman_number:14047
endnote_number:
author:Vianney, A., Lewin, T. M., Beyer, W. F., Jr., Lazzaroni, J. C., Portailier, R., Webster, R. E. (1994) [Membrane topology and mutational analysis of hte TolQ protein of Escherichia coli required for the uptake of macromolecules and cell envelope integrity] {J Bacteriol, 176, 822-829}
remarks:Sequence from Swiss-Prot. TMhelices=3.
pir_number:BVECTQ
Swiss_Prot_entry:TOLQ_ECOLI
Swiss_Prot_number:P05828
Swiss_Prot_gene:TOLQ,FII,B0737,Z0905,ECS0772,SF0560
Swiss_Prot_name:TolQ protein
PDB_title:
PDB_Identifier:
N_terminal:out
number_tmsegs:3
tm_segments:A.20,38;B.136,156;C.175,193
sequence:MTDMNILDLFLKASLLVKLIMLILIGFSIASWAIIIQRTRILNAAAREAEAFEDKFWSGIELSRLYQESQGKRDNLTGSEQIFYSGFKEFVRLHRANSHAPEAVVEGASRAMRISMNRELENLETHIPFLGTVGSISPYIGLFGTVWGIMHAFIALGAVKQATLQMVAPGIAEALIATAIGLFAAIPAVMAYNRLNQRVNKLELNYDNFMEEFTAILHRQAFTVSESNKG*
>1D_helix;1
protein_name:VirA sensory protein (A. tumefaciens)
file_name:VirA.txt
entry_date:16may98
refman_number:13614
endnote_number:
author:Melchers,L.S.,Regensburg-Tuïnk,T.J.G., Bourret,R.B., Sedee,N.J.A., Schilperoort,R.A., Hooykaas,P.J.J. (1989) [Membrane topology and functional analysis of the sensory protein VirA of Agrobacterium tumefaciens] {EMBO J, 8, 1919-1925}
remarks:Sequence from Swiss-Prot. TMhelices=2.
pir_number:S04035
Swiss_Prot_entry:VIRA_AGRT9
Swiss_Prot_number:P10799
Swiss_Prot_gene:VIRA
Swiss_Prot_name:Wide host range virA protein
PDB_title:
PDB_Identifier:
N_terminal:in
number_tmsegs:2
tm_segments:A.18,39;B.260,280
sequence:MNGRYSPTRQDFKTGAKPWSILALIVAAMIFAFMAVASWQDNATTQAILSQLRSINADSASLQRDVLRAHTGTVANYRPIISRLGALRKNLEDLKQLFRQSHIVSESNAAQLLRQLEVSLNSADAAVAAFGAQNVRLQDSLASFTRALSSLPGKASTDQTLEKPTELASMMLQFLRQPSPAISFEISLELERLQKQRGLDEAPVRILAREGPIILSLLPQVKDLVNMIQTSDTAEIAEMLQRECLEVYSLKNVEERSARIFLGSASVGLCLYIITLVYRLRKKTDWLARRLDYEELIKEIGVCFEGEAATTSSAQAALRIIQRFFDADTCALALVDHDRRWAVETFGAKHPKPVWDDSVLREIVSRTKADERATVFRIISSKKIVHLPLEIPGLSILLAHKSTDKLIAVCSLGYQSYRPRPCQGEIQLLELATACLCHYIDVRRKQTECDVLARRLEHAQRLEAVGTLAGGIAHEFNNILGSILGHAELAQNSVSRTSVTRRYIDYIISSGDRAMLIIDQILTLSRKQERMIKPFSVSELVTEIAPLLRMALPPNIELSFRFDQMQSVIEGSPLELQQVLINICKNASQAMTANGQIDIIISQAFLPVKKILAHGVMPPGDYVLLSISDNGGGIPEAVLPHIFEPFFTTRARNGGTGLGLASVHGHISAFAGYIDVSSTVGHGTRFDIYLPPSSKEPVNPDSFFGRNKAPRGNGEIVALVEPDDLLREAYEDKIAALGYEPVGFRTFNEIRDWISKGNEADLVMVDQASLPEDQSPNSVDLVLKTASIIIGGNDLKMTLSREDVTRDLYLPKPISSRTMAHAILTKIKT*
>3D_other;36
protein_name:alpha-hemolysin (S. aureus)
file_name:alphaHEMO_saur.txt
entry_date:29may98
refman_number:9544
endnote_number:
author:Song,L., Hobaugh,M.R., Shustak,C., Cheley,S., Bayley,H., Gouaux,J.E. (1996) [Structure of staphylococcal alpha-hemolysin, a heptameric transmembrane pore] {Science, 274, 1859-1866}
remarks:Heptameric beta-barrel toxin. Strands=2. Processed sequence from Swiss-Prot for monomer is shown (26 AA signal sequence removed), which is the same as sequence in PDB file.
pir_number:S69209
Swiss_Prot_entry:HLA_STAAU
Swiss_Prot_number:P09616
Swiss_Prot_gene:HLY,HLA
Swiss_Prot_name:Alpha-hemolysin [Precursor]
PDB_title:alpha-hemolysin from Staphylococcus aureus
PDB_Identifier:7AHL
N_terminal:out
number_tmsegs:2
tm_segments:A.110,126;B.132,148
sequence:ADSDINIKTGTTDIGSNTTVKTGDLVTYDKENGMHKKVFYSFIDDKNHNKKLLVIRTKGTIAGQYRVYSEEGANKSGLAWPSAFKVQLQLPDNEVAQISDYYPRNSIDTKEYMSTLTYGFNGNVTGDDTGKIGGLIGANVSIGHTLKYVQPDFKTILESPTDKKVGWKVIFNNMVNQNWGPYDRDSWNPVYGNQLFMKTRNGSMKAADNFLDPNKASSLLSSGFSPDFATVITMDRKASKQQTNIDVIYERVRDDYQLHWTSTNWKGTNTKDKWTDRSSERYKIDWEKEEMTN*
>3D_other;220
protein_name:FadL (E. coli)
file_name:FadL_Ecoli.txt
entry_date:08mar05
refman_number:21644
endnote_number:
author:Van den Berg,B., Black,P.N., Clemons,W.M.,Jr., Rapoport,T.A. (2004) [Crystal structure of the long-chain fatty acid transporter FadL] {Science, 304, 1506-1509}
remarks:Monomeric, 14-stranded beta-barrel. N terminus in hatch domain. Sequence from PDB. Sequence in Swiss-Prot file has additional 25 aa at the beginning as a signal sequence. Sequence in PDB doesn't have a signal sequence so res#1 in PDB file corresponds to res#26 in Swiss-Prot file.
pir_number:F65007
Swiss_Prot_entry:FADL_ECOLI
Swiss_Prot_number:P10384
Swiss_Prot_gene:fadL
Swiss_Prot_name:Long-chain fatty acid transport protein [Precursor]
PDB_title:Crystal structure of the bacterial fatty acid transporter FadL from Escherichia coli
PDB_Identifier:1T16, 1T1L
N_terminal:out
number_tmsegs:14
tm_segments:A.44,60;B.76,87;C.92,107;D.120,134;E.140,156;F.199,218;G.221,240;H.263,284;I.287,308;J.313,333;K.339,348;L.366,376;M.381,399;N.402,420
sequence:AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF*
>3D_other;124
protein_name:fatty acid amide hydrolase* (Rattus norvegicus)
file_name:FAAH.txt
entry_date:13may03
refman_number:20709
endnote_number:
author:Bracey,M.H., Hanson,M.A., Masuda,K.R., Stevens,R.C., Cravatt,B.F. (2002) [Structural adaptations in a membrane enzyme that terminates endocannabinoid signaling] {Science, 298, 1793-1796}
remarks:Monotopic membrane protein. Although this protein has a single transmembrane segment (tmseg A), it is classified as monotopic because the active site is external to the membrane. The binding of the protein to membranes is unaffected by removal of tmseg A. 'tmseg' B below refers to a helix-turn-helix motif that causes tight membrane association. Sequence is from Swiss-Prot. TMhelices=1.
pir_number:
Swiss_Prot_entry:FAAH_RAT
Swiss_Prot_number:P97612
Swiss_Prot_gene:FAAH
Swiss_Prot_name:Fatty-acid amide hydrolase
PDB_title:Fatty Acid Amide Hydrolase
PDB_Identifier:1MT5
N_terminal:out
number_tmsegs:2
tm_segments:A.7,29;B.410,438
sequence:MVLSEVWTTLSGVSGVCLACSLLSAAVVLRWTGRQKARGAATRARQKQRASLETMDKAVQRFRLQNPDLDSEALLTLPLLQLVQKLQSGELSPEAVFFTYLGKAWEVNKGTNCVTSYLTDCETQLSQAPRQGLLYGVPVSLKECFSYKGHDSTLGLSLNEGMPSESDCVVVQVLKLQGAVPFVHTNVPQSMLSFDCSNPLFGQTMNPWKSSKSPGGSSGGEGALIGSGGSPLGLGTDIGGSIRFPSAFCGICGLKPTGNRLSKSGLKGCVYGQTAVQLSLGPMARDVESLALCLKALLCEHLFTLDPTVPPLPFREEVYRSSRPLRVGYYETDNYTMPSPAMRRALIETKQRLEAAGHTLIPFLPNNIPYALEVLSAGGLFSDGGRSFLQNFKGDFVDPCLGDLILILRLPSWFKRLLSLLLKPLFPRLAAFLNSMRPRSAEKLWKLQHEIEMYRQSVIAQWKAMNLDVLLTPMLGPALDLNTPGRATGAISYTVLYNCLDFPAGVVPVTTVTAEDDAQMELYKGYFGDIWDIILKKAMKNSVGLPVAVQCVALPWQEELCLRFMREVEQLMTPQKQPS*
>3D_other;172
protein_name:FecA (E. coli)
file_name:FecA.txt
entry_date:31dec03
refman_number:20197
endnote_number:
author:Ferguson,A.D., Chakraborty,R., Smith,B.S., Esser,L., van der Helm,D., Deisenhofer,J. (2002) [Structural basis of gating by the outer membrane transporter FecA] {Science, 295, 1715-1719}
remarks:Monomeric beta-barrel. Strands=22. Sequence is the processed sequence from Swiss-Prot (33 AA signal sequence removed).
pir_number:QRECFA
Swiss_Prot_entry:FECA_ECOLI
Swiss_Prot_number:P13036
Swiss_Prot_gene:FECA,B4291
Swiss_Prot_name:Iron(III) dicitrate transport protein fecA [Precursor]
PDB_title:Iron(III) Dicitrate Transport Protein Feca
PDB_Identifier:1KMO,1KMP
N_terminal:in
number_tmsegs:22
tm_segments:A.223,235;B.242,254;C.258,269;D.279,289;E.296,305;F.338,346;G.352,362;H.382,393;I.402,413;J.447,456;K.460,470;L.488,499;M.505,515;N.536,546;O.551,562;P.582,592;Q.604,614;R.634,643;S.647,657;T.681,692;U.698,709;V.732,741
sequence:AQVNIAPGSLDKALNQYAAHSGFTLSVDASLTRGKQSNGLHGDYDVESGLQQLLDGSGLQVKPLGNNSWTLEPAPAPKEDALTVVGDWLGDARENDVFEHAGARDVIRREDFAKTGATTMREVLNRIPGVSAPENNGTGSHDLAMNFGIRGLNPRLASRSTVLMDGIPVPFAPYGQPQLSLAPVSLGNMDAIDVVRGGGAVRYGPQSVGGVVNFVTRAIPQDFGIEAGVEGQLSPTSSQNNPKETHNLMVGGTADNGFGTALLYSGTRGSDWREHSATRIDDLMLKSKYAPDEVHTFNSLLQYYDGEADMPGGLSRADYDADRWQSTRPYDRFWGRRKLASLGYQFQPDSQHKFNIQGFYTQTLRSGYLEQGKRITLSPRNYWVRGIEPRYSQIFMIGPSAHEVGVGYRYLNESTHEMRYYTATSSGQLPSGSSPYDRDTRSGTEAHAWYLDDKIDIGNWTITPGMRFEHIESYQNNAITGTHEEVSYNAPLPALNVLYHLTDSWNLYANTEGSFGTVQYSQIGKAVQSGNVEPEKARTWELGTRYDDGALTAEMGLFLINFNNQYDSNQTNDTVTARGKTRHTGLETQARYDLGTLTPTLDNVSIYASYAYVNAEIREKGDTYGNLVPFSPKHKGTLGVDYKPGNWTFNLNSDFQSSQFADNANTVKESADGSTGRIPGFMLWGARVAYDFGPQMADLNLAFGVKNIFDQDYFIRSYDDNNKGIYAGQPRTLYMQGSLKF*
>3D_other;171
protein_name:FepA (E. coli)
file_name:FepA.txt
entry_date:31dec03
refman_number:16750
endnote_number:
author:Buchanan,S.K., Smith,B.S., Venkatramani,L., Xia,D., Esser,L., Palnitkar,M., Chakraborty,R., van der Helm,D., Deisenhofer,J. (1999) [Crystal structure of the outer membrane active transporter FepA from Eschericha coli] {Nature Struct Biol, 6, 56-63}
remarks:Monomeric beta-barrel. Strands=22. Sequence is processed sequence from Swiss-Prot (22 AA signal sequence removed).
pir_number:QRECFC
Swiss_Prot_entry:FEPA_ECOLI
Swiss_Prot_number:P05825
Swiss_Prot_gene:FEPA,FEP,FEUB,B0584
Swiss_Prot_name:Ferrienterobactin receptor [Precursor]
PDB_title:Ferric Enterobactin Receptor
PDB_Identifier:1FEP
N_terminal:in
number_tmsegs:22
tm_segments:A.154,164;B.172,182;C.187,197;D.229,241;E.245,255;F.283,293;G.302,313;H.343,356;I.360,371;J.408,419;K.424,434;L.441,451;M.456,467;N.505,517;O.521,532;P.560,574;Q.578,589;R.605,616;S.619,628;T.654,664;U.669,679;V.716,723
sequence:QEPTDTPVSHDDTIVVTAAEQNLQAPGVSTITADEIRKNPVARDVSKIIRTMPGVNLTGNSTSGQRGNNRQIDIRGMGPENTLILIDGKPVSSRNSVRQGWRGERDTRGDTSWVPPEMIERIEVLRGPAAARYGNGAAGGVVNIITKKGSGEWHGSWDAYFNAPEHKEEGATKRTNFSLTGPLGDEFSFRLYGNLDKTQADAWDINQGHQSARAGTYATTLPAGREGVINKDINGVVRWDFAPLQSLELEAGYSRQGNLYAGDTQNTNSDSYTRSKYGDETNRLYRQNYALTWNGGWDNGVTTSNWVQYEHTRNSRIPEGLAGGTEGKFNEKATQDFVDIDLDDVMLHSEVNLPIDFLVNQTLTLGTEWNQQRMKDLSSNTQALTGTNTGGAIDGVSTTDRSPYSKAEIFSLFAENNMELTDSTIVTPGLRFDHHSIVGNNWSPALNISQGLGDDFTLKMGIARAYKAPSLYQTNPNYILYSKGQGCYASAGGCYLQGNDDLKAETSINKEIGLEFKRDGWLAGVTWFRNDYRNKIEAGYVAVGQNAVGTDLYQWDNVPKAVVEGLEGSLNVPVSETVMWTNNITYMLKSENKTTGDRLSIIPEYTLNSTLSWQAREDLSMQTTFTWYGKQQPKKYNYKGQPAVGPETKEISPYSIVGLSATWDVTKNVSLTGGVDNLFDKRLWRAGNAQTTGDLAGANYIAGAGAYTYNEPGRTWYMSVNTHF*
>3D_other;139
protein_name:Ferric hydroxamate uptake receptor (E. coli)
file_name:FhuA.txt
entry_date:4dec03
refman_number:16897,16894
endnote_number:
author:Ferguson,A.D., Hofmann,E., Coulton,J.W., Diederichs,K., Welte,W. (1998) [Siderophore-mediated iron transport: Crystal structure of FhuA with bound lipopolysaccharide] {Science, 282, 2215-2220}
remarks:Monomeric beta-barrel. Strands=22. Sequence is processed sequence from Swiss-Prot (33 AA signal sequence removed).
pir_number:
Swiss_Prot_entry:FHUA_ECOLI
Swiss_Prot_number:P06971
Swiss_Prot_gene:FHUA,TONA,B0150
Swiss_Prot_name:Ferrichrome-iron receptor [Precursor]
PDB_title:ferric hydroxamate uptake receptor
PDB_Identifier:2FCP
N_terminal:in
number_tmsegs:22
tm_segments:A.160,168;B.174,182;C.190,198;D.213,221;E.227,235;F.280,288;G.294,302;H.355,363;I.371,380;J.432,441;K.444,453;L.476,485;M.489,497;N.520,528;O.533,541;P.569,578;Q.581,589;R.613,622;S.628,637;T.658,666;U.672,680;V.706,714
sequence:AVEPKEDTITVTAAPAPQESAWGPAATIAARQSATGTKTDTPIQKVPQSISVVTAEEMALHQPKSVKEALSYTPGVSVGTRGASNTYDHLIIRGFAAEGQSQNNYLNGLKLQGNFYNDAVIDPYMLERAEIMRGPVSVLYGKSSPGGLLNMVSKRPTTEPLKEVQFKAGTDSLFQTGFDFSDSLDDDGVYSYRLTGLARSANAQQKGSEEQRYAIAPAFTWRPDDKTNFTFLSYFQNEPETGYYGWLPKEGTVEPLPNGKRLPTDFNEGAKNNTYSRNEKMVGYSFDHEFNDTFTVRQNLRFAENKTSQNSVYGYGVCSDPANAYSKQCAALAPADKGHYLARKYVVDDEKLQNFSVDTQLQSKFATGDIDHTLLTGVDFMRMRNDINAWFGYDDSVPLLNLYNPSHHHHHHGSVNTDFDFNAKDPANSGPYRILNKQKQTGVYVQDQAQWDKVLVTLGGRYDWADQESLNRVAGTTDKRDDKQFTWRGGVNYLFDNGVTPYFSYSESFEPSSQVGKDGNIFAPSKGKQYEVGVKYVPEDRPIVVTGAVYNLTKTNNLMADPEGSFFSVEGGEIRARGVEIEAKAALSASVNVVGSYTYTDAEYTTDTTYKGNTPAQVPKHMASLWADYTFFDGPLSGLTLGTGGRYTGSSYGDPANSFKVGSYTVVDALVRYDLARVGMAGSNVALHVNNLFDREYVASCFNTYGCFWGAERQVVATATFRF*
>3D_other;253
protein_name:FptA (Pseudomonas aeruginosa)
file_name:FptA_Paeruginosa.txt
entry_date:29jan07
refman_number:
endnote_number:21943
author:Cobessi,D., Celia,H., Pattus, F. (2005) [Crystal structure at high resolution of ferric-pyochelin and its membrane receptor FptA from Pseudomonas aeruginosa] {J Mol Biol, 352, 893-904}
remarks:22-stranded beta-barrel. Sequence from Swiss-Prot.
pir_number:A36942
Swiss_Prot_entry:FPTA_PSEAE
Swiss_Prot_number:P42512
Swiss_Prot_gene:fptA
Swiss_Prot_name:Fe(3+)-pyochelin receptor [Precursor]
PDB_title:Pyochelin outer membrane receptor FptA from Pseudomonas aeruginosa
PDB_Identifier:1XKW
N_terminal:in
number_tmsegs:22
tm_segments:A.187,196;B.200,210;C.217,230;D.236,248;E.254,268;F.298,312;G.317,334;H.355,376;I.378,400;J.423,445;K.451,466;L.469,485;M.491,502;N.517,531;O.536,548;P.570,584;Q.589,602;R.621,631;S.638,654;T.657,674;U.679,686;V.710,720
sequence:MKTETKVIKGRQGIARNRHTPLCLGLLLALSPLAAAVADARKDGETELPDMVISGESTSATQPPGVTTLGKVPLKPRELPQSASVIDHERLEQQNLFSLDEAMQQATGVTVQPFQLLTTAYYVRGFKVDSFELDGVPALLGNTASSPQDMAIYERVEILRGSNGLLHGTGNPAATVNLVRKRPQREFAASTTLSAGRWDRYRAEVDVGGPLSASGNVRGRAVAAYEDRDYFYDVADQGTRLLYGVTEFDLSPDTLLTVGAQYQHIDSITNMAGVPMAKDGSNLGLSRDTYLDVDWDRFKWDTYRAFGSLEQQLGGGWKGKVSAEYQEADSRLRYAGSFGAIDPQTGDGGQLMGAAYKFKSIQRSLDANLNGPVRLFGLTHELLGGVTYAQGETRQDTARFLNLPNTPVNVYRWDPHGVPRPQIGQYTSPGTTTTTQKGLYALGRIKLAEPLTLVVGGRESWWDQDTPATRFKPGRQFTPYGGLIWDFARDWSWYVSYAEVYQPQADRQTWNSEPLSPVEGKTYETGIKGELADGRLNLSLAAFRIDLENNPQEDPDHPGPPNNPFYISGGKVRSQGFELEGTGYLTPYWSLSAGYTYTSTEYLKDSQNDSGTRYSTFTPRHLLRLWSNYDLPWQDRRWSVGGGLQAQSDYSVDYRGVSMRQGGYALVNMRLGYKIDEHWTAAVNVNNLFDRTYYQSLSNPNWNNRYGEPRSFNVSLRGAF*
>3D_other;256
protein_name:Hia autotransporter (Haemophilus influenzae)
file_name:Hia_Hinfluenzae.txt
entry_date:29jan07
refman_number:
endnote_number:22071
author:Meng,G., Surana,N.K., St. Geme,J.W.,III, Waksman,G. (2006) [Structure of the outer membrane translocator domain of the Haemophilus influenzae Hia trimeric autotransporter] {EMBO J, 25, 2297-2304}
remarks:Homotrimer. Monomer is a 4-stranded beta-barrel with one alpha-helix. The homotrimer thus has 3 alpha-helices burried inside a 12-stranded beta-barrel. Sequence for monomer from Swiss-Prot.
pir_number:
Swiss_Prot_entry:Q48152_HAEIN
Swiss_Prot_number:Q48152
Swiss_Prot_gene:hia
Swiss_Prot_name:Hia
PDB_title:Hia 1022-1098, Hia 992-1098
PDB_Identifier:2GR8, 2GR7
N_terminal:out
number_tmsegs:4
tm_segments:A.1044,1055;B.1058,1068;C.1074,1084;D.1087,1096
sequence:MNKIFNVIWNVVTQTWVVVSELTRTHTKCASATVAVAVLATLLSATVEANNNTPVTNKLKAYGDANFNFTNNSIADAEKQVQEAYKGLLNLNEKNASDKLLVEDNTAATVGNLRKLGWVLSSKNGTRNEKSQQVKHADEVLFEGKGGVQVTSTSENGKHTITFALAKDLGVKTATVSDTLTIGGGAAAGATTTPKVNVTSTTDGLKFAKDAAGANGDTTVHLNGIGSTLTDTLVGSPATHIDGGDQSTHYTRAASIKDVLNAGWNIKGVKAGSTTGQSENVDFVHTYDTVEFLSADTETTTVTVDSKENGKRTEVKIGAKTSVIKEKDGKLFTGKANKETNKVDGANATEDADEGKGLVTAKDVIDAVNKTGWRIKTTDANGQNGDFATVASGTNVTFASGNGTTATVTNGTDGITVKYDAKVGDGLKLDGDKIAADTTALTVNDGKNANNPKGKVADVASTDEKKLVTAKGLVTALNSLSWTTTAAEADGGTLDGNASEQEVKAGDKVTFKAGKNLKVKQEGANFTYSLQDALTGLTSITLGTGNNGAKTEINKDGLTITPANGAGANNANTISVTKDGISAGGQSVKNVVSGLKKFGDANFDPLTSSADNLTKQNDDAYKGLTNLDEKGTDKQTPVVADNTAATVGDLRGLGWVISADKTTGGSTEYHDQVRNANEVKFKSGNGINVSGKTVNGRREITFELAKGEVVKSNEFTVKETNGKETSLVKVGDKYYSKEDIDLTTGQPKLKDGNTVAAKYQDKGGKVVSVTDNTEATITNKGSGYVTGNQVADAIAKSGFELGLADEADAKAAFDDKTKALSAGTTEIVNAHDKVRFANGLNTKVSAATVESTDANGDKVTTTFVKTDVELPLTQIYNTDANGKKITKVVKDGQTKWYELNADGTADMTKEVTLGNVDSDGKKVVKDNDGKWYHAKADGTADKTKGEVSNDKVSTDEKHVVSLDPNDQSKGKGVVIDNVANGDISATSTDAINGSQLYAVAKGVTNLAGQVNNLEGKVNKVGKRADAGTASALAASQLPQATMPGKSMVAIAGSSYQGQNGLAIGVSRISDNGKVIIRLSGTTNSQGKTGVAAGVGYQW*
>3D_other;38
protein_name:maltoporin (E. coli)
file_name:Por_malto_ecoli.txt
entry_date:29may98
refman_number:6413
endnote_number:
author:Schirmer,T., Keller,T.A., Wang,Y.-F., Rosenbusch,J.P. (1995) [Structural basis for sugar translocation through maltoporin channels at 3.1 Å resolution] {Science, 267, 512-514}
remarks:Trimeric beta-barrel. Strands=18. Nterm in = periplasm. Sequence shown is processed sequence from Swiss-Prot (25 AA signal sequence removed), which is the same as sequence in PDB file. Related RM# 13837.
pir_number:QRECL
Swiss_Prot_entry:LAMB_ECOLI
Swiss_Prot_number:P02943
Swiss_Prot_gene:LAMB,MALB,B4036
Swiss_Prot_name:Maltoporin [Precursor]
PDB_title:maltoporin
PDB_Identifier:1MAL
N_terminal:in
number_tmsegs:18
tm_segments:A.2,14;B.40,53;C.56,68;D.80,89;E.99,105;F.124,132;G.138,148;H.167,179;I.186,196;J.211,223;K.226,238;L.267,280;M.284,296;N.303,316;O.320,333;P.339,352;Q.362,373;R.408,421
sequence:VDFHGYARSGIGWTGSGGEQQCFQTTGAQSKYRLGNECETYAELKLGQEVWKEGDKSFYFDTNVAYSVAQQNDWEATDPAFREANVQGKNLIEWLPGSTIWAGKRFYQRHDVHMIDFYYWDISGPGAGLENIDVGFGKLSLAATRSSEAGGSSSFASNNIYDYTNETANDVFDVRLAQMEINPGGTLELGVDYGRANLRDNYRLVDGASKDGWLFTAEHTQSVLKGFNKFVVQYATDSMTSQGKGLSQGSGVAFDNEKFAYNINNNGHMLRILDHGAISMGDNWDMMYVGMYQDINWDNDNGTKWWTVGIRPMYKWTPIMSTVMEIGYDNVESQRTGDKNNQYKITLAQQWQAGDSIWSRPAIRVFATYAKWDEKWGYDYTGNADNNANFGKAVPADFNGGSFGRGDSDEWTFGAQMEIWW*
>3D_other;39
protein_name:maltoporin (S. typhimurium)
file_name:Por_malto_styp.txt
entry_date:27may98
refman_number:10542
endnote_number:
author:Meyer,J.E.W., Hofnung,M., Schulz,G.E. (1997) [Structure of maltoporin from Salmonella typhimurium ligated with a nitrophenyl-maltotrioside] {J Mol Biol, 266, 761-775}
remarks:Trimeric beta-barrel. Strands=18. Nterm in = periplasm. Sequence shown is the processed sequence from Swiss-Prot (25 AA signal sequence removed), which is the same as the sequence in the PDB file.
pir_number:A60177
Swiss_Prot_entry:LAMB_SALTY
Swiss_Prot_number:P26466
Swiss_Prot_gene:LAMB,MALL,STM4231
Swiss_Prot_name:Maltoporin [Precursor]
PDB_title:maltoporin from Salmonella typhimurium
PDB_Identifier:2MPR
N_terminal:in
number_tmsegs:18
tm_segments:A.2,15;B.40,53;C.56,68;D.80,90;E.98,105;F.124,134;G.137,148;H.167,180;I.185,197;J.210,223;K.226,238;L.276,290;M.293,308;N.312,326;O.329,344;P.348,363;Q.371,385;R.412,427
sequence:VDFHGYARSGIGWTGSGGEQQCFQATGAQSKYRLGNECETYAELKLGQEVWKEGDKSFYFDTNVAYSVNQQNDWESTDPAFREANVQGKNLIEWLPGSTIWAGKRFYQRHDVHMIDFYYWDISGPGAGIENIDLGFGKLSLAATRSTEAGGSYTFSSQNIYDEVKDTANDVFDVRLAGLQTNPDGVLELGVDYGRANTTDGYKLADGASKDGWMFTAEHTQSMLKGYNKFVVQYATDAMTTQGKGQARGSDGSSSFTEELSDGTKINYANKVINNNGNMWRILDHGAISLGDKWDLMYVGMYQNIDWDNNLGTEWWTVGVRPMYKWTPIMSTLLEVGYDNVKSQQTGDRNNQYKITLAQQWQAGDSIWSRPAIRIFATYAKWDEKWGYIKDGDNISRYAAASNSGISTNSRGDSDEWTFGAQMEIWW*
>3D_other;137
protein_name:Monoamine oxidase B* (human)
file_name:MAO_B.txt
entry_date:2may03
refman_number:20303
endnote_number:
author:Binda,C., Newton-Vinson,P., Hubálek,F., Edmondson,D.E., Mattevi,A. (2002) [Structure of human monoamine oxidase B, a drug target for the treatment of neurological disorders] {Nature Struct Biol, 9, 22-26}
remarks:Monotopic membrane protein because it binds to the membrane surface by a short helix anchor and surface interactions. Sequence is from PDB. It differs from Swiss-Prot by addition of Met1. TMhelices=0.
pir_number:B36175,JH0818
Swiss_Prot_entry:AOFB_HUMAN
Swiss_Prot_number:P27338
Swiss_Prot_gene:MAOB
Swiss_Prot_name:Amine oxidase [flavin-containing] B
PDB_title:Human Monoamine Oxidase B
PDB_Identifier:1GOS
N_terminal:out
number_tmsegs:1
tm_segments:A.489,515
sequence:MSNKCDVVVVGGGISGMAAAKLLHDSGLNVVVLEARDRVGGRTYTLRNQKVKYVDLGGSYVGPTQNRILRLAKELGLETYKVNEVERLIHHVKGKSYPFRGPFPPVWNPITYLDHNNFWRTMDDMGREIPSDAPWKAPLAEEWDNMTMKELLDKLCWTESAKQLATLFVNLCVTAETHEVSALWFLWYVKQCGGTTRIISTTNGGQERKFVGGSGQVSERIMDLLGDRVKLERPVIYIDQTRENVLVETLNHEMYEAKYVISAIPPTLGMKIHFNPPLPMMRNQMITRVPLGSVIKCIVYYKEPFWRKKDYCGTMIIDGEEAPVAYTLDDTKPEGNYAAIMGFILAHKARKLARLTKEERLKKLCELYAKVLGSLEALEPVHYEEKNWCEEQYSGGCYTTYFPPGILTQYGRVLRQPVDRIYFAGTETATHWSGYMEGAVEAGERAAREILHAMGKIPEDEIWQSEPESVDVPAQPITTTFLERHLPSVPGLLRLIGLTTIFSATALGFLAHKRGLLVRV*
>3D_other;186
protein_name:MspA (Mycobacterium smegmatis)
file_name:MspA.txt
entry_date:8mar04
refman_number:21374
endnote_number:
author:Faller,M., Niederweis,M., Schulz,G.E. (2004) [The structure of a mycobacterial outer-membrane channel] {Science, 303, 1189-1192}
remarks:Homooctameric beta-barrel porin. Strands=16 for octamer. TMsegs below are for a monomer. in=periplasm. Sequence is from TrEMBL. The 27AA presequence has been removed.
pir_number:
Swiss_Prot_entry:Q9RLP7_MYCSM
Swiss_Prot_number:Q9RLP7
Swiss_Prot_gene:mspA
Swiss_Prot_name:mSPa [precursor]
PDB_title:MspA
PDB_Identifier:1UUN
N_terminal:out
number_tmsegs:2
tm_segments:A.72,90;B.104,121
sequence:GLDNELSLVDGQDRTLTVQQWDTFLNGVFPLDRNRLTREWFHSGRAKYIVAGPGADEFEGTLELGYQIGFPWSLGVGINFSYTTPNILIDDGDITAPPFGLNSVITPNLFPGVSISADLGNGPGIQEVATFSVDVSGAEGGVAVSNAHGTVTGAAGGVLLRPFARLIASTGDSVTTYGEPWNMN*
>3D_other;188
protein_name:NaIP translocator domain (Neisseria meningitidis)
file_name:NaIP_Nmeningitidis.txt
entry_date:31mar04
refman_number:21421
endnote_number:
author:Oomen,C.J., van Ulsen,P., Van Gelder,P., Feijen,M., Tommassen,J., Gros,P. (2004) [Structure of the translocator domain of a bacterial autotransporter] {EMBO J, 23, 1257-1266}
remarks:Monomeric beta-barrel. strands=12. in=periplasm. There is also an alpha-helix but it is buried inside the beta-barrel. Sequence is from PDB file. Sequence is truncated relative to Swiss-Prot and starts at res#777.
pir_number:
Swiss_Prot_entry:Q8GKS5_NEIME
Swiss_Prot_number:Q8GKS5
Swiss_Prot_gene:naIP
Swiss_Prot_name:NaIP
PDB_title:TRANSLOCATOR DOMAIN OF AUTOTRANSPORTER NALP FROM NEISSERIA MENINGITIDIS
PDB_Identifier:1UYN,1UYO
N_terminal:out
number_tmsegs:12
tm_segments:A.42,57;B.60,78;C.81,96;D.98,116;E.120,138;F.144,162;G.171,188;H.198,220;I.223,234;J.264,277;K.280,291;L.294,307
sequence:DGVRIFNSLAATVYADSTAAHADMQGRRLKAVSDGLDHNGTGLRVIAQTQQDGGTWEQGGVEGKMRGSTQTVGIAAKTGENTTAAATLGMGRSTWSENSANAKTDSISLFAGIRHDAGDIGYLKGLFSYGRYKNSISRSTGADEHAEGSVNGTLMQLGALGGVNVPFAATGDLTVEGGLRYDLLKQDAFAEKGSALGWSGNSLTEGTLVGLAGLKLSQPLSDKAVLFATAGVERDLNGRDYTVTGGFTGATAATGKTGARNMPHTRLVAGLGADVEFGNGWNGLARYSYAGSKQYGNHSGRVGVGYRF*
>3D_other;174
protein_name:NspA surface protein A (Neisseria meningitidis)
file_name:NspA.txt
entry_date:31dec03
refman_number:21161
endnote_number:
author:Vandeputte-Rutten,L., Bos,M.P., Tommassen,J., Gros,P. (2003) [Crystal structure of neisserial surface protein A (NspA), a conserved outer membrane protein with vaccine potential] {J Biol Chem, 278, 24825-24830}
remarks:Monomeric beta-barrel. Sequence is processed sequence from Swiss-Prot (19 AA signal sequence removed). Strands=8.
pir_number:
Swiss_Prot_entry:P96943_NEIME
Swiss_Prot_number:P96943
Swiss_Prot_gene:nspA
Swiss_Prot_name:Outer membrane protein [Precursor]
PDB_title:Outer Membrane Protein Nspa
PDB_Identifier:1P4T
N_terminal:in
number_tmsegs:8
tm_segments:A.5,17;B.26,37;C.40,51;D.60,74;E.78,90;F.105,118;G.122,130;H.140,155
sequence:EGASGFYVQADAAHAKASSSLGSAKGFSPRISAGYRINDLRFAVDYTRYKNYKAPSTDFKLYSIGASAIYDFDTQSPVKPYLGARLSLNRASVDLGGSDSFSQTSIGLGVLTGVSYAVTPNVDLDAGYRYNYIGKVNTVKNVRSGELSVGVRVKF*
>3D_other;145
protein_name:Omp32 (Comamonas acidovorans)
file_name:Omp32.txt
entry_date:4dec03
refman_number:20938
endnote_number:
author:Zeth,K., Diedrich,G., Welte,W., Engelhardt,H. (2000) [Crystal structure of Omp32, the anion-selective porin from Comamonas acidovorans, in complex with a periplasmic peptide at 2.1 Å resolution] {Structure, 8, 981-992}
remarks:Trimeric beta-barrel. Strands=16. Periplasm = in. Sequence from Swiss-Prot is processed form (19 AA signal sequence removed).
pir_number:A38528
Swiss_Prot_entry:OM32_COMAC
Swiss_Prot_number:P24305
Swiss_Prot_gene:OMP32
Swiss_Prot_name:Outer membrane porin protein 32 [Precursor]
PDB_title:ANION-SELECTIVE PORIN FROM COMAMONAS ACIDOVORANS
PDB_Identifier:1E54
N_terminal:in
number_tmsegs:16
tm_segments:A.3,17;B.26,47;C.52,61;D.77,83;E.86,95;F.133,142;G.148,156;H.170,180;I.183,196;J.199,214;K.218,231;L.235,249;M.253,265;N.269,282;O.286,300;P.320,332
sequence:QSSVTLFGIVDTNVAYVNKDAAGDSRYGLGTSGASTSRLGLRGTEDLGGGLKAGFWLEGEIFGDDGNASGFNFKRRSTVSLSGNFGEVRLGRDLVPTSQKLTSYDLFSATGIGPFMGFRNWAAGQGADDNGIRANNLISYYTPNFGGFNAGFGYAFDEKQTIGTADSVGRYIGGYVAYDNGPLSASLGLAQQKTAVGGLATDRDEITLGASYNFGVAKLSGLLQQTKFKRDIGGDIKTNSYMLGASAPVGGVGEVKLQYALYDQKAIDSKAHQITLGYVHNLSKRTALYGNLAFLKNKDASTLGLQAKGVYAGGVQAGESQTGVQVGIRHAF*
>3D_other;170
protein_name:OmpA (E. coli)
file_name:OmpA.txt
entry_date:31dec03
refman_number:16568,18649,19651
endnote_number:
author:Pautsch,A., Schultz,G.E. (1998) [Structure of the outer membrane protein A transmembrane domain] {Nature Struct Biol, 5, 1013-1017}
remarks:Monomeric beta-barrel. Strands=8. Sequence is processed sequence from Swiss-Prot (21 AA signal sequence removed).
pir_number:A90759,G85622
Swiss_Prot_entry:OMPA_ECOLI
Swiss_Prot_number:P0A910
Swiss_Prot_gene:OMPA,TOLG,TUT,CON,B0957,Z1307,ECS1041
Swiss_Prot_name:Outer membrane protein A [Precursor]
PDB_title:Outer Membrane Protein A (Ompa)
PDB_Identifier:1BXW,1QJP,1G90
N_terminal:in
number_tmsegs:8
tm_segments:A.6,16;B.34,45;C.49,60;D.75,86;E.91,103;F.121,130;G.135,143;H.161,170
sequence:APKDNTWYTGAKLGWSQYHDTGFINNNGPTHENQLGAGAFGGYQVNPYVGFEMGYDWLGRMPYKGSVENGAYKAQGVQLTAKLGYPITDDLDIYTRLGGMVWRADTKSNVYGKNHDTGVSPVFAGGVEYAITPEIATRLEYQWTNNIGDAHTIGTRPDNGMLSLGVSYRFGQGEAAPVVAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEVKGIKDVVTQPQA*
>3D_other;30
protein_name:OmpF porin* (E. coli)
file_name:Por_OmpF_ecoli.txt
entry_date:27may98
refman_number:4613
endnote_number:
author:Cowan,S.W., Schirmer,T., Rummel,G., Steiert,M., Ghosh,R., Pauptit,R.A., Jansonius,J.N., Rosenbusch,J.P. (1992) [Crystal structures explain functional properties of two E. coli porins] {Nature, 358, 727-733}
remarks:*TM seg. A* (1-6) joins with C-terminus of TM seg. *A (331-340) to form a complete segment. Trimeric beta-barrel. Strands=16. Nterm in = periplasm. Sequence shown is the processed sequence from Swiss-Prot, which is the same as the sequence in the PDB file. Topology & strand assignments are virtually identical to PhoE.
pir_number:MMECF
Swiss_Prot_entry:OMPF_ECOLI
Swiss_Prot_number:P02931
Swiss_Prot_gene:OMPF,TOLF,CMLB,COA,CRY,B0929
Swiss_Prot_name:Outer membrane protein F [Precursor]
PDB_title:matrix porin (OmpF)
PDB_Identifier:1OPF
N_terminal:in
number_tmsegs:17
tm_segments:A*.1,6;B.8,23;C.38,51;D.54,65;E.83,91;F.94,100;G.135,141;H.150,161;I.170,182;J.184,195;K.211,222;L.224,235;M.253,265;N.268,281;O.292,303;P.306,315;*A.331,340
sequence:AEIYNKDGNKVDLYGKAVGLHYFSKGNGENSYGGNGDMTYARLGFKGETQINSDLTGYGQWEYNFQGNNSEGADAQTGNKTRLAFAGLKYADVGSFDYGRNYGVVYDALGYTDMLPEFGGDTAYSDDFFVGRVGGVATYRNSNFFGLVDGLNFAVQYLGKNERDTARRSNGDGVGGSISYEYEGFGIVGAYGAADRTNLQEAQPLGNGKKAEQWATGLKYDANNIYLAANYGETRNATPITNKFTNTSGFANKTQDVLLVAQYQFDFGLRPSIAYTKSKAKDVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQIDSDNKLGVGSDDTVAVGIVYQF*
>3D_other;168
protein_name:OmpK36 osmoporin* (Klebsiella pneumoniae)
file_name:OmpK36.txt
entry_date:31dec03
refman_number:20939
endnote_number:
author:Dutzler,R., Rummel,G., Albertí,S., Hernández-Allés,S., Phale,P.S., Rosenbusch,J.P., Benedí,V.J., Schirmer,T. (1999) [Crystal structure and functional characterization of OmpK36, the osmoporin of Klebsiella pneumoniae] {Structure, 7, 425-434}
remarks:*The first (A*) and 17th (*A) 'tmsegs' abut to form a single strand. Trimeric beta-barrel. Strands=16. Sequence is processed sequence from Swiss-Prot (21 AA signal sequence removed).
pir_number:
Swiss_Prot_entry:OMPC_KLEPN
Swiss_Prot_number:Q48473
Swiss_Prot_gene:OMPC,OMPK36
Swiss_Prot_name:Outer membrane protein C [Precursor]
PDB_title:Ompk36
PDB_Identifier:1OSM
N_terminal:in
number_tmsegs:17
tm_segments:A*.1,6;B.9,23;C.36,50;D.56,66;E.79,89;F.94,99;G.135,142;H.151,158;I.173,181;J.185,195;K.210,221;L.225,235;M.253,263;N.270,279;O.290,302;P.307,316;*A.330,340
sequence:AEIYNKDGNKLDLYGKIDGLHYFSDDKDVDGDQTYMRLGVKGETQINDQLTGYGQWEYNVQANNTESSSDQAWTRLAFAGLKFGDAGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFLQSRANGVATYRNSDFFGLVDGLNFALQYQGKNGSVSGEGATNNGRGALKQNGDGFGTSVTYDIFDGISAGFAYANSKRTDDQNQLLLGEGDHAETYTGGLKYDANNIYLATQYTQTYNATRAGSLGFANKAQNFEVAAQYQFDFGLRPSVAYLQSKGKDLNGYGDQDILKYVDVGATYYFNKNMSTYVDYKINLLDDNSFTRSAGISTDDVVALGLVYQF*
>3D_other;164
protein_name:OmpT (Escherichia coli)
file_name:OmpT.txt
entry_date:24apr03
refman_number:20932
endnote_number:
author:Vandeputte-Rutten,L., Kramer,R.A., Kroon,J., Dekker,N., Egmond,M.R., Gros,P. (2001) [Crystal structure of the outer membrane protease OmpT from Escherichia coli suggests a novel catalytic site] {EMBO J, 20, 5033-5039}
remarks:Monomeric beta-barrel protein. Strands=10. Sequence below is processed sequence from Swiss-Prot (20 AA signal sequence removed). Periplasm = in.
pir_number:A31387
Swiss_Prot_entry:OMPT_ECOLI
Swiss_Prot_number:P09169
Swiss_Prot_gene:OMPT,B0565
Swiss_Prot_name:Protease VII [Precursor]
PDB_title:Crystal Structure Of Outer Membrane Protease Ompt From Escherichia Coli
PDB_Identifier:1I78
N_terminal:in
number_tmsegs:10
tm_segments:A.10,21;B.49,61;C.64,73;D.109,119;E.126,137;F.177,189;G.192,203;H.230,241;I.244,255;J.285,297
sequence:STETLSFTPDNINADISLGTLSGKTKERVYLAEEGGRKVSQLDWKFNNAAIIKGAINWDLMPQISIGAAGWTTLGSRGGNMVDQDWMDSSNPGTWTDESRHPDTQLNYANEFDLNIKGWLLNEPNYRLGLMAGYQESRYSFTARGGSYIYSSEEGFRDDIGSFPNGERAIGYKQRFKMPYIGLTGSYRYEDFELGGTFKYSGWVESSDNDEHYDPGKRITYRSKVKDQNYYSVAVNAGYYVTPNAKVYVEGAWNRVTNKKGNTSLYDHNNNTSDYSKNGAGIENYNFITTAGLKYTF*
>3D_other;238
protein_name:OmpW (E. coli)
file_name:OmpW_Ecoli.txt
entry_date:8jan07
refman_number:
endnote_number:21964
author:Hong,H., Pattel,D.R., Tamm,L.K., van den Berg,B. (2006) [The outer membrane protein OmpW forms an eight-stranded beta-barrel with a hydrophobic channel] {J Biol Chem, 281, 7568-7577}
remarks:Monomeric 8-stranded beta-barrel. Sequence from PDB. Sequence in Swiss-Prot has additional 21 aa at the beginning as a signal sequence. There is no signal sequence in PDB file and that is why res#1 in PDB file corresponds to res#22 in Swiss-Prot file
pir_number:S07797,T45501
Swiss_Prot_entry:OMPW_ECOLI
Swiss_Prot_number:P0A915
Swiss_Prot_gene:ompW
Swiss_Prot_name:Outer membrane protein W [Precursor]
PDB_title:Outer membrane protein OmpW
PDB_Identifier:2F1T,2F1V
N_terminal:in
number_tmsegs:8
tm_segments:A.6,16;B.36,48;C.51,67;D.71,89;E.96,114;F.131,141;G.148,164;H.174,191
sequence:HEAGEFFMRAGSATVRPTEGAGGTLGSLGGFSVTNNTQLGLTFTYMATDNIGVELLAATPFRHKIGTRATGDIATVHHLPPTLMAQWYFGDASSKFRPYVGAGINYTTFFDNGFNDHGKEAGLSDLSLKDSWGAAGQVGVDYLINRDWLVNMSVWYMDIDTTANYKLGGAQQHDSVRLDPWVFMFSAGYRF*
>3D_other;169
protein_name:OmpX (E. coli)
file_name:OmpX.txt
entry_date:31dec03
refman_number:21272,16768
endnote_number:
author:Vogt,J., Schulz,G.E. (1999) [The structure of the outer membrane protein OmpX from Escherichia coli reveals possible mechanisms of virulence] {Structure, 7, 1301-1309}
remarks:monomeric beta-barrel. Strands=8. Sequence is processed sequence from Swiss-Prot (23 AA signal sequence removed).
pir_number:
Swiss_Prot_entry:OMPX_ECOLI
Swiss_Prot_number:P0A917
Swiss_Prot_gene:OMPX,B0814,C0900,Z1036,ECS0892,SF0765,S0807
Swiss_Prot_name:Outer membrane protein X [Precursor]
PDB_title:Outer Membrane Protein X
PDB_Identifier:1QJ9
N_terminal:in
number_tmsegs:8
tm_segments:A.2,13;B.20,32;C.36,47;D.62,72;E.76,87;F.107,117;G.120,131;H.137,147
sequence:ATSTVTGGYAQSDAQGQMNKMGGFNLKYRYEEDNSPLGVIGSFTYTEKSRTASSGDYNKNQYYGITAGPAYRINDWASIYGVVGVGYGKFQTTEYPTYKHDTSDYGFSYGAGLQFNPMENVALDFSYEQSRIRSVDVGTWIAGVGYRF*
>3D_other;175
protein_name:OpcA (Neisseria meningitidis)
file_name:OpcA.txt
entry_date:31dec03
refman_number:21251
endnote_number:
author:Prince,S.M., Achtman,M., Derrick,J.P. (2002) [Crystal structure of the OpcA integral membrane adhesin from Neisseria meningitidis] {Proc Natl Acad Sci USA, 99, 3417-3421}
remarks:Monomeric beta-barrel. Strands=10. Processed sequence from TrEMBL (19 AA signal sequence removed).
pir_number:A44611,C81893
Swiss_Prot_entry:Q51227
Swiss_Prot_number:
Swiss_Prot_gene:OPC,OPCA,NMA1251
Swiss_Prot_name:
PDB_title:Opca Outer Membrane Adhesin/Invasin
PDB_Identifier:1K24
N_terminal:in
number_tmsegs:10
tm_segments:A.8,18;B.34,44;C.49,58;D.88,99;E.107,118;F.135,147;G.153,164;H.188,199;I.205,215;J.244,253
sequence:AQELQTANEFTVHTDLSSISSTRAFLKEKHKAAKHIGVRADIPFDANQGIRLEAGFGRSKKNIINLETDENKLGKTKNVKLPTGVPENRIDLYTGYTYTQTLSDSLNFRVGAGLGFESSKDSIKTTKHTLHSSRQSWLAKVHADLLSQLGNGWYINPWSEVKFDLNSRYKLNTGVTNLKKDINQKTNGWGFGLGANIGKKLGESASIEAGPFYKQRTYKESGEFSVTTKSGDVSLTIPKTSIREYGLRVGIKF*
>3D_other;246
protein_name:OprP (Pseudomonas aeruginosa)
file_name:OprP_Pse_aeru.txt
entry_date:07feb07
refman_number:
endnote_number:22414
author:Moraes, T.F., Bains, M., Hancock, R.E., Strynadka, N.C. (2007) [An arginine ladder in OprP mediates phosphate-specific transfer across the outer membrane] {Nat.Struct.Mol.Biol., 14, 85-87}
remarks:16-stranded beta-barrel. Trimeric form. Sequence for monomer from PDB file. Sequence in Swiss-Prot has additional 29 aa at the beginning as a signal sequence. There is no signal sequence in PDB file. Thus res#1 in PDB file corresponds to res#30 in Swiss-Prot file.
pir_number:
Swiss_Prot_entry:PORP_PSEAE
Swiss_Prot_number:P05695
Swiss_Prot_gene:oprP
Swiss_Prot_name:Porin P [Precursor]
PDB_title:An arginine ladder in OprP mediates phosphate specific transfer across the outer membrane
PDB_Identifier:2O4V
N_terminal:in
number_tmsegs:16
tm_segments:A.28,42;B.53,69;C.73,80;D.93,100;E.107,112;F.148,156;G.161,170;H.181,194;I.197,209;J.255,269;K.272,285;L.292,304;M.331,345;N.360,372;O.377,389;P.399,410
sequence:GTVTTDGADIVIKTKGGLEVATTDKEFSFKLGGRLQADYGRFDGYYTNNGNTADAAYFRRAYLEFGGTAYRDWKYQINYDLSRNVGNDSAGYFDEASVTYTGFNPVNLKFGRFYTDFGLEKATSSKWVTALERNLTYDIADWVNDNVGTGIQASSVVGGMAFLSGSVFSENNNDTDGDSVKRYNLRGVFAPLHEPGNVVHLGLQYAYRDLEDSAVDTRIRPRMGMRGVSTNGGNDAGSNGNRGLFGGSSAVEGLWKDDSVWGLEGAWALGAFSAQAEYLRRTVKAERDREDLKASGYYAQLAYTLTGEPRLYKLDGAKFDTIKPENKEIGAWELFYRYDSIKVEDDNIVVDSATREVGDAKGKTHTLGVNWYANEAVKVSANYVKAKTDKISNANGDDSGDGLVMRLQYVF*
>3D_other;82
protein_name:outer membrane phospholipase A (E. coli)
file_name:OMPLA.txt
entry_date:28feb00
refman_number:18417
endnote_number:
author:Snijder,H.J., Ubarretxena-Belandia,I., Blaauw,M., Kalk,K.H., Verheij,H.M., Egmond,M.R., Dekker,N., Dijkstra,B.W. (1999) [Structural evidence for dimerization-regulated activation of an integral membrane phospholipase] {Nature, 401, 717-721}
remarks:Monomeric/Dimeric beta-barrel. Strands=12. Nterm in = periplasm. Sequence is processed Swiss-Prot sequence (20 AA signal sequence removed).
pir_number:PSECA1
Swiss_Prot_entry:PA1_ECOLI
Swiss_Prot_number:P0A921
Swiss_Prot_gene:PLDA,B3821,Z5342,ECS4751,SF3899
Swiss_Prot_name:Phospholipase A1 [Precursor]
PDB_title:Outer Membrane Phospholipase A; Chain
PDB_Identifier:1QD5,1QD6
N_terminal:in
number_tmsegs:12
tm_segments:A.33,45;B.65,79;C.86,98;D.109,128;E.131,144;F.154,166;G.169,178;H.193,203;I.206,214;J.221,230;K.236,245;L.255,264
sequence:QEATVKEVHDAPAVRGSIIANMLQEHDNPFTLYPYDTNYLIYTQTSDLNKEAIASYDWAENARKDEVKFQLSLAFPLWRGILGPNSVLGASYTQKSWWQLSNSEESSPFRETNYEPQLFLGFATDYRFAGWTLRDVEMGYNHDSNGRSDPTSRSWNRLYTRLMAENGNWLVEVKPWYVVGNTDDNPDITKYMGYYQLKIGYHLGDAVLSAKGQYNWNTGYGGAELGLSYPITKHVRLYTQVYSGYGESLIDYNFNQTRVGVGVMLNDLF*
>3D_other;37
protein_name:outer membrane porin (R. blastica)
file_name:porin_rblast.txt
entry_date:1jun98
refman_number:6333
endnote_number:
author:Kreusch,A., Schulz,G.E. (1994) [Refined structure of the porin from Rhodopseudomonas blastica: Comparison with the porin from Rhodopseudomonas capsulatus] {J Mol Biol, 243, 891-905}
remarks:Trimeric beta-barrel. Strands=16. Sequence from Swiss-Prot.
pir_number:S38806
Swiss_Prot_entry:PORI_RHOBL
Swiss_Prot_number:P39767
Swiss_Prot_gene:OPMA
Swiss_Prot_name:Porin
PDB_title:porin
PDB_Identifier:1PRN
N_terminal:in
number_tmsegs:16
tm_segments:A.1,16;B.24,41;C.45,57;D.69,75;E.77,84;F.131,139;G.141,150;H.163,172;I.174,183;J.193,201;K.205,214;L.222,232;M.234,245;N.252,261;O.264,274;P.278,289
sequence:EISLNGYGRFGLQYVEDRGVGLEDTIISSRLRINIVGTTETDQGVTFGAKLRMQWDDGDAFAGTAGNAAQFWTSYNGVTVSVGNVDTAFDSVALTYDSEMGYEASSFGDAQSSFFAYNSKYDASGALDNYNGIAVTYSISGVNLYLSYVDPDQTVDSSLVTEEFGIAADWSNDMISLAAAYTTDAGGIVDNDIAFVGAAYKFNDAGTVGLNWYDNGLSTAGDQVTLYGNYAFGATTVRAYVSDIDRAGADTAYGIGADYQFAEGVKVSGSVQSGFANETVADVGVRFDF*
>3D_other;87
protein_name:outer membrane protein TolC* (Escherichia coli)
file_name:TolC.txt
entry_date:17jul00
refman_number:18916
endnote_number:
author:Koronakis, V., Sharff, A., Koronakis, E., Luisi,B., & Hughes, C. (2000) [Crystal structure of the bacterial membrane protein TolC central to multidrug efflux and protein export] {Nature, 405, 914-919}
remarks:*Trimeric beta-barrel transmembrane domain. Strands=4. Sequence and strands shown for one monomer. Sequence below is the processed sequence from Swiss-Prot (22 AA signal sequence removed).
pir_number:MMECTC
Swiss_Prot_entry:TOLC_ECOLI
Swiss_Prot_number:P02930
Swiss_Prot_gene:TOLC,MTCB,MUKA,REFI,B3035
Swiss_Prot_name:Outer membrane protein tolC [Precursor]
PDB_title:Outer Membrane Protein Tolc, Chain A, B, C
PDB_Identifier:1EK9
N_terminal:in
number_tmsegs:4
tm_segments:A.41,52;B.61,74;C.247,257;D.279,289
sequence:ENLMQVYQQARLSNPELRKSAADRDAAFEKINEARSPLLPQLGLGADYTYSNGYRDANGINSNATSASLQLTQSIFDMSKWRALTLQEKAAGIQDVTYQTDQQTLILNTATAYFNVLNAIDVLSYTQAQKEAIYRQLDQTTQRFNVGLVAITDVQNARAQYDTVLANEVTARNNLDNAVEQLRQITGNYYPELAALNVENFKTDKPQPVNALLKEAEKRNLSLLQARLSQDLAREQIRQAQDGHLPTLDLTASTGISDTSYSGSKTRGAAGTQYDDSNMGQNKVGLSFSLPIYQGGMVNSQVKQAQYNFVGASEQLESAHRSVVQTVRSSFNNINASISSINAYKQAVVSAQSSLDAMEAGYSVGTRTIVDVLDATTTLYNAKQELANARYNYLINQLNIKSALGTLNEQDLLALNNALSKPVSTNPENVAPQTPEQNAIADGYAPDSPAPVVQQTSARTTTSNGHNPFRN*
>3D_other;129
protein_name:PagP (Escherichia coli)
file_name:PagP.txt
entry_date:24apr03
refman_number:20933
endnote_number:
author:Hwang,P.M., Choy,W.-Y., Lo,E.I., Chen,L., Forman-Kay,J.D., Raetz,C.R.H., Privé,G.G., Bishop,R.E., Kay,L.E. (2002) [Solution structure and dynamics of the outer membrane enzyme PagP by NMR] {Proc Nat Acad Sci, 99, 13560-13565}
remarks:Monomeric beta barrel. Strands=8. PDB sequence truncated by 25 residues. TM segments numbered according to Swiss-Prot CrcA sequence. To get PDB numbering, subtract 25 from CrcA numbering.
pir_number:
Swiss_Prot_entry:CRCA_ECOLI
Swiss_Prot_number:P37001
Swiss_Prot_gene:CRCA,B0622
Swiss_Prot_name:CrcA protein
PDB_title:Crca protein
PDB_Identifier:1MM4
N_terminal:in
number_tmsegs:8
tm_segments:A.47,57;B.76,86;C.90,100;D.106,118;E.127,138;F.146,158;G.161,169;H.177,186
sequence:MNVSKYVAIFSFVFIQLISVGKVFANADEWMTTFRENIAQTWQQPEHYDLYIPAITWHARFAYDKEKTDRYNERPWGGGFGLSRWDEKGNWHGLYAMAFKDSWNKWEPIAGYGWESTWRPLADENFHLGLGFTAGVTARDNWNYIPLPVLLPLASVGYGPVTFQMTYIPGTYNNGNVYFAWMRFQF*
>3D_other;31
protein_name:PhoE phosphoporin* (E. coli)
file_name:Por_phosph_ecoli.txt
entry_date:27may98
refman_number:4613
endnote_number:
author:Cowan,S.W., Schirmer,T., Rummel,G., Steiert,M., Ghosh,R., Pauptit,R.A., Jansonius,J.N., Rosenbusch,J.P. (1992) [Crystal structures explain functional properties of two E. coli porins] {Nature, 358, 727-733}
remarks:Trimeric beta-barrel. Nterm in = periplasm. Strands=16. Sequence shown is the processed sequence from Swiss-Prot, which is the same as the sequence in the PDB file. TM seg. A* (1-6) joins with C-terminus of TM seg. *A (324-330) to form a complete segment. Topology & strand assignments are virtually identical to OmpF.
pir_number:MMECPE
Swiss_Prot_entry:PHOE_ECOLI
Swiss_Prot_number:P02932
Swiss_Prot_gene:PHOE,OMPE,B0241
Swiss_Prot_name:Outer membrane pore protein E [Precursor]
PDB_title:phosphoporin (Phoe)
PDB_Identifier:1PHO
N_terminal:in
number_tmsegs:17
tm_segments:A*.1,6;B.8,23;C.34,47;D.50,61;E.78,86;F.89,95;G.131,137;H.146,157;I.166,178;J.182,193;K.209,220;L.222,233;M.246,258;N.261,274;O.285,296;P.299,308;*A.324,330
sequence:AEIYNKDGNKLDVYGKVKAMHYMSDNASKDGDQSYIRFGFKGETQINDQLTGYGRWEAEFAGNKAESDTAQQKTRLAFAGLKYKDLGSFDYGRNLGALYDVEAWTDMFPEFGGDSSAQTDNFMTKRASGLATYRNTDFFGVIDGLNLTLQYQGKNENRDVKKQNGDGFGTSLTYDFGGSDFAISGAYTNSDRTNEQNLQSRGTGKRAEAWATGLKYDANNIYLATFYSETRKMTPITGGFANKTQNFEAVAQYQFDFGLRPSLGYVLSKGKDIEGIGDEDLVNYIDVGATYYFNKNMSAFVDYKINQLDSDNKLNINNDDIVAVGMTYQF*
>3D_other;32
protein_name:porin (R. capsulatus)
file_name:Por_Rcap.txt
entry_date:27may98
refman_number:4672
endnote_number:
author:Weiss,M.S., Schulz,G.E. (1992) [Structure of porin refined at 1.8 Å resolution] {J Mol Biol, 227, 493-509}
remarks:Trimeric beta-barrel. Stands=16. Sequence from Swiss-Prot.
pir_number:S16070
Swiss_Prot_entry:PORI_RHOCA
Swiss_Prot_number:P31243
Swiss_Prot_gene:
Swiss_Prot_name:porin
PDB_title:porin (crystal form B)
PDB_Identifier:2POR
N_terminal:in
number_tmsegs:16
tm_segments:A.1,15;B.18,35;C.39,47;D.59,65;E.68,74;F.118,125;G.127,135;H.148,158;I.160,171;J.181,192;K.194,206;L.227,240;M.242,255;N.258,271;O.274,285;P.292,301
sequence:EVKLSGDARMGVMYNGDDWNFSSRSRVLFTMSGTTDSGLEFGASFKAHESVGAETGEDGTVFLSGAFGKIEMGDALGASEALFGDLYEVGYTDLDDRGGNDIPYLTGDERLTAEDNPVLLYTYSAGAFSVAASMSDGKVGETSEDDAQEMAVAAAYTFGNYTVGLGYEKIDSPDTALMADMEQLELAAIAKFGATNVKAYYADGELDRDFARAVFDLTPVAAAATAVDHKAYGLSVDSTFGATTVGGYVQVLDIDTIDDVTYYGLGASYDLGGGASIVGGIADNDLPNSDMVADLGVKFKF*
>3D_other;40
protein_name:porin scrY, sucrose-specific (S. typhimurium)
file_name:Por_suc_styp.txt
entry_date:29may98
refman_number:13832
endnote_number:
author:Forst,D., Welte,W., Wacker,T., Diederichs,K. (1998) [Structure of the sucrose-specific porin ScrY from Salmonella typhimurium and its complex with sucrose] {Nature Struct Biol, 5, 37-46}
remarks:Trimeric beta-barrel. Strands=18. Sequence from Swiss-Prot with leader sequence (22 AA) removed. Periplasm = in.
pir_number:S15193
Swiss_Prot_entry:SCRY_SALTY
Swiss_Prot_number:P22340
Swiss_Prot_gene:SCRY
Swiss_Prot_name:Sucrose porin [Precursor]
PDB_title:sucrose-specific porin, with bound sucrose molecules
PDB_Identifier:1A0S, 1A0T
N_terminal:in
number_tmsegs:18
tm_segments:A.73,82;B.117,128;C.134,145;D.159,168;E.181,188;F.206,213;G.222,233;H.241,253;I.256,264;J.286,296;K.306,316;L.335,344;M.351,363;N.371,384;O.389,403;P.413,426;Q.439,449;R.472,482
sequence:QTDISTIEARLNALEKRLQEAENRAQTAENRAGAAEKKVQQLTAQQQKNQNSTQEVAQRTARLEKKADDKSGFEFHGYARSGVIMNDSGASTKSGAYITPAGETGGAIGRLGNQADTYVEMNLEHKQTLDNGATTRFKVMVADGQTSYNDWTASTSDLNVRQAFVELGNLPTFAGPFKGSTLWAGKRFDRDNFDIHWIDSDVVFLAGTGGGIYDVKWNDGLRSNFSLYGRNFGDIDDSSNSVQNYILTMNHFAGPLQMMVSGLRAKDNDERKDSNGNLAKGDAANTGVHALLGLHNDSFYGLRDGSSKTALLYGHGLGAEVKGIGSDGALRPGADTWRIASYGTTPLSENWSVAPAMLAQRSKDRYADGDSYQWATFNLRLIQAINQNFALAYEGSYQYMDLKPEGYNDRQAVNGSFYKLTFAPTFKVGSIGDFFSRPEIRFYTSWMDWSKKLNNYASDDALGSDGFNSGGEWSFGVQMETWF*
>3D_other;41
protein_name:prostaglandin synthase-1 (COX-1)* (sheep)
file_name:ProsH2.txt
entry_date:29may98
refman_number:5871
endnote_number:
author:Picot,D., Loll,P.J., Garavito,R.M. (1994) [The X-ray crystal structure of the membrane protein prostaglandin H2 synthase-1] {Nature, 367, 243-249}
remarks:*Monotopic membrane protein that binds on the membrane surface. 'tmsegs' denotes surface-binding helices. Protein is located in ER lumen. Sequence below is from Swiss-Prot. TMhelices=0.
pir_number:S00561
Swiss_Prot_entry:PGH1_SHEEP
Swiss_Prot_number:P05979
Swiss_Prot_gene:PTGS1,COX1
Swiss_Prot_name:Prostaglandin G/H synthase 1 [Precursor]
PDB_title:prostaglandin H2 synthase-1 (cyclooxygenase I)
PDB_Identifier:1PRH
N_terminal:in
number_tmsegs:4
tm_segments:A.73,83;B.85,93;C.97,106;D.108,116
sequence:MSRQSISLRFPLLLLLLSPSPVFSADPGAPAPVNPCCYYPCQHQGICVRFGLDRYQCDCTRTGYSGPNCTIPEIWTWLRTTLRPSPSFIHFMLTHGRWLWDFVNATFIRDTLMRLVLTVRSNLIPSPPTYNIAHDYISWESFSNVSYYTRILPSVPRDCPTPMGTKGKKQLPDAEFLSRRFLLRRKFIPDPQGTNLMFAFFAQHFTHQFFKTSGKMGPGFTKALGHGVDLGHIYGDNLERQYQLRLFKDGKLKYQMLNGEVYPPSVEEAPVLMHYPRGIPPQSQMAVGQEVFGLLPGLMLYATIWLREHNRVCDLLKAEHPTWGDEQLFQTARLILIGETIKIVIEEYVQQLSGYFLQLKFDPELLFGAQFQYRNRIAMEFNQLYHWHPLMPDSFRVGPQDYSYEQFLFNTSMLVDYGVEALVDAFSRQPAGRIGGGRNIDHHILHVAVDVIKESRVLRLQPFNEYRKRFGMKPYTSFQELTGEKEMAAELEELYGDIDALEFYPGLLLEKCHPNSIFGESMIEMGAPFSLKGLLGNPICSPEYWKASTFGGEVGFNLVKTATLKKLVCLNTKTCPYVSFHVPDPRQEDRPGVERPPTEL*
>3D_other;136
protein_name:prostaglandin synthase-2 (COX-2)* (Mus musculus)
file_name:COX_2.txt
entry_date:17jul02
refman_number:13833
endnote_number:
author:Kurumbail,R.G., Stevens,A.M., Gierse,J.K., McDonald,J.J., Stegeman,R.A., Pak,J.Y., Gildehaus,D., Miyashiro,J.M., Penning,T.D. (1996) [Structural basis for selective inhibition of cyclooxygenase-2 by anti-inflammatory agents] {Nature, 384, 644-648}
remarks:*Monotopic membrane protein that binds to the membrane. 'tmsegs' denotes surface-binding helices. Protein is located in the ER lumen. Sequence is processed sequence from Swiss-Prot (17 AA signal sequence removed). TMhelices=0.
pir_number:
Swiss_Prot_entry:PGH2_MOUSE
Swiss_Prot_number:Q05769
Swiss_Prot_gene:PTGS2,COX2,COX-2,TIS10,PGHS-B
Swiss_Prot_name:Prostaglandin G/H synthase 2 [Precursor]
PDB_title:cyclooxygenase-2, prostaglandin synthase-2
PDB_Identifier:1CX2
N_terminal:in
number_tmsegs:0
tm_segments:A.75,82;B.89,95;C.97,105;D.109,113
sequence:ANPCCSNPCQNRGECMSTGFDQYKCDCTRTGFYGENCTTPEFLTRIKLLLKPTPNTVHYILTHFKGVWNIVNNIPFLRSLIMKYVLTSRSYLIDSPPTYNVHYGYKSWEAFSNLSYYTRALPPVADDCPTPMGVKGNKELPDSKEVLEKVLLRREFIPDPQGSNMMFAFFAQHFTHQFFKTDHKRGPGFTRGLGHGVDLNHIYGETLDRQHKLRLFKDGKLKYQVIGGEVYPPTVKDTQVEMIYPPHIPENLQFAVGQEVFGLVPGLMMYATIWLREHQRVCDILKQEHPEWGDEQLFQTSKLILIGETIKIVIEDYVQHLSGYHFKLKFDPELLFNQQFQYQNRIASEFNTLYHWHPLLPDTFNIEDQEYSFKQFLYNNSILLEHGLTQFVESFTRQIAGRVAGGRNVPIAVQAVAKASIDQSREMKYQSLNEYRKRFSLKPYTSFEELTGEKEMAAELKALYSDIDVMELYPALLVEKPRPDAIFGETMVELGAPFSLKGLMGNPICSPQYWKPSTFGGEVGFKIINTASIQSLICNNVKGCPFTSFNVQDPQPTKTATINASASHSRLDDINPTVLIKRRSTEL*
>3D_other;135
protein_name:squalene-hopene cyclase* (Alicyclobacillus acidocaldarius)
file_name:squalene_cyclase.txt
entry_date:17jul02
refman_number:16949
endnote_number:
author:Wendt,K.U., Lenhart,A., Schulz,G.E. (1999) [The structure of the membrane protein squalene-hopene cyclase at 2.0 Å resolution] {J Mol Biol, 286, 175-187}
remarks:*Monotopic membrane protein that binds to membrane surface. 'tmsegs' below indicates helices that interact with the membrane surface. Sequence is from PDB. It differs from Swiss-Prot by the addition Met1. TMhelices=0.
pir_number:A43300,S13856
Swiss_Prot_entry:SQHC_ALIAC
Swiss_Prot_number:P33247
Swiss_Prot_gene:SHC
Swiss_Prot_name:Squalene-hopene cyclase
PDB_title:Squalene-Hopene Cyclase
PDB_Identifier:2SQC
N_terminal:in
number_tmsegs:0
tm_segments:A.216,231
sequence:MAEQLVEAPAYARTLDRAVEYLLSCQKDEGYWWGPLLSNVTMEAEYVLLCHILDRVDRDRMEKIRRYLLHEQREDGTWALYPGGPPDLDTTIEAYVALKYIGMSRDEEPMQKALRFIQSQGGIESSRVFTRMWLALVGEYPWEKVPMVPPEIMFLGKRMPLNIYEFGSWARATVVALSIVMSRQPVFPLPERARVPELYETDVPPRRRGAKGGGGWIFDALDRALHGYQKLSVHPFRRAAEIRALDWLLERQAGDGSWGGIQPPWFYALIALKILDMTQHPAFIKGWEGLELYGVELDYGGWMFQASISPVWDTGLAVLALRAAGLPADHDRLVKAGEWLLDRQITVPGDWAVKRPNLKPGGFAFQFDNVYYPDVCDTAVVVWALNTLRLPDERRRRDAMTKGFRWIVGMQSSNGGWGAYDVDNTSDLPNHIPFSDFGEVTDPPSEDVTAHVLECFGSFGYDDAWKVIRRAVEYLKREQKPDGSWFGRWGVNYLYGTGAVVSALKAVGIDTREPYIQKALDWVEQHQNPDGGWGEDCRSYEDPAYAGKGASTPSQTAWALMALIAGGRAESEAARRGVQYLVETQRPDGGWDEPYYTGTGFPGDFYLGYTMYRHVFPTLALGRYKQAIERR*
>3D_other;182
protein_name:vitamin B12 receptor (E. coli)
file_name:BtuB.txt
entry_date:4dec03
refman_number:20950,20951
endnote_number:
author:Chimento,D.P., Mohanty,A.K., Kadner,R.J., Wiener,M.C. (2003) [Substrate-induced transmembrane signaling in the cobalamin transporter BtuB] {Nature Struct Biol, 10, 394-401}
remarks:Monomeric beta barrel. Strands=22. Sequence is from Swiss-Prot. The leader sequence (residues 1-20) has been removed in sequence below to correspond to sequence in PDB.
pir_number:QRECBT
Swiss_Prot_entry:BTUB_ECOLI
Swiss_Prot_number:P06129
Swiss_Prot_gene:btuB
Swiss_Prot_name:Vitamin B12 receptor, Precursor
PDB_title:Vitamin B12 Receptor
PDB_Identifier:1NQE
N_terminal:in
number_tmsegs:22
tm_segments:A.137,145;B.149,159;C.164,175;D.197,209;E.214,227;F.243,257;G.261,276;H.289,305;I.309,322;J.334,348;K.351,362;L.366,380;M.383,394;N.413,426;O.429,447;P.452,472;Q.475,488;R.501,510;S.515,523;T.544,554;U.559,566;V.585,594
sequence:QDTSPDTLVVTANRFEQPRSTVLAPTTVVTRQDIDRWQSTSVNDVLRRLPGVDITQNGGSGQLSSIFIRGTNASHVLVLIDGVRLNLAGVSGSADLSQFPIALVQRVEYIRGPRSAVYGSDAIGGVVNIITTRDEPGTEISAGWGSNSYQNYDVSTQQQLGDKTRVTLLGDYAHTHGYDVVAYGNTGTQAQTDNDGFLSKTLYGALEHNFTDAWSGFVRGYGYDNRTNYDAYYSPGSPLLDTRKLYSQSWDAGLRYNGELIKSQLITSYSHSKDYNYDPHYGRYDSSATLDEMKQYTVQWANNVIVGHGSIGAGVDWQKQTTTPGTGYVEDGYDQRNTGIYLTGLQQVGDFTFEGAARSDDNSQFGRHGTWQTSAGWEFIEGYRFIASYGTSYKAPNLGQLYGFYGNPNLDPEKSKQWEGAFEGLTAGVNWRISGYRNDVSDLIDYDDHTLKYYNEGKARIKGVEATANFDTGPLTHTVSYDYVDARNAITDTPLLRRAKQQVKYQLDWQLYDFDWGITYQYLGTRYDKDYSSYPYQTVKMGGVSLWDLAVAYPVTSHLTVRGKIANLFDKDYETVYGYQTAGREYTLSGSYTF*