YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|89108072, gi\|...
Organism:	Escherichia coli str. K-12 substr. W3110
Length:	1247 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|89108072, gi|....

Description	E-value	Query Range	Subject Range
gi\|192927538, gi... - gi\|75257133\|ref\|ZP_00728669.1\| COG5013: Nitrate reductase alpha subunit [Escherichia coli E22], gi\|1...	1071.0	[0..1]	[1247..1]
gi\|194434261, gi... - gi\|83569300\|ref\|ZP_00920756.1\| COG5013: Nitrate reductase alpha subunit [Shigella dysenteriae 1012],...	1070.0	[0..1]	[1247..1]
gi\|15830983, gi\|... - gi\|15830983\|ref\|NP_309756.1\| nitrate reductase 1 alpha subunit [Escherichia coli O157:H7], gi\|133611... gi\|25285385, gi\|... - pir\|\|H85702 nitrate reductase 1, alpha subunit [imported] - Escherichia coli (strain O157:H7, substr... gi\|12514945, gi\|... - gi\|15801455\|ref\|NP_287472.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 EDL933], g... gi\|208737844, gi... - gi\|208822359\|ref\|ZP_03262678.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC... gi\|209399352, gi... - gi\|209399352\|ref\|YP_002270159.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. E... gi\|209911728, gi... - gi\|209918469\|ref\|YP_002292553.1\| nitrate reductase 1 alpha subunit [Escherichia coli SE11], gi\|20991... gi\|217318678, gi... - gi\|217328251\|ref\|ZP_03444333.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. TW... gi\|218553780, gi... - gi\|218553780\|ref\|YP_002386693.1\| nitrate reductase 1, alpha subunit [Escherichia coli IAI1], gi\|2183... gi\|218351472, gi... - gi\|218694740\|ref\|YP_002402407.1\| nitrate reductase 1, alpha subunit [Escherichia coli 55989], gi\|218... gi\|253324818, gi... - gi\|254288117\|ref\|YP_003053865.1\| nitrate reductase 1, alpha subunit [Escherichia coli BL21(DE3)], gi... gi\|254161309, gi... - gi\|254161309\|ref\|YP_003044417.1\| nitrate reductase 1, alpha subunit [Escherichia coli B str. REL606]... gi\|254592097, gi... - gi\|254792697\|ref\|YP_003077534.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. T... gi\|194437089, gi... - gi\|83587368\|ref\|ZP_00925996.1\| COG5013: Nitrate reductase alpha subunit [Escherichia coli 101-1], gi... gi\|15830983, gi\|... - gi\|15830983\|ref\|NP_309756.1\| nitrate reductase 1 alpha subunit [Escherichia coli O157:H7 str. Sakai]... gi\|168771116, gi... - gi\|189360093\|gb\|EDU78512.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC4486... gi\|187767807, gi... - gi\|187767807\|gb\|EDU31651.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC4196... gi\|189000014, gi... - gi\|189000014\|gb\|EDU69000.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC4076... gi\|168787731, gi... - gi\|189372492\|gb\|EDU90908.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC869]... gi\|189376313, gi... - gi\|189376313\|gb\|EDU94729.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC508]... gi\|170020406, gi... - gi\|170020406\|ref\|YP_001725360.1\| nitrate reductase, alpha subunit [Escherichia coli ATCC 8739], gi\|1... gi\|208806942, gi... - gi\|208806942\|ref\|ZP_03249279.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC... gi\|208815493, gi... - gi\|208815493\|ref\|ZP_03256672.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC... gi\|188015075, gi... - gi\|188015075\|gb\|EDU53197.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC4113... gi\|157160734, gi... - gi\|75195377\|ref\|ZP_00705447.1\| COG5013: Nitrate reductase alpha subunit [Escherichia coli HS], gi\|15... gi\|168758152, gi... - gi\|189354962\|gb\|EDU73381.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC4401... gi\|75190278, gi\|... - gi\|75190278\|ref\|ZP_00703545.1\| COG5013: Nitrate reductase alpha subunit [Escherichia coli E24377A], ... gi\|189365607, gi... - gi\|189365607\|gb\|EDU84023.1\| nitrate reductase 1, alpha subunit [Escherichia coli O157:H7 str. EC4501...	1070.0	[0..1]	[1247..1]
gi\|73855912, gi\|... - gi\|74312435\|ref\|YP_310854.1\| nitrate reductase 1, alpha subunit [Shigella sonnei Ss046], gi\|73855912...	1069.0	[0..1]	[1247..1]
gi\|81240717, gi\|... - gi\|82776569\|ref\|YP_402918.1\| nitrate reductase 1, alpha subunit [Shigella dysenteriae Sd197], gi\|812...	1069.0	[0..1]	[1247..1]
gi\|110805231, gi... - gi\|110805231\|ref\|YP_688751.1\| nitrate reductase 1, alpha subunit [Shigella flexneri 5 str. 8401], gi... gi\|30040996, gi\|... - gi\|30062748\|ref\|NP_836919.1\| nitrate reductase 1 alpha subunit [Shigella flexneri 2a str. 2457T], gi...	1069.0	[0..1]	[1247..1]
gi\|218699934, gi... - gi\|218699934\|ref\|YP_002407563.1\| nitrate reductase 1, alpha subunit [Escherichia coli IAI39], gi\|218... gi\|194426000, gi... - gi\|75212661\|ref\|ZP_00712659.1\| COG5013: Nitrate reductase alpha subunit [Escherichia coli B171], gi\|...	1069.0	[0..1]	[1247..1]
gi\|190903320, gi... - gi\|75230214\|ref\|ZP_00716715.1\| COG5013: Nitrate reductase alpha subunit [Escherichia coli B7A], gi\|1...	1069.0	[0..1]	[1247..1]
gi\|218426737, gi... - gi\|218689173\|ref\|YP_002397385.1\| nitrate reductase 1, alpha subunit [Escherichia coli ED1a], gi\|2184... gi\|75242029, gi\|... - gi\|75242029\|ref\|ZP_00725823.1\| COG5013: Nitrate reductase alpha subunit [Escherichia coli F11], gi\|1... gi\|26247550, gi\|... - gi\|26247550\|ref\|NP_753590.1\| respiratory nitrate reductase 1 alpha chain [Escherichia coli CFT073], ... gi\|91210448, gi\|... - gi\|91210448\|ref\|YP_540434.1\| respiratory nitrate reductase 1 alpha chain [Escherichia coli UTI89], g... gi\|117623442, gi... - gi\|117623442\|ref\|YP_852355.1\| nitrate reductase 1, alpha subunit [Escherichia coli APEC O1], gi\|1155... gi\|226899946, gi... - gi\|237705189\|ref\|ZP_04535670.1\| respiratory nitrate reductase subunit 1 alpha [Escherichia sp. 3_2_5... gi\|110641456, gi... - gi\|110641456\|ref\|YP_669186.1\| respiratory nitrate reductase 1 alpha chain [Escherichia coli 536], gi...	1069.0	[0..1]	[1247..1]
gi\|24051530, gi\|... - gi\|24112623\|ref\|NP_707133.1\| nitrate reductase 1 alpha subunit [Shigella flexneri 2a str. 301], gi\|2...	1068.0	[0..1]	[1247..1]

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Predicted Domain #1

Region A:
Residues: [1-1247]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKFLDRFRY FKQKGETFAD GHGQLLNTNR DWEDGYRQRW QHDKIVRSTH GVNCTGSCSW  60
   61 KIYVKNGLVT WETQQTDYPR TRPDLPNHEP RGCPRGASYS WYLYSANRLK YPMMRKRLMK 120
  121 MWREAKALHS DPVEAWASII EDADKAKSFK QARGRGGFVR SSWQEVNELI AASNVYTIKN 180
  181 YGPDRVAGFS PIPAMSMVSY ASGARYLSLI GGTCLSFYDW YCDLPPASPQ TWGEQTDVPE 240
  241 SADWYNSSYI IAWGSNVPQT RTPDAHFFTE VRYKGTKTVA VTPDYAEIAK LCDLWLAPKQ 300
  301 GTDAAMALAM GHVMLREFHL DNPSQYFTDY VRRYTDMPML VMLEERDGYY AAGRMLRAAD 360
  361 LVDALGQENN PEWKTVAFNT NGEMVAPNGS IGFRWGEKGK WNLEQRDGKT GEETELQLSL 420
  421 LGSQDEIAEV GFPYFGGDGT EHFNKVELEN VLLHKLPVKR LQLADGSTAL VTTVYDLTLA 480
  481 NYGLERGLND VNCATSYDDV KAYTPAWAEQ ITGVSRSQII RIAREFADNA DKTHGRSMII 540
  541 VGAGLNHWYH LDMNYRGLIN MLIFCGCVGQ SGGGWAHYVG QEKLRPQTGW QPLAFALDWQ 600
  601 RPARHMNSTS YFYNHSSQWR YETVTAEELL SPMADKSRYT GHLIDFNVRA ERMGWLPSAP 660
  661 QLGTNPLTIA GEAEKAGMNP VDYTVKSLKE GSIRFAAEQP ENGKNHPRNL FIWRSNLLGS 720
  721 SGKGHEFMLK YLLGTEHGIQ GKDLGQQGGV KPEEVDWQDN GLEGKLDLVV TLDFRLSSTC 780
  781 LYSDIILPTA TWYEKDDMNT SDMHPFIHPL SAAVDPAWEA KSDWEIYKAI AKKFSEVCVG 840
  841 HLGKETDIVT LPIQHDSAAE LAQPLDVKDW KKGECDLIPG KTAPHIMVVE RDYPATYERF 900
  901 TSIGPLMEKI GNGGKGIAWN TQSEMDLLRK LNYTKAEGPA KGQPMLNTAI DAAEMILTLA 960
  961 PETNGQVAVK AWAALSEFTG RDHTHLALNK EDEKIRFRDI QAQPRKIISS PTWSGLEDEH1020
 1021 VSYNAGYTNV HELIPWRTLS GRQQLYQDHQ WMRDFGESLL VYRPPIDTRS VKEVIGQKSN1080
 1081 GNQEKALNFL TPHQKWGIHS TYSDNLLMLT LGRGGPVVWL SEADAKDLGI ADNDWIEVFN1140
 1141 SNGALTARAV VSQRVPAGMT MMYHAQERIV NLPGSEITQQ RGGIHNSVTR ITPKPTHMIG1200
 1201 GYAHLAYGFN YYGTVGSNRD EFVVVRKMKN IDWLDGEGND QVQESVK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1q16A
Description:	Crystal structure of Nitrate Reductase A, NarGHI, from Escherichia coli
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nitrate reductase activity	8.67207154808722	bayes_pls_golite062009
oxidoreductase activity, acting on other nitrogenous compounds as donors	7.49490418452899	bayes_pls_golite062009
formate dehydrogenase activity	6.68295624624715	bayes_pls_golite062009
oxidoreductase activity	2.91217637289036	bayes_pls_golite062009
catalytic activity	1.93875927205186	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	1.84836110501265	bayes_pls_golite062009
trimethylamine-N-oxide reductase activity	1.53833487723248	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	1.49405789941498	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	1.23004970625774	bayes_pls_golite062009
molybdenum ion binding	1.06869099200697	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	0.968773059107375	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	0.953913424085709	bayes_pls_golite062009
binding	0.91711075983007	bayes_pls_golite062009
NADH dehydrogenase activity	0.885018100222005	bayes_pls_golite062009
electron carrier activity	0.662243065357708	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	0.580090675196619	bayes_pls_golite062009
iron-sulfur cluster binding	0.552726587326143	bayes_pls_golite062009
metal cluster binding	0.552726587326143	bayes_pls_golite062009
protein binding	0.435238397559303	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	0.136519634312491	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: