YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|168229690, gi...
Organism:	Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191
Length:	180 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|168229690, gi....

Description	E-value	Query Range	Subject Range
NUOI_SHISS - NADH-quinone oxidoreductase subunit I OS=Shigella sonnei (strain Ss046) GN=nuoI PE=3 SV=1	8.0E-40	[1..180]	[1..180]
NUOI_ECOUT - NADH-quinone oxidoreductase subunit I OS=Escherichia coli (strain UTI89 / UPEC) GN=nuoI PE=3 SV=1 gi\|15832419, gi\|... - gi\|15832419\|ref\|NP_311192.1\| NADH dehydrogenase subunit I [Escherichia coli O157:H7 str. Sakai], gi\|... NUOI_ECOL5 - NADH-quinone oxidoreductase subunit I OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=nuoI PE=... NUOI_SHIF8 - NADH-quinone oxidoreductase subunit I OS=Shigella flexneri serotype 5b (strain 8401) GN=nuoI PE=3 SV... EG12089 - NADH:ubiquinone oxidoreductase, chain I / NADH:ubiquinone oxidoreductase subunit I, complex I; NADH ... gi\|170681076, gi... - gi\|170681076\|ref\|YP_001744479.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli SMS-3-5], ... gi\|170123921, gi... - gi\|170767587\|ref\|ZP_02902040.1\| NADH-quinone oxidoreductase, I subunit [Escherichia albertii TW07627... gi\|194418427, gi... - gi\|194433333\|ref\|ZP_03065613.1\| NADH-quinone oxidoreductase, I subunit [Shigella dysenteriae 1012], ... gi\|195935658 - gi\|195935658\|ref\|ZP_03081040.1\| NADH dehydrogenase subunit I [Escherichia coli O157:H7 str. EC4024] gi\|208805658, gi... - gi\|208805658\|ref\|ZP_03247995.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str... gi\|208735358, gi... - gi\|208814081\|ref\|ZP_03255410.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str... gi\|208738721, gi... - gi\|208818598\|ref\|ZP_03258918.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str... gi\|209160574, gi... - gi\|209399174\|ref\|YP_002271690.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 st... gi\|189368249, gi... - gi\|189368249\|gb\|EDU86665.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... NUOI_ECOL6 - NADH-quinone oxidoreductase subunit I OS=Escherichia coli O6 GN=nuoI PE=3 SV=1 gi\|189362978, gi... - gi\|189362978\|gb\|EDU81397.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... gi\|187771242, gi... - gi\|187771242\|gb\|EDU35086.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... gi\|189002016, gi... - gi\|189002016\|gb\|EDU71002.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... gi\|189372827, gi... - gi\|189372827\|gb\|EDU91243.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... gi\|168798451, gi... - gi\|189379037\|gb\|EDU97453.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... gi\|170019410, gi... - gi\|170019410\|ref\|YP_001724364.1\| NADH dehydrogenase subunit I [Escherichia coli ATCC 8739], gi\|16975... gi\|254593573, gi... - gi\|254794173\|ref\|YP_003079010.1\| NADH:ubiquinone oxidoreductase, chain I [Escherichia coli O157:H7 s... gi\|169889733, gi... - gi\|170081898\|ref\|YP_001731218.1\| NADH:ubiquinone oxidoreductase, chain I [Escherichia coli str. K-12... gi\|254162290, gi... - gi\|254162290\|ref\|YP_003045398.1\| NADH dehydrogenase subunit I [Escherichia coli B str. REL606], gi\|2... gi\|218370741, gi... - gi\|218700755\|ref\|YP_002408384.1\| NADH dehydrogenase subunit I [Escherichia coli IAI39], gi\|218370741... gi\|253323841, gi... - gi\|254289051\|ref\|YP_003054799.1\| NADH dehydrogenase subunit I [Escherichia coli BL21(DE3)], gi\|25397... gi\|218432908, gi... - gi\|218705811\|ref\|YP_002413330.1\| NADH dehydrogenase subunit I [Escherichia coli UMN026], gi\|21843290... gi\|242377914, gi... - gi\|251785641\|ref\|YP_002999945.1\| hypothetical protein B21_02166 [Escherichia coli BL21], gi\|24237791... gi\|238861872, gi... - gi\|238901456\|ref\|YP_002927252.1\| NADH:ubiquinone oxidoreductase, chain I [Escherichia coli BW2952], ... gi\|226901121, gi... - gi\|237704755\|ref\|ZP_04535236.1\| NADH:ubiquinone oxidoreductase [Escherichia sp. 3_2_53FAA], gi\|22690... gi\|227835687, gi... - gi\|227887337\|ref\|ZP_04005142.1\| NADH dehydrogenase subunit I [Escherichia coli 83972], gi\|227835687\|... gi\|209912988, gi... - gi\|209919729\|ref\|YP_002293813.1\| NADH dehydrogenase subunit I [Escherichia coli SE11], gi\|209912988\|... gi\|215487494, gi... - gi\|215487494\|ref\|YP_002329925.1\| NADH dehydrogenase subunit I [Escherichia coli O127:H6 str. E2348/6... gi\|217326746, gi... - gi\|217326746\|ref\|ZP_03442829.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str... gi\|218548270, gi... - gi\|218548270\|ref\|YP_002382061.1\| NADH dehydrogenase subunit I [Escherichia fergusonii ATCC 35469], g... gi\|218554837, gi... - gi\|218554837\|ref\|YP_002387750.1\| NADH dehydrogenase subunit I [Escherichia coli IAI1], gi\|218361605\|... gi\|218365963, gi... - gi\|218559194\|ref\|YP_002392107.1\| NADH dehydrogenase subunit I [Escherichia coli S88], gi\|218365963\|e... gi\|218690441, gi... - gi\|218690441\|ref\|YP_002398653.1\| NADH dehydrogenase subunit I [Escherichia coli ED1a], gi\|218428005\|... gi\|218352612, gi... - gi\|218695880\|ref\|YP_002403547.1\| NADH dehydrogenase subunit I [Escherichia coli 55989], gi\|218352612... NUOI_ECOK1 - NADH-quinone oxidoreductase subunit I OS=Escherichia coli O1:K1 / APEC GN=nuoI PE=3 SV=1 gi\|124526446, gi... - gi\|124526446\|ref\|ZP_01698399.1\| NADH-quinone oxidoreductase, chain I [Escherichia coli B], gi\|124501... NUOI_SHIFL - NADH-quinone oxidoreductase subunit I OS=Shigella flexneri GN=nuoI PE=3 SV=1 NUOI_ECOL6 - NADH-quinone oxidoreductase subunit I OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)... gi\|24113653, gi\|... - gi\|24113653\|ref\|NP_708163.1\| NADH dehydrogenase subunit I [Shigella flexneri 2a str. 301], gi\|240527... NUOI_ECO57 - NADH-quinone oxidoreductase subunit I OS=Escherichia coli O157:H7 GN=nuoI PE=3 SV=1 gi\|30063707, gi\|... - gi\|30063707\|ref\|NP_837878.1\| NADH dehydrogenase subunit I [Shigella flexneri 2a str. 2457T], gi\|3004... gi\|12516631, gi\|... - gi\|15802828\|ref\|NP_288855.1\| NADH dehydrogenase subunit I [Escherichia coli O157:H7 EDL933], gi\|1251... gi\|188017199, gi... - gi\|188017199\|gb\|EDU55321.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... EG12089 - NADH:ubiquinone oxidoreductase, chain I / NADH:ubiquinone oxidoreductase subunit I, complex I; NADH ... gi\|189357566, gi... - gi\|189357566\|gb\|EDU75985.1\| NADH-quinone oxidoreductase, I subunit [Escherichia coli O157:H7 str. EC... gi\|89109099, gi\|... - gi\|89109099\|ref\|AP_002879.1\| NADH:ubiquinone oxidoreductase, chain I [Escherichia coli str. K-12 sub... gi\|75196324, gi\|... - gi\|75196324\|ref\|ZP_00706394.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... NUOI_ECOLI - NADH-quinone oxidoreductase subunit I (EC 1.6.99.5) (NADH dehydrogenase I subunit I) (NDH-1 subunit ... gi\|194414797, gi... - gi\|75211684\|ref\|ZP_00711763.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... gi\|190903434, gi... - gi\|75230338\|ref\|ZP_00716828.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... gi\|75238064, gi\|... - gi\|75238064\|ref\|ZP_00722069.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... gi\|190909675, gi... - gi\|75243092\|ref\|ZP_00726798.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... gi\|75259739, gi\|... - gi\|75259739\|ref\|ZP_00731041.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... gi\|188493684, gi... - gi\|75512753\|ref\|ZP_00735255.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... NUOI_SHIBS - NADH-quinone oxidoreductase subunit I OS=Shigella boydii serotype 4 (strain Sb227) GN=nuoI PE=3 SV=1 gi\|194436354, gi... - gi\|83588264\|ref\|ZP_00926889.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... gi\|187731669, gi... - gi\|75177931\|ref\|ZP_00697993.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... gi\|157157555, gi... - gi\|75187063\|ref\|ZP_00700330.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta...	1.0E-39	[1..180]	[1..180]
NUOI_SHIDS - NADH-quinone oxidoreductase subunit I OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=nuoI PE=3...	1.0E-39	[1..180]	[1..180]
gi\|238788647, gi... - gi\|77975472\|ref\|ZP_00831007.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta...	1.0E-38	[1..180]	[1..180]
NUOI_YERPS - NADH-quinone oxidoreductase subunit I OS=Yersinia pseudotuberculosis GN=nuoI PE=3 SV=1 gi\|229688198, gi... - gi\|229898650\|ref\|ZP_04513795.1\| NADH:ubiquinone oxidoreductase, chain I [Yersinia pestis biovar Orie... gi\|229701775, gi... - gi\|229895289\|ref\|ZP_04510463.1\| NADH:ubiquinone oxidoreductase, chain I [Yersinia pestis Pestoides A... gi\|229838090, gi... - gi\|229838090\|ref\|ZP_04458249.1\| NADH:ubiquinone oxidoreductase, chain I [Yersinia pestis biovar Orie... NUOI_YERPE - NADH-quinone oxidoreductase subunit I OS=Yersinia pestis GN=nuoI PE=3 SV=1 gi\|45437012, gi\|... - gi\|45442148\|ref\|NP_993687.1\| NADH dehydrogenase subunit I [Yersinia pestis biovar Microtus str. 9100... NUOI_YERPP - NADH-quinone oxidoreductase subunit I OS=Yersinia pestis (strain Pestoides F) GN=nuoI PE=3 SV=1 gi\|22125532, gi\|... - gi\|22125532\|ref\|NP_668955.1\| NADH dehydrogenase subunit I [Yersinia pestis KIM], gi\|21958432\|gb\|AAM8... gi\|115348245, gi... - gi\|218929634\|ref\|YP_002347509.1\| NADH dehydrogenase subunit I [Yersinia pestis CO92], gi\|16122766\|re... NUOI_YERPS - NADH-quinone oxidoreductase subunit I OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=... NUOI_YERPG - NADH-quinone oxidoreductase subunit I OS=Yersinia pestis bv. Antiqua (strain Angola) GN=nuoI PE=3 SV... NUOI_YERP3 - NADH-quinone oxidoreductase subunit I OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)... gi\|89105745, gi\|... - gi\|89105745\|ref\|ZP_01178259.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta... NUOI_YERPA - NADH-quinone oxidoreductase subunit I OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=nuoI PE=3 S... NUOI_YERPN - NADH-quinone oxidoreductase subunit I OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=nuoI PE=3 ... gi\|165925636, gi... - gi\|165925636\|ref\|ZP_02221468.1\| NADH-quinone oxidoreductase, I subunit [Yersinia pestis biovar Orien... gi\|166008508, gi... - gi\|166008508\|ref\|ZP_02229406.1\| NADH-quinone oxidoreductase, I subunit [Yersinia pestis biovar Antiq... gi\|166205006, gi... - gi\|166213832\|ref\|ZP_02239867.1\| NADH-quinone oxidoreductase, I subunit [Yersinia pestis biovar Antiq... gi\|167399268, gi... - gi\|167399268\|ref\|ZP_02304792.1\| NADH-quinone oxidoreductase, I subunit [Yersinia pestis biovar Antiq... gi\|166958850, gi... - gi\|167422344\|ref\|ZP_02314097.1\| NADH-quinone oxidoreductase, I subunit [Yersinia pestis biovar Orien... gi\|149291959, gi... - gi\|149365546\|ref\|ZP_01887581.1\| NADH Dehydrogenase I chain I [Yersinia pestis CA88-4125], gi\|1492919... gi\|167424548, gi... - gi\|167424548\|ref\|ZP_02316301.1\| NADH-quinone oxidoreductase, I subunit [Yersinia pestis biovar Media... gi\|167470944 - gi\|167470944\|ref\|ZP_02335648.1\| NADH-quinone oxidoreductase, I subunit [Yersinia pestis FV-1] NUOI_YERPY - NADH-quinone oxidoreductase subunit I OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=... NUOI_YERPB - NADH-quinone oxidoreductase subunit I OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=n...	1.0E-38	[1..180]	[1..180]
gi\|238697901, gi... - gi\|238763933\|ref\|ZP_04624890.1\| NADH-quinone oxidoreductase subunit I [Yersinia kristensenii ATCC 33... gi\|77957608, gi\|... - gi\|77957608\|ref\|ZP_00821659.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta...	2.0E-38	[1..180]	[1..180]
gi\|77961188, gi\|... - gi\|77961188\|ref\|ZP_00825032.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta...	3.0E-38	[1..180]	[1..180]
gi\|238726086, gi... - gi\|77976407\|ref\|ZP_00831898.1\| COG1143: Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreducta...	3.0E-38	[1..180]	[1..180]
NUOI_PHOLL - NADH-quinone oxidoreductase subunit I OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139... NUOI_PHOLL - NADH-quinone oxidoreductase subunit I OS=Photorhabdus luminescens subsp. laumondii GN=nuoI PE=3 SV=1	1.0E-37	[1..180]	[1..180]
NUOI_ERWCT - NADH-quinone oxidoreductase subunit I OS=Erwinia carotovora subsp. atroseptica GN=nuoI PE=3 SV=1 NUOI_PECAS - NADH-quinone oxidoreductase subunit I OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-67...	4.0E-37	[1..180]	[1..180]

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Predicted Domain #1

Region A:
Residues: [1-180]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTLKELLVGF GTQVRSIWMI GLHAFAKRET RMYPEEPVYL PPRYRGRIVL TRDPDGEERC  60
   61 VACNLCAVAC PVGCISLQKA ETKDGRWYPE FFRINFSRCI FCGLCEEACP TTAIQLTPDF 120
  121 ELGEYKRQDL VYEKEDLLIS GPGKYPEYNF YRMAGMAIDG KDKGEAENEA KPIDVKSLLP 180
  181

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	24.69897
Match:	2fug9
Description:	Crystal structure of the hydrophilic domain of respiratory complex I from Thermus thermophilus
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
NADH dehydrogenase activity	12.5726198200461	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	11.5379710261128	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	11.4267068380664	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	10.7661444048967	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	10.0573871968611	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	7.6692836424589	bayes_pls_golite062009
metal cluster binding	6.88959428302591	bayes_pls_golite062009
iron-sulfur cluster binding	6.88959428302591	bayes_pls_golite062009
oxidoreductase activity	5.95698221294919	bayes_pls_golite062009
electron carrier activity	5.42600867641421	bayes_pls_golite062009
oxidoreduction-driven active transmembrane transporter activity	5.39944360924751	bayes_pls_golite062009
formate dehydrogenase activity	4.7946737640663	bayes_pls_golite062009
FMN binding	1.64858327046622	bayes_pls_golite062009
binding	0.668971250367847	bayes_pls_golite062009
catalytic activity	0.488483980994331	bayes_pls_golite062009
protein binding	0.283477223088022	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	0.0827182678048914	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: