YRC Public Data Repository - Protein Structure Prediction

Protein:	NUOF_ECOLI
Organism:	Escherichia coli
Length:	445 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 NUOF_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|81246173, gi\|... - gi\|82544762\|ref\|YP_408709.1\| NADH dehydrogenase I subunit F [Shigella boydii Sb227], gi\|81246173\|gb\|... gi\|187427346, gi... - gi\|75177928\|ref\|ZP_00697990.1\| COG1894: NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit... gi\|157077040, gi... - gi\|75187066\|ref\|ZP_00700333.1\| COG1894: NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit... gi\|193068131, gi... - gi\|75238067\|ref\|ZP_00722072.1\| COG1894: NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit... gi\|74312802, gi\|... - gi\|74312802\|ref\|YP_311221.1\| NADH dehydrogenase I subunit F [Shigella sonnei Ss046], gi\|73856279\|gb\|... gi\|124501920, gi... - gi\|124526449\|ref\|ZP_01698402.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli B], gi\|1245... gi\|157161772, gi... - gi\|75196327\|ref\|ZP_00706397.1\| COG1894: NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit... gi\|191166468, gi... - gi\|75230335\|ref\|ZP_00716825.1\| COG1894: NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit... gi\|195935661 - gi\|195935661\|ref\|ZP_03081043.1\| NADH dehydrogenase I subunit F [Escherichia coli O157:H7 str. EC4024... gi\|170019407, gi... - gi\|170019407\|ref\|YP_001724361.1\| NADH dehydrogenase I subunit F [Escherichia coli ATCC 8739], gi\|169... gi\|208734356, gi... - gi\|208813079\|ref\|ZP_03254408.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str... gi\|208808283, gi... - gi\|208808283\|ref\|ZP_03250620.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str... gi\|209157349, gi... - gi\|209395949\|ref\|YP_002271693.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 st... gi\|208821937, gi... - gi\|208821937\|ref\|ZP_03262257.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str... gi\|217327207, gi... - gi\|217327207\|ref\|ZP_03443290.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str... gi\|209919732, gi... - gi\|209919732\|ref\|YP_002293816.1\| NADH dehydrogenase I subunit F [Escherichia coli SE11], gi\|20991299... gi\|189357618, gi... - gi\|189357618\|gb\|EDU76037.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|188017288, gi... - gi\|188017288\|gb\|EDU55410.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|168767910, gi... - gi\|189362935\|gb\|EDU81354.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|168761277, gi... - gi\|189368325\|gb\|EDU86741.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|189001980, gi... - gi\|189001980\|gb\|EDU70966.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|187771025, gi... - gi\|187771025\|gb\|EDU34869.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|168798454, gi... - gi\|189378940\|gb\|EDU97356.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|168787191, gi... - gi\|189372792\|gb\|EDU91208.1\| NADH-quinone oxidoreductase, F subunit [Escherichia coli O157:H7 str. EC... gi\|254593576, gi... - gi\|254794176\|ref\|YP_003079013.1\| NADH:ubiquinone oxidoreductase, chain F [Escherichia coli O157:H7 s... gi\|24052720, gi\|... - gi\|24113656\|ref\|NP_708166.1\| NADH dehydrogenase I subunit F [Shigella flexneri 2a str. 301], gi\|2405... gi\|209765114, gi... - pir\|\|A85869 NADH dehydrogenase I chain F [imported] - Escherichia coli (strain O157:H7, substrain E... gi\|13362638, gi\|... - gi\|15832422\|ref\|NP_311195.1\| NADH dehydrogenase I chain F [Escherichia coli O157:H7], gi\|13362638\|db... gi\|218361608, gi... - gi\|218554840\|ref\|YP_002387753.1\| NADH dehydrogenase I subunit F [Escherichia coli IAI1], gi\|21836160... gi\|30063710, gi\|... - gi\|30063710\|ref\|NP_837881.1\| NADH dehydrogenase I subunit F [Shigella flexneri 2a str. 2457T], gi\|30... gi\|218355808, gi... - gi\|218548267\|ref\|YP_002382058.1\| NADH dehydrogenase I subunit F [Escherichia fergusonii ATCC 35469],... gi\|218432911, gi... - gi\|218705814\|ref\|YP_002413333.1\| NADH dehydrogenase I subunit F [Escherichia coli UMN026], gi\|218432... gi\|15802831, gi\|... - gi\|15802831\|ref\|NP_288858.1\| NADH dehydrogenase I subunit F [Escherichia coli O157:H7 EDL933], gi\|12... gi\|218352615, gi... - gi\|218695883\|ref\|YP_002403550.1\| NADH dehydrogenase I subunit F [Escherichia coli 55989], gi\|2183526... gi\|13362638, gi\|... - gi\|15832422\|ref\|NP_311195.1\| NADH dehydrogenase I subunit F [Escherichia coli O157:H7 str. Sakai], g...	606.0	[0..1]	[445..1]
gi\|431020 - gi\|431020\|gb\|AAA03537.1\| NADH dehydrogenase [Escherichia coli]	605.0	[0..1]	[445..1]
gi\|117624473, gi... - gi\|117624473\|ref\|YP_853386.1\| NADH dehydrogenase I subunit F [Escherichia coli APEC O1], gi\|11551359... gi\|226901124, gi... - gi\|237704758\|ref\|ZP_04535239.1\| NADH:ubiquinone oxidoreductase [Escherichia sp. 3_2_53FAA], gi\|22690... gi\|218428008, gi... - gi\|218690444\|ref\|YP_002398656.1\| NADH dehydrogenase I subunit F [Escherichia coli ED1a], gi\|21842800... gi\|227887340, gi... - gi\|227887340\|ref\|ZP_04005145.1\| NADH dehydrogenase I subunit F [Escherichia coli 83972], gi\|22783569... gi\|215265569, gi... - gi\|215487497\|ref\|YP_002329928.1\| NADH dehydrogenase I subunit F [Escherichia coli O127:H6 str. E2348... gi\|26109076, gi\|... - gi\|26248671\|ref\|NP_754711.1\| NADH dehydrogenase I subunit F [Escherichia coli CFT073], gi\|26109076\|g... gi\|218365966, gi... - gi\|218559197\|ref\|YP_002392110.1\| NADH dehydrogenase I subunit F [Escherichia coli S88], gi\|218365966... gi\|91073150, gi\|... - gi\|91211576\|ref\|YP_541562.1\| NADH dehydrogenase I subunit F [Escherichia coli UTI89], gi\|91073150\|gb... gi\|170767289, gi... - gi\|170767289\|ref\|ZP_02901742.1\| NADH-quinone oxidoreductase, F subunit [Escherichia albertii TW07627...	605.0	[0..1]	[445..1]
gi\|238912397 - gi\|238912397\|ref\|ZP_04656234.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ... NUOF_SALTY - NADH-quinone oxidoreductase subunit F OS=Salmonella typhimurium GN=nuoF PE=3 SV=2 gi\|160863878, gi... - gi\|161502531\|ref\|YP_001569643.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. arizonae... lcl\|NC_016856.1_... - [gene=nuoF] [protein=NADH dehydrogenase I subunit F] [protein_id=YP_005238400.1] [location=complemen... gi\|194455847, gi... - gi\|194469483\|ref\|ZP_03075467.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp.... gi\|194410105, gi... - gi\|194451801\|ref\|YP_002046377.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica... gi\|194443680, gi... - gi\|194443680\|ref\|YP_002041584.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp... NUOF_SALTY - NADH-quinone oxidoreductase subunit F OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720... gi\|205344967, gi... - gi\|205344967\|gb\|EDZ31731.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... gi\|198242534, gi... - gi\|198242534\|ref\|YP_002216394.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp... gi\|197361713, gi... - gi\|197361713\|ref\|YP_002141349.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica... gi\|197249657, gi... - gi\|197249657\|ref\|YP_002147282.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp... gi\|194736167, gi... - gi\|194736167\|ref\|YP_002115393.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp... gi\|205335912, gi... - gi\|205335912\|gb\|EDZ22676.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... gi\|205327504, gi... - gi\|205327504\|gb\|EDZ14268.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... gi\|167549677, gi... - gi\|205325480\|gb\|EDZ13319.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... gi\|161612948, gi... - gi\|161612948\|ref\|YP_001586913.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica... gi\|168465973, gi... - gi\|195631228\|gb\|EDX49788.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... gi\|205349424, gi... - gi\|205349424\|gb\|EDZ36055.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... NUOF_SALTY - NADH-quinone oxidoreductase subunit F OS=Salmonella typhimurium GN=nuoF PE=3 SV=2 gi\|205338467, gi... - gi\|205338467\|gb\|EDZ25231.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... gi\|197289714, gi... - gi\|197289714\|gb\|EDY29077.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp. ent... gi\|56412779, gi\|... - gi\|56412779\|ref\|YP_149854.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ser... gi\|224583190, gi... - gi\|224583190\|ref\|YP_002636988.1\| NADH dehydrogenase I chain F [Salmonella enterica subsp. enterica s... gi\|207857742, gi... - gi\|207857742\|ref\|YP_002244393.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica... gi\|205273220, gi... - gi\|205353439\|ref\|YP_002227240.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica... gi\|204929246, gi... - gi\|204929246\|ref\|ZP_03220389.1\| NADH oxidoreductase (quinone), f subunit [Salmonella enterica subsp....	602.0	[0..1]	[445..1]
gi\|62128527, gi\|... - gi\|62180894\|ref\|YP_217311.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ser...	600.0	[0..1]	[445..1]
gi\|110615795, gi... - gi\|110806247\|ref\|YP_689767.1\| NADH dehydrogenase I subunit F [Shigella flexneri 5 str. 8401], gi\|110...	599.0	[0..1]	[445..1]
gi\|213647300 - gi\|213647300\|ref\|ZP_03377353.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ... gi\|16503548, gi\|... - gi\|25285050\|pir\|\|AB0797 NADH2 dehydrogenase (ubiquinone) (EC 1.6.5.3) - Salmonella enterica subsp. e... gi\|213427014 - gi\|213427014\|ref\|ZP_03359764.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ... gi\|213417788 - gi\|213417788\|ref\|ZP_03350900.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ... gi\|213052940 - gi\|213052940\|ref\|ZP_03345818.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ... gi\|29136681, gi\|... - gi\|29141055\|ref\|NP_804397.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ser... gi\|16761249 - gi\|16761249\|ref\|NP_456866.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ser... gi\|214003169 - gi\|214003169\|ref\|ZP_03413904.1\| NADH dehydrogenase I subunit F [Salmonella enterica subsp. enterica ...	598.0	[0..1]	[445..1]
gi\|89896716, gi\|... - gi\|89896716\|ref\|YP_520203.1\| NADH dehydrogenase I chain F [Desulfitobacterium hafniense Y51], gi\|893...	595.0	[0..2]	[444..108]
gi\|146295664, gi... - gi\|82499674\|ref\|ZP_00885113.1\| NADH:ubiquinone oxidoreductase, NADH-binding subunit F [Caldicellulos...	593.0	[0..5]	[444..97]

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Predicted Domain #1

Region A:
Residues: [1-445]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKNIIRTPET HPLTWRLRDD KQPVWLDEYR SKNGYEGARK ALTGLSPDEI VNQVKDAGLK  60
   61 GRGGAGFSTG LKWSLMPKDE SMNIRYLLCN ADEMEPGTYK DRLLMEQLPH LLVEGMLISA 120
  121 FALKAYRGYI FLRGEYIEAA VNLRRAIAEA TEAGLLGKNI MGTGFDFELF VHTGAGRYIC 180
  181 GEETALINSL EGRRANPRSK PPFPATSGAW GKPTCVNNVE TLCNVPAILA NGVEWYQNIS 240
  241 KSKDAGTKLM GFSGRVKNPG LWELPFGTTA REILEDYAGG MRDGLKFKAW QPGGAGTDFL 300
  301 TEAHLDLPME FESIGKAGSR LGTALAMAVD HEINMVSLVR NLEEFFARES CGWCTPCRDG 360
  361 LPWSVKILRA LERGEGQPGD IETLEQLCRF LGPGKTFCAH APGAVEPLQS AIKYFREEFE 420
  421 AGIKQPFSNT HLINGIQPNL LKERW

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	152.0
Match:	2fug1
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	13.4136491947011	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	12.443012098477	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	12.1743193111446	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	11.5132141901667	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	10.8948060301507	bayes_pls_golite062009
oxidoreductase activity	6.75377893144873	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	5.81993873720697	bayes_pls_golite062009
formate dehydrogenase activity	5.21374407932502	bayes_pls_golite062009
iron-sulfur cluster binding	4.82023808325158	bayes_pls_golite062009
metal cluster binding	4.82023808325158	bayes_pls_golite062009
electron carrier activity	2.54863993527021	bayes_pls_golite062009
catalytic activity	1.46362311772849	bayes_pls_golite062009
binding	1.28125949803588	bayes_pls_golite062009
oxidoreductase activity, acting on hydrogen as donor	0.530794334701446	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	0.471058486160512	bayes_pls_golite062009
ferredoxin hydrogenase activity	0.281674499766589	bayes_pls_golite062009
oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor	0.281674499766589	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: