YRC Public Data Repository - Protein Structure Prediction

Protein:	NUOB_ECOLI
Organism:	Escherichia coli
Length:	220 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 NUOB_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|397899 - gi\|397899\|emb\|CAA48361.1\| NADH dehydrogenase I, subunit nuoB [Escherichia coli]	269.0	[0..1]	[220..1]
NUOB_SHIDS - NADH-quinone oxidoreductase subunit B OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=nuoB PE=3...	269.0	[0..1]	[220..1]
gi\|213420337 - gi\|213420337\|ref\|ZP_03353403.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... gi\|213052942 - gi\|213052942\|ref\|ZP_03345820.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... NUOB_SALEP - NADH-quinone oxidoreductase subunit B OS=Salmonella enteritidis PT4 (strain P125109) GN=nuoB PE=3 SV... NUOB_SALG2 - NADH-quinone oxidoreductase subunit B OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=nuoB ... gi\|213647303 - gi\|213647303\|ref\|ZP_03377356.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... gi\|213610191 - gi\|213610191\|ref\|ZP_03370017.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... gi\|213581020 - gi\|213581020\|ref\|ZP_03362846.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... gi\|213427012 - gi\|213427012\|ref\|ZP_03359762.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... gi\|197261696, gi... - gi\|197261696\|ref\|ZP_03161770.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. e... NUOB_SALA4 - NADH-quinone oxidoreductase subunit B OS=Salmonella agona (strain SL483) GN=nuoB PE=3 SV=1 NUOB_SALSV - NADH-quinone oxidoreductase subunit B OS=Salmonella schwarzengrund (strain CVM19633) GN=nuoB PE=3 SV... gi\|194458667, gi... - gi\|194472303\|ref\|ZP_03078287.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. e... gi\|204928974, gi... - gi\|204928974\|ref\|ZP_03220117.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. e... gi\|200386648, gi... - gi\|200386648\|ref\|ZP_03213260.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. e... NUOB_SALDC - NADH-quinone oxidoreductase subunit B OS=Salmonella dublin (strain CT_02021853) GN=nuoB PE=3 SV=1 NUOB_SALPK - NADH-quinone oxidoreductase subunit B OS=Salmonella paratyphi A (strain AKU_12601) GN=nuoB PE=3 SV=1 NUOB_SALTY - NADH-quinone oxidoreductase subunit B OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720... gi\|29141052, gi\|... - gi\|29141052\|ref\|NP_804394.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica serov... lcl\|NC_016856.1_... - [gene=nuoB] [protein=NADH dehydrogenase subunit B] [protein_id=YP_005238403.1] [location=complement(... NUOB_SALTI - NADH-quinone oxidoreductase subunit B OS=Salmonella typhi GN=nuoB PE=3 SV=1 NUOB_SALPB - NADH-quinone oxidoreductase subunit B OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=nuo... gi\|16761252 - gi\|16761252\|ref\|NP_456869.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica serov... NUOB_SALPC - NADH-quinone oxidoreductase subunit B OS=Salmonella paratyphi C (strain RKS4594) GN=nuoB PE=3 SV=1 gi\|214002000 - gi\|214002000\|ref\|ZP_03412735.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... gi\|205349478, gi... - gi\|205349478\|gb\|EDZ36109.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... gi\|205338322, gi... - gi\|205338322\|gb\|EDZ25086.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... gi\|168237344, gi... - gi\|197289718\|gb\|EDY29081.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... gi\|205335598, gi... - gi\|205335598\|gb\|EDZ22362.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... NUOB_SALHS - NADH-quinone oxidoreductase subunit B OS=Salmonella heidelberg (strain SL476) GN=nuoB PE=3 SV=1 NUOB_SALNS - NADH-quinone oxidoreductase subunit B OS=Salmonella newport (strain SL254) GN=nuoB PE=3 SV=1 gi\|168817943, gi... - gi\|205345026\|gb\|EDZ31790.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... gi\|195631416, gi... - gi\|195631416\|gb\|EDX49976.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... NUOB_SALCH - NADH-quinone oxidoreductase subunit B OS=Salmonella choleraesuis (strain SC-B67) GN=nuoB PE=3 SV=1 NUOB_SALPA - NADH-quinone oxidoreductase subunit B OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=nuoB ... gi\|167994675, gi... - gi\|205327503\|gb\|EDZ14267.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... NUOB_SALCH - NADH-quinone oxidoreductase subunit B OS=Salmonella choleraesuis GN=nuoB PE=3 SV=1 gi\|167549674, gi... - gi\|205325363\|gb\|EDZ13202.1\| NADH-quinone oxidoreductase, B subunit [Salmonella enterica subsp. enter... gi\|238912394 - gi\|238912394\|ref\|ZP_04656231.1\| NADH dehydrogenase subunit B [Salmonella enterica subsp. enterica se... NUOB_SALPB - NADH-quinone oxidoreductase subunit B OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=nuo... NUOB_SALPA - NADH-quinone oxidoreductase subunit B OS=Salmonella paratyphi A GN=nuoB PE=3 SV=1 NUOB_SALAR - NADH-quinone oxidoreductase subunit B OS=Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2... NUOB_SALTY - NADH-quinone oxidoreductase subunit B OS=Salmonella typhimurium GN=nuoB PE=3 SV=1	269.0	[0..1]	[220..1]
gi\|15802834, gi\|... - gi\|15802834\|ref\|NP_288861.1\| NADH dehydrogenase subunit B [Escherichia coli O157:H7 EDL933], gi\|1251... gi\|25298992 - gi\|25298992\|pir\|\|D85869 NADH dehydrogenase I chain B [imported] - Escherichia coli (strain O157:H7,...	268.0	[0..1]	[220..1]
gi\|23092541 - gi\|23092541\|gb\|AAN08352.1\| NADH dehydrogenase I subunit B [Photorhabdus temperata] gi\|23092541\|gb\|A... - NADH dehydrogenase I subunit B [Photorhabdus temperata]	260.0	[0..1]	[220..1]
NUOB_PSEF5 - NADH-quinone oxidoreductase subunit B OS=Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477) GN=nuo...	258.0	[0..1]	[220..1]
NUOB_PHOLL - NADH-quinone oxidoreductase subunit B OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139... NUOB_PHOLL - NADH-quinone oxidoreductase subunit B OS=Photorhabdus luminescens subsp. laumondii GN=nuoB PE=3 SV=1	258.0	[0..1]	[220..1]
tr\|F2KIP6\|F2KIP6... - NADH-quinone oxidoreductase subunit B OS=Pseudomonas brassicacearum (strain NFM421) GN=nuoB PE=3 SV=... gi\|9719438 - gi\|9719438\|gb\|AAF97798.1\|AF281148_2 NADH dehydrogenase I subunit B [Pseudomonas fluorescens]	258.0	[0..1]	[220..1]
NUOB_PSEPF - NADH-quinone oxidoreductase subunit B OS=Pseudomonas fluorescens (strain Pf0-1) GN=nuoB PE=3 SV=1	257.0	[0..1]	[220..1]
NUOB_PSE14 - NADH-quinone oxidoreductase subunit B OS=Pseudomonas savastanoi pv. phaseolicola (strain 1448A / Rac... gi\|213925138, gi... - gi\|213970034\|ref\|ZP_03398166.1\| NADH dehydrogenase subunit B [Pseudomonas syringae pv. tomato T1], g... gi\|237800544 - gi\|237800544\|ref\|ZP_04589005.1\| NADH dehydrogenase subunit B [Pseudomonas syringae pv. oryzae str. 1... tr\|F3G8T7\|F3G8T7... - NADH-quinone oxidoreductase subunit B OS=Pseudomonas syringae pv. pisi str. 1704B GN=nuoB PE=3 SV=1 NUOB_PSESM - NADH-quinone oxidoreductase subunit B OS=Pseudomonas syringae pv. tomato GN=nuoB PE=3 SV=1 NUOB_PSESM - NADH-quinone oxidoreductase subunit B OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=nuoB PE=...	256.0	[0..1]	[220..1]

Back

Predicted Domain #1

Region A:
Residues: [1-220]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDYTLTRIDP NGENDRYPLQ KQEIVTDPLE QEVNKNVFMG KLNDMVNWGR KNSIWPYNFG  60
   61 LSCCYVEMVT SFTAVHDVAR FGAEVLRASP RQADLMVVAG TCFTKMAPVI QRLYDQMLEP 120
  121 KWVISMGACA NSGGMYDIYS VVQGVDKFIP VDVYIPGCPP RPEAYMQALM LLQESIGKER 180
  181 RPLSWVVGDQ GVYRANMQSE RERKRGERIA VTNLRTPDEI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	53.522879
Match:	2fug6
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	13.9361001493201	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	12.823760326196	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	12.8237449606378	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	12.2946357205778	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	11.5463682902166	bayes_pls_golite062009
oxidoreductase activity	6.65509281399906	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	5.96984573452012	bayes_pls_golite062009
oxidoreduction-driven active transmembrane transporter activity	5.23135981388428	bayes_pls_golite062009
iron-sulfur cluster binding	4.95810064745013	bayes_pls_golite062009
metal cluster binding	4.95810064745013	bayes_pls_golite062009
oxidoreductase activity, acting on hydrogen as donor	1.94254997143399	bayes_pls_golite062009
catalytic activity	1.41356903593784	bayes_pls_golite062009
transporter activity	1.35313139085437	bayes_pls_golite062009
ferredoxin hydrogenase activity	1.17664896715936	bayes_pls_golite062009
oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor	1.17664896715936	bayes_pls_golite062009
transmembrane transporter activity	1.14096979892017	bayes_pls_golite062009
binding	0.666284431609449	bayes_pls_golite062009
active transmembrane transporter activity	0.3569377519136	bayes_pls_golite062009
primary active transmembrane transporter activity	0.345046820478722	bayes_pls_golite062009
oxidoreductase activity, acting on iron-sulfur proteins as donors	0.100407685917506	bayes_pls_golite062009
protein binding	0.0224428394870909	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: