YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|168237344, gi...
Organism:	Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480
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 gi|168237344, gi....

Description	E-value	Query Range	Subject Range
gi\|397899 - gi\|397899\|emb\|CAA48361.1\| NADH dehydrogenase I, subunit nuoB [Escherichia coli]	6.0E-80	[1..220]	[1..220]
NUOB_SHIDS - NADH-quinone oxidoreductase subunit B OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=nuoB PE=3...	1.0E-79	[1..220]	[1..220]
gi\|227835693, gi... - gi\|227887343\|ref\|ZP_04005148.1\| NADH dehydrogenase subunit B [Escherichia coli 83972], gi\|227835693\|... gi\|237704761, gi... - gi\|237704761\|ref\|ZP_04535242.1\| trifunctional NADH dehydrogenase I subunit B/C/D [Escherichia sp. 3_... NUOB_ECOBW - NADH-quinone oxidoreductase subunit B OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=nuoB PE=... gi\|251785647, gi... - gi\|251785647\|ref\|YP_002999951.1\| hypothetical protein B21_02172 [Escherichia coli BL21], gi\|24237792... gi\|253978364, gi... - gi\|254289057\|ref\|YP_003054805.1\| NADH dehydrogenase subunit B [Escherichia coli BL21(DE3)], gi\|25397... gi\|168755039, gi... - gi\|189357731\|gb\|EDU76150.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... gi\|253974197, gi... - gi\|254162296\|ref\|YP_003045404.1\| NADH dehydrogenase subunit B [Escherichia coli B str. REL606], gi\|2... gi\|188017366, gi... - gi\|188017366\|gb\|EDU55488.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... gi\|254794179, gi... - gi\|254794179\|ref\|YP_003079016.1\| NADH:ubiquinone oxidoreductase, chain B [Escherichia coli O157:H7 s... NUOB_SHIFL - NADH-quinone oxidoreductase subunit B OS=Shigella flexneri GN=nuoB PE=3 SV=1 gi\|24052724, gi\|... - gi\|24113659\|ref\|NP_708169.1\| NADH dehydrogenase subunit B [Shigella flexneri 2a str. 301], gi\|240527... NUOB_ECOK1 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O1:K1 / APEC GN=nuoB PE=3 SV=1 gi\|124501923, gi... - gi\|124526452\|ref\|ZP_01698405.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli B], gi\|1245... NUOB_ECO57 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O157:H7 GN=nuoB PE=3 SV=1 EG12083 - NADH:ubiquinone oxidoreductase, chain B / NADH:ubiquinone oxidoreductase subunit B, complex I; NADH ... NUOB_ECOL6 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)... gi\|30041968, gi\|... - gi\|30063713\|ref\|NP_837884.1\| NADH dehydrogenase subunit B [Shigella flexneri 2a str. 2457T], gi\|3004... gi\|170123817, gi... - gi\|170767483\|ref\|ZP_02901936.1\| NADH-quinone oxidoreductase, B subunit [Escherichia albertii TW07627... NUOB_ECOSM - NADH-quinone oxidoreductase subunit B OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=nuoB PE=3 SV=1 gi\|195935664 - gi\|195935664\|ref\|ZP_03081046.1\| NADH dehydrogenase subunit B [Escherichia coli O157:H7 str. EC4024] gi\|194433374, gi... - gi\|194433374\|ref\|ZP_03065654.1\| NADH-quinone oxidoreductase, B subunit [Shigella dysenteriae 1012], ... gi\|208814079, gi... - gi\|208814079\|ref\|ZP_03255408.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str... gi\|208728164, gi... - gi\|208808363\|ref\|ZP_03250700.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str... NUOB_ECO5E - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=nuoB PE=... NUOB_ECOLI - NADH-quinone oxidoreductase chain B (EC 1.6.99.5) (NADH dehydrogenase I, chain B) (NDH-1, chain B) (... gi\|208821251, gi... - gi\|208821251\|ref\|ZP_03261571.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str... gi\|75512759, gi\|... - gi\|75512759\|ref\|ZP_00735261.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|168767913, gi... - gi\|189362998\|gb\|EDU81417.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... NUOB_SHISS - NADH-quinone oxidoreductase subunit B OS=Shigella sonnei (strain Ss046) GN=nuoB PE=3 SV=1 gi\|189368240, gi... - gi\|189368240\|gb\|EDU86656.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... gi\|190909510, gi... - gi\|75243098\|ref\|ZP_00726804.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|189001940, gi... - gi\|189001940\|gb\|EDU70926.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... gi\|75259745, gi\|... - gi\|75259745\|ref\|ZP_00731047.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|187771211, gi... - gi\|187771211\|gb\|EDU35055.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... gi\|189378981, gi... - gi\|189378981\|gb\|EDU97397.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... gi\|189372840, gi... - gi\|189372840\|gb\|EDU91256.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str. EC... NUOB_SHIBS - NADH-quinone oxidoreductase subunit B OS=Shigella boydii serotype 4 (strain Sb227) GN=nuoB PE=3 SV=1 NUOB_ECODH - NADH-quinone oxidoreductase subunit B OS=Escherichia coli (strain K12 / DH10B) GN=nuoB PE=3 SV=1 gi\|89109105, gi\|... - gi\|89109105\|ref\|AP_002885.1\| NADH:ubiquinone oxidoreductase, chain B [Escherichia coli str. K-12 sub... NUOB_ECOLC - NADH-quinone oxidoreductase subunit B OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=... NUOB_SHIB3 - NADH-quinone oxidoreductase subunit B OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN... NUOB_ECO24 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=nuoB P... gi\|194424696, gi... - gi\|83588270\|ref\|ZP_00926895.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|75230332, gi\|... - gi\|75230332\|ref\|ZP_00716822.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|75238070, gi\|... - gi\|75238070\|ref\|ZP_00722075.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... NUOB_ECOHS - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O9:H4 (strain HS) GN=nuoB PE=3 SV=1 gi\|194414847, gi... - gi\|75211690\|ref\|ZP_00711769.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... NUOB_ECOL6 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O6 GN=nuoB PE=3 SV=1 sp\|B7UFU5\|NUOB_ECO27 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=nuoB P... EG12083 - NADH:ubiquinone oxidoreductase, chain B / NADH:ubiquinone oxidoreductase subunit B, complex I; NADH ... NUOB_ECOLU - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=nuo... NUOB_ECO7I - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=nuoB PE=3 ... NUOB_ECO27 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=nuoB P... NUOB_ECOSE - NADH-quinone oxidoreductase subunit B OS=Escherichia coli (strain SE11) GN=nuoB PE=3 SV=1 NUOB_ESCF3 - NADH-quinone oxidoreductase subunit B OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC... gi\|217327914, gi... - gi\|217327914\|ref\|ZP_03443997.1\| NADH-quinone oxidoreductase, B subunit [Escherichia coli O157:H7 str... NUOB_ECO45 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=nuoB PE=3 S... NUOB_ECO8A - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O8 (strain IAI1) GN=nuoB PE=3 SV=1 NUOB_ECO55 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli (strain 55989 / EAEC) GN=nuoB PE=3 SV=1 NUOB_ECO81 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O81 (strain ED1a) GN=nuoB PE=3 SV=1 NUOB_ECOL5 - NADH-quinone oxidoreductase subunit B OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=nuoB PE=... NUOB_SHIF8 - NADH-quinone oxidoreductase subunit B OS=Shigella flexneri serotype 5b (strain 8401) GN=nuoB PE=3 SV... NUOB_ECOUT - NADH-quinone oxidoreductase subunit B OS=Escherichia coli (strain UTI89 / UPEC) GN=nuoB PE=3 SV=1 gi\|13362641, gi\|... - gi\|15832425\|ref\|NP_311198.1\| NADH dehydrogenase subunit B [Escherichia coli O157:H7 str. Sakai], gi\|...	1.0E-79	[1..220]	[1..220]
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,...	2.0E-79	[1..220]	[1..220]
NUOB_ERWCA - (O85274) NADH-quinone oxidoreductase chain B (EC 1.6.99.5) (NADH dehydrogenase I, chain B) (NDH-1, c... NUOB_PECCP - NADH-quinone oxidoreductase subunit B OS=Pectobacterium carotovorum subsp. carotovorum (strain PC1) ... gi\|227326166 - gi\|227326166\|ref\|ZP_03830190.1\| NADH dehydrogenase subunit B [Pectobacterium carotovorum subsp. caro... NUOB_ERWCT - NADH-quinone oxidoreductase subunit B OS=Erwinia carotovora subsp. atroseptica GN=nuoB PE=3 SV=1 NUOB_PECAS - NADH-quinone oxidoreductase subunit B OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-67... NUOB_PECCC - NADH-quinone oxidoreductase subunit B OS=Pectobacterium carotovorum subsp. carotovorum GN=nuoB PE=3 ...	3.0E-76	[1..220]	[1..224]
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]	5.0E-76	[1..220]	[1..224]
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	7.0E-76	[1..220]	[1..224]
gi\|89105751, gi\|... - gi\|89105751\|ref\|ZP_01178265.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|149291953, gi... - gi\|149365540\|ref\|ZP_01887575.1\| NADH dehydrogenase I chain B [Yersinia pestis CA88-4125], gi\|1492919... NUOB_YERPA - NADH-quinone oxidoreductase subunit B OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=nuoB PE=3 S... NUOB_YERPP - NADH-quinone oxidoreductase subunit B OS=Yersinia pestis (strain Pestoides F) GN=nuoB PE=3 SV=1 NUOB_YERPN - NADH-quinone oxidoreductase subunit B OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=nuoB PE=3 ... NUOB_YERPE - NADH-quinone oxidoreductase subunit B OS=Yersinia pestis GN=nuoB PE=3 SV=1 gi\|45442154, gi\|... - gi\|45442154\|ref\|NP_993693.1\| NADH dehydrogenase subunit B [Yersinia pestis biovar Microtus str. 9100... gi\|21958425, gi\|... - gi\|22125526\|ref\|NP_668949.1\| NADH dehydrogenase subunit B [Yersinia pestis KIM], gi\|21958425\|gb\|AAM8... gi\|115348251, gi... - gi\|218929640\|ref\|YP_002347515.1\| NADH dehydrogenase subunit B [Yersinia pestis CO92], gi\|16122772\|re... NUOB_YERPS - NADH-quinone oxidoreductase subunit B OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=... NUOB_YERE8 - NADH-quinone oxidoreductase subunit B OS=Yersinia enterocolitica serotype O:8 / biotype 1B (strain N... gi\|238794606, gi... - gi\|77976401\|ref\|ZP_00831892.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|77975478 - gi\|77975478\|ref\|ZP_00831013.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... gi\|238784999, gi... - gi\|77957602\|ref\|ZP_00821653.1\| COG0377: NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-... NUOB_YERPS - NADH-quinone oxidoreductase subunit B OS=Yersinia pseudotuberculosis GN=nuoB PE=3 SV=1 gi\|167422249, gi... - gi\|167422249\|ref\|ZP_02314002.1\| NADH-quinone oxidoreductase, B subunit [Yersinia pestis biovar Orien... gi\|167051175, gi... - gi\|167398671\|ref\|ZP_02304195.1\| NADH-quinone oxidoreductase, B subunit [Yersinia pestis biovar Antiq... gi\|167470575 - gi\|167470575\|ref\|ZP_02335279.1\| NADH-quinone oxidoreductase, B subunit [Yersinia pestis FV-1] gi\|167424429, gi... - gi\|167424429\|ref\|ZP_02316182.1\| NADH-quinone oxidoreductase, B subunit [Yersinia pestis biovar Media... NUOB_YERPB - NADH-quinone oxidoreductase subunit B OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=n... NUOB_YERPY - NADH-quinone oxidoreductase subunit B OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=... NUOB_YERPG - NADH-quinone oxidoreductase subunit B OS=Yersinia pestis bv. Antiqua (strain Angola) GN=nuoB PE=3 SV... gi\|229838096, gi... - gi\|229838096\|ref\|ZP_04458255.1\| NADH:ubiquinone oxidoreductase, chain B [Yersinia pestis biovar Orie... gi\|229895295, gi... - gi\|229895295\|ref\|ZP_04510469.1\| NADH:ubiquinone oxidoreductase, chain B [Yersinia pestis Pestoides A... gi\|229688204, gi... - gi\|229898656\|ref\|ZP_04513801.1\| NADH:ubiquinone oxidoreductase, chain B [Yersinia pestis biovar Orie... gi\|165925479, gi... - gi\|165925479\|ref\|ZP_02221311.1\| NADH-quinone oxidoreductase, B subunit [Yersinia pestis biovar Orien... gi\|238701790, gi... - gi\|238759963\|ref\|ZP_04621116.1\| NADH-quinone oxidoreductase subunit B [Yersinia aldovae ATCC 35236],... gi\|238763927, gi... - gi\|238763927\|ref\|ZP_04624884.1\| NADH-quinone oxidoreductase subunit B [Yersinia kristensenii ATCC 33... gi\|166213868, gi... - gi\|166213868\|ref\|ZP_02239903.1\| NADH-quinone oxidoreductase, B subunit [Yersinia pestis biovar Antiq... gi\|238798405, gi... - gi\|238798405\|ref\|ZP_04641886.1\| NADH-quinone oxidoreductase subunit B [Yersinia mollaretii ATCC 4396... gi\|165992860, gi... - gi\|166008478\|ref\|ZP_02229376.1\| NADH-quinone oxidoreductase, B subunit [Yersinia pestis biovar Antiq...	2.0E-73	[1..220]	[1..225]
NUOB_PSEF5 - NADH-quinone oxidoreductase subunit B OS=Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477) GN=nuo...	2.0E-73	[1..220]	[1..224]
NUOB_PSEPF - NADH-quinone oxidoreductase subunit B OS=Pseudomonas fluorescens (strain Pf0-1) GN=nuoB PE=3 SV=1	3.0E-73	[1..220]	[1..224]

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Predicted Domain #1

Region A:
Residues: [1-220]

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

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	55.0
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: