YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16501714, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi
Length:	318 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|16501714, gi|....

Description	E-value	Query Range	Subject Range
gi\|161615367, gi... - gi\|161615367\|ref\|YP_001589332.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|224466808, gi... - gi\|224582281\|ref\|YP_002636079.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|206707726, gi... - gi\|207855923\|ref\|YP_002242574.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|205271535, gi... - gi\|205351754\|ref\|YP_002225555.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|200389597, gi... - gi\|200389597\|ref\|ZP_03216208.1\| cytochrome o ubiquinol oxidase, subunit II [Salmonella enterica subs... gi\|198243660, gi... - gi\|198243660\|ref\|YP_002214397.1\| cytochrome o ubiquinol oxidase, subunit II [Salmonella enterica sub... gi\|197094798, gi... - gi\|197363321\|ref\|YP_002142958.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subs... gi\|238911425 - gi\|238911425\|ref\|ZP_04655262.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subsp... gi\|194709773, gi... - gi\|194734271\|ref\|YP_002113474.1\| cytochrome o ubiquinol oxidase, subunit II [Salmonella enterica sub... gi\|56414401, gi\|... - gi\|56414401\|ref\|YP_151476.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subsp. e... gi\|168465534, gi... - gi\|195631750\|gb\|EDX50270.1\| cytochrome o ubiquinol oxidase, subunit II [Salmonella enterica subsp. e... gi\|62126688, gi\|... - gi\|62179055\|ref\|YP_215472.1\| cytochrome o ubiquinol oxidase subunit II [Salmonella enterica subsp. e... gi\|168237555, gi... - gi\|197289581\|gb\|EDY28944.1\| cytochrome o ubiquinol oxidase, subunit II [Salmonella enterica subsp. e...	2.0E-90	[1..318]	[1..318]
gi\|218552998, gi... - gi\|218552998\|ref\|YP_002385911.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli IAI1], ... gi\|218357441, gi... - gi\|218549900\|ref\|YP_002383691.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia fergusonii A... gi\|81244331, gi\|... - gi\|82542920\|ref\|YP_406867.1\| cytochrome o ubiquinol oxidase subunit II [Shigella boydii Sb227], gi\|8... gi\|209910907, gi... - gi\|209917648\|ref\|YP_002291732.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli SE11], ... gi\|192958041, gi... - gi\|193068678\|ref\|ZP_03049639.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli E110019... gi\|157159957, gi... - gi\|157159957\|ref\|YP_001457275.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli HS], gi... gi\|74311007, gi\|... - gi\|74311007\|ref\|YP_309426.1\| cytochrome o ubiquinol oxidase subunit II [Shigella sonnei Ss046], gi\|7... gi\|157077310, gi... - gi\|157155280\|ref\|YP_001461618.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli E24377A... gi\|218350627, gi... - gi\|218693895\|ref\|YP_002401562.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli 55989],...	5.0E-89	[1..315]	[1..315]
CYOA_ECOL6 - Cytochrome bo(3) ubiquinol oxidase subunit 2 OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 ... EG10178 - cytochrome o ubiquinol oxidase subunit II / Cytochrome o oxidase subunit II, lipoprotein; also calle... gi\|218698656, gi... - gi\|218698656\|ref\|YP_002406285.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli IAI39],... gi\|218703715, gi... - gi\|218703715\|ref\|YP_002411234.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli UMN026]... CYOA_ECOLI - Ubiquinol oxidase subunit 2 precursor (EC 1.10.3.-) (Ubiquinol oxidase polypeptide II) (Cytochrome o... EG10178 - cytochrome o ubiquinol oxidase subunit II / Cytochrome o oxidase subunit II, lipoprotein; also calle... gi\|169887853, gi... - gi\|170080018\|ref\|YP_001729338.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli str. K-... gi\|170683800, gi... - gi\|170683800\|ref\|YP_001742573.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli SMS-3-... gi\|89107302, gi\|... - gi\|89107302\|ref\|AP_001082.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli str. K-12 s... gi\|227838645, gi... - gi\|227884559\|ref\|ZP_04002364.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli 83972], ... gi\|238860708, gi... - gi\|238899720\|ref\|YP_002925516.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli BW2952]... CYOA_ECOL6 - Ubiquinol oxidase subunit 2 OS=Escherichia coli O6 GN=cyoA PE=3 SV=1	2.0E-88	[1..315]	[1..315]
gi\|110342284, gi... - gi\|110640692\|ref\|YP_668420.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli 536], gi\|1... gi\|218688295, gi... - gi\|218688295\|ref\|YP_002396507.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli ED1a], ...	2.0E-88	[1..315]	[1..315]
gi\|189373687, gi... - gi\|189373687\|gb\|EDU92103.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli O157:H7 str... gi\|13359943, gi\|... - gi\|15829740\|ref\|NP_308513.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli O157:H7 str... gi\|195938502 - gi\|195938502\|ref\|ZP_03083884.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli O157:H7 ... gi\|208816264, gi... - gi\|208816264\|ref\|ZP_03257443.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|208822852, gi... - gi\|208822852\|ref\|ZP_03263170.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|188999397, gi... - gi\|188999397\|gb\|EDU68383.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli O157:H7 str... gi\|254591016, gi... - gi\|254791616\|ref\|YP_003076453.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli O157:H7... gi\|13359943, gi\|... - gi\|15829740\|ref\|NP_308513.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli O157:H7], g... gi\|209159682, gi... - gi\|209398282\|ref\|YP_002269078.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli O157:H... gi\|25285560, gi\|... - pir\|\|B85540 cytochrome o ubiquinol oxidase subunit II [imported] - Escherichia coli (strain O157:H7,... gi\|217324809, gi... - gi\|217324809\|ref\|ZP_03440893.1\| cytochrome o ubiquinol oxidase, subunit II [Escherichia coli O157:H7... gi\|15800162, gi\|... - gi\|15800162\|ref\|NP_286174.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli O157:H7 EDL...	5.0E-88	[1..315]	[1..315]
gi\|91209502, gi\|... - gi\|91209502\|ref\|YP_539488.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli UTI89], gi\|...	5.0E-88	[1..315]	[1..315]
gi\|115511816, gi... - gi\|117622692\|ref\|YP_851605.1\| cytochrome o ubiquinol oxidase subunit II [Escherichia coli APEC O1], ...	3.0E-86	[1..315]	[1..318]
gi\|75237184 - gi\|75237184\|ref\|ZP_00721231.1\| COG1622: Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Esch... gi\|75194653 - gi\|75194653\|ref\|ZP_00704723.1\| COG1622: Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Esch... gi\|75189501 - gi\|75189501\|ref\|ZP_00702768.1\| COG1622: Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Esch...	2.0E-83	[21..315]	[1..295]
gi\|75512493 - gi\|75512493\|ref\|ZP_00735032.1\| COG1622: Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Esch... gi\|83585647 - gi\|83585647\|ref\|ZP_00924289.1\| COG1622: Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Esch...	3.0E-83	[21..315]	[1..295]
gi\|75176906 - gi\|75176906\|ref\|ZP_00697022.1\| COG1622: Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Shig...	4.0E-83	[21..315]	[1..295]

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Predicted Domain #1

Region A:
Residues: [1-318]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRLRKYNKSL GWLSLIAGTA LLSGCNSALL DPKGQIGLEQ RSLILTAFGL MLIVVIPAIL  60
   61 MAVGFAWKYR ASNKDAKYSP NWSHSNKVEA VVWTVPILII IFLAVLTWKT THALEPSKPL 120
  121 AHDEKPITIE VVSMDWKWFF IYPEQGIATV NEIAFPANTP VYFKVTSNSV MNSFFIPRLG 180
  181 SQIYAMAGMQ TRLHLIANEP GTYDGISASY SGPGFSGMKF KAIATKDRAE FDQWVAKAKQ 240
  241 SPNTMNDMAA FEKVAMPSEY NKVEYFSSVK PDLFKDVINK FMGHGKSMDM TQPEGEHSSH 300
  301 EGMEGMDMSH AESANSKG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	90.045757
Match:	1fftB
Description:	Quinol oxidase (CyoA); Cytochrome O ubiquinol oxidase, subunit II
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor	5.5320936660461	bayes_pls_golite062009
cytochrome o ubiquinol oxidase activity	4.09398657845645	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	3.23507475399426	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	3.08796639820421	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	2.79748960625238	bayes_pls_golite062009
cation transmembrane transporter activity	2.54465068228515	bayes_pls_golite062009
heme-copper terminal oxidase activity	2.52421129381183	bayes_pls_golite062009
ion transmembrane transporter activity	2.33710247671877	bayes_pls_golite062009
cytochrome-c oxidase activity	2.27561648237334	bayes_pls_golite062009
oxidoreductase activity, acting on heme group of donors	2.27561648237334	bayes_pls_golite062009
oxidoreductase activity, acting on heme group of donors, oxygen as acceptor	2.27561648237334	bayes_pls_golite062009
oxidoreductase activity, acting on diphenols and related substances as donors	2.21664917825138	bayes_pls_golite062009
oxidoreductase activity	1.40469867187886	bayes_pls_golite062009
catalytic activity	0.363071622766357	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: