YRC Public Data Repository - Protein Structure Prediction

Protein:	HYBA_ECOLI
Organism:	Escherichia coli
Length:	328 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 HYBA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|218560071, gi... - gi\|218560071\|ref\|YP_002392984.1\| hydrogenase 2 protein HybA [Escherichia coli S88], gi\|218366840\|emb... gi\|26249564, gi\|... - gi\|26249564\|ref\|NP_755604.1\| hydrogenase 2 protein HybA [Escherichia coli CFT073], gi\|26109972\|gb\|AA... gi\|218433720, gi... - gi\|218706623\|ref\|YP_002414142.1\| hydrogenase 2 protein HybA [Escherichia coli UMN026], gi\|218433720\|... gi\|91212410, gi\|... - gi\|91212410\|ref\|YP_542396.1\| hydrogenase 2 protein HybA [Escherichia coli UTI89], gi\|91073984\|gb\|ABE... gi\|115514425, gi... - gi\|117625301\|ref\|YP_854502.1\| hydrogenase 2 protein HybA [Escherichia coli APEC O1], gi\|115514425\|gb... gi\|215266394, gi... - gi\|215488322\|ref\|YP_002330753.1\| hydrogenase 2 protein HybA [Escherichia coli O127:H6 str. E2348/69]... gi\|191172476, gi... - gi\|75240548\|ref\|ZP_00724476.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|218550247, gi... - gi\|218550247\|ref\|YP_002384038.1\| hydrogenase 2 protein HybA [Escherichia fergusonii ATCC 35469], gi\|...	291.0	[0..1]	[328..1]
gi\|75196960, gi\|... - gi\|75196960\|ref\|ZP_00707030.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi...	291.0	[0..1]	[328..1]
gi\|12517560, gi\|... - gi\|15803541\|ref\|NP_289574.1\| hydrogenase 2 protein HybA [Escherichia coli O157:H7 EDL933], gi\|125175... gi\|25387625 - gi\|25387625\|pir\|\|A85959 hydrogenase-2 small subunit [imported] - Escherichia coli (strain O157:H7, ...	290.0	[0..1]	[328..1]
gi\|187429479, gi... - gi\|75178895\|ref\|ZP_00698931.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Shigella b...	289.0	[0..1]	[328..1]
gi\|81242383, gi\|... - gi\|82778235\|ref\|YP_404584.1\| hydrogenase 2 protein HybA [Shigella dysenteriae Sd197], gi\|81242383\|gb...	289.0	[0..1]	[328..1]
gi\|52308471, gi\|... - gi\|52426419\|ref\|YP_089556.1\| hydrogenase 2 protein HybA [Mannheimia succiniciproducens MBEL55E], gi\|...	283.0	[0..1]	[327..1]
gi\|238790269, gi... - gi\|77974203\|ref\|ZP_00829745.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Yersinia f...	278.0	[0..1]	[327..1]
gi\|238909949 - gi\|238909949\|ref\|ZP_04653786.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica sero... gi\|194404668, gi... - gi\|194446005\|ref\|YP_002042413.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp.... gi\|194406058, gi... - gi\|194447754\|ref\|YP_002047144.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica ser... gi\|194458382, gi... - gi\|194472018\|ref\|ZP_03078002.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ... gi\|194736578, gi... - gi\|194736578\|ref\|YP_002116104.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp.... gi\|168242968, gi... - gi\|205337793\|gb\|EDZ24557.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ente... gi\|205348510, gi... - gi\|205348510\|gb\|EDZ35141.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ente... gi\|168463650, gi... - gi\|195633630\|gb\|EDX52044.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ente... gi\|205343282, gi... - gi\|205343282\|gb\|EDZ30046.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ente... gi\|161365493, gi... - gi\|161616129\|ref\|YP_001590094.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica ser... gi\|205331109, gi... - gi\|205331109\|gb\|EDZ17873.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ente... gi\|205333855, gi... - gi\|205333855\|gb\|EDZ20619.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ente... gi\|197289016, gi... - gi\|197289016\|gb\|EDY28387.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ente... gi\|214000550 - gi\|214000550\|ref\|ZP_03411285.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica sero... gi\|29143414, gi\|... - gi\|29143414\|ref\|NP_806756.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica serovar... gi\|213417308 - gi\|213417308\|ref\|ZP_03350452.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica sero... gi\|16761927 - gi\|16761927\|ref\|NP_457544.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica serovar... gi\|213586280 - gi\|213586280\|ref\|ZP_03368106.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica sero... gi\|25387630, gi\|... - gi\|25387630\|pir\|\|AE0885 hydrogenase-2 small chain [imported] - Salmonella enterica subsp. enterica s... gi\|213618584 - gi\|213618584\|ref\|ZP_03372410.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica sero... gi\|16421703, gi\|... - gi\|16766449\|ref\|NP_462064.1\| hydrogenase 2 protein HybA [Salmonella typhimurium LT2], gi\|16421703\|gb... gi\|213648646 - gi\|213648646\|ref\|ZP_03378699.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica sero... gi\|199604203, gi... - gi\|200387105\|ref\|ZP_03213717.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ... gi\|204928261, gi... - gi\|204928261\|ref\|ZP_03219461.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ... gi\|206710211, gi... - gi\|207858408\|ref\|YP_002245059.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica ser... gi\|213161307 - gi\|213161307\|ref\|ZP_03347017.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica sero... gi\|197248550, gi... - gi\|197248550\|ref\|YP_002148070.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp.... lcl\|NC_016856.1_... - [gene=hybA] [protein=hydrogenase 2 protein HybA] [protein_id=YP_005239312.1] [location=complement(33... gi\|197243340, gi... - gi\|197265085\|ref\|ZP_03165159.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp. ... gi\|197364019, gi... - gi\|197364019\|ref\|YP_002143656.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica ser... gi\|198245843, gi... - gi\|198245843\|ref\|YP_002217126.1\| hydrogenase-2 electron transfer subunit [Salmonella enterica subsp.... gi\|56415090, gi\|... - gi\|56415090\|ref\|YP_152165.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica serovar... gi\|62129293, gi\|... - gi\|62181660\|ref\|YP_218077.1\| hydrogenase 2 protein HybA [Salmonella enterica subsp. enterica serovar...	276.0	[0..1]	[328..1]
gi\|32034180 - gi\|32034180\|ref\|ZP_00134402.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Actinobaci... gi\|165976757, gi... - gi\|165976757\|ref\|YP_001652350.1\| hydrogenase 2 protein HybA [Actinobacillus pleuropneumoniae serovar... gi\|126097588, gi... - gi\|126208796\|ref\|YP_001054021.1\| hydrogenase 2 protein HybA [Actinobacillus pleuropneumoniae L20], g...	272.0	[0..1]	[326..1]
gi\|49610691, gi\|... - gi\|50120165\|ref\|YP_049332.1\| hydrogenase 2 protein HybA [Pectobacterium atrosepticum SCRI1043], gi\|4...	271.0	[0..1]	[327..1]

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Predicted Domain #1

Region A:
Residues: [1-328]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNRRNFIKAA SCGALLTGAL PSVSHAAAEN RPPIPGSLGM LYDSTLCVGC QACVTKCQDI  60
   61 NFPERNPQGE QTWSNNDKLS PYTNNIIQVW TSGTGVNKDQ EENGYAYIKK QCMHCVDPNC 120
  121 VSVCPVSALK KDPKTGIVHY DKDVCTGCRY CMVACPYNVP KYDYNNPFGA LHKCELCNQK 180
  181 GVERLDKGGL PGCVEVCPAG AVIFGTREEL MAEAKKRLAL KPGSEYHYPR QTLKSGDTYL 240
  241 HTVPKYYPHL YGEKEGGGTQ VLVLTGVPYE NLDLPKLDDL STGARSENIQ HTLYKGMMLP 300
  301 LAVLAGLTVL VRRNTKNDHH DGGDDHES

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.221849
Match:	1kqfB
Description:	Formate dehydrogenase N, iron-sulfur (beta) subunit; Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
formate dehydrogenase activity	10.9674358961972	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	7.27554333181693	bayes_pls_golite062009
iron-sulfur cluster binding	6.49651154487804	bayes_pls_golite062009
metal cluster binding	6.49651154487804	bayes_pls_golite062009
oxidoreductase activity	5.98361135786786	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	5.77927347135001	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	5.39747453448396	bayes_pls_golite062009
electron carrier activity	5.05393703018095	bayes_pls_golite062009
NADH dehydrogenase activity	4.33237073012425	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	4.11385247295551	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	4.01604464286682	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	3.37009759734389	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	2.37284861281746	bayes_pls_golite062009
catalytic activity	0.488483980994331	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: