YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24350987, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	342 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|24350987, gi|....

Description	E-value	Query Range	Subject Range
gi\|28806506, gi\|... - gi\|28898289\|ref\|NP_797894.1\| formate dehydrogenase, cytochrome b556 subunit [Vibrio parahaemolyticus... gi\|28806506 - gi\|28806506\|dbj\|BAC59778.1\| formate dehydrogenase, cytochrome b556 subunit [Vibrio parahaemolyticus ... gi\|153837752, gi... - gi\|153837752\|ref\|ZP_01990419.1\| formate dehydrogenase, cytochrome b556 subunit [Vibrio parahaemolyti...	315.0	[0..6]	[342..2]
gi\|229508541, gi... - gi\|229508541\|ref\|ZP_04398044.1\| formate dehydrogenase -O gamma subunit [Vibrio cholerae BX 330286], ... gi\|229370601, gi... - gi\|229607946\|ref\|YP_002878594.1\| formate dehydrogenase -O gamma subunit [Vibrio cholerae MJ-1236], g... gi\|229343216, gi... - gi\|229518527\|ref\|ZP_04407970.1\| formate dehydrogenase -O gamma subunit [Vibrio cholerae RC9], gi\|229... gi\|229511388, gi... - gi\|229511388\|ref\|ZP_04400867.1\| formate dehydrogenase -O gamma subunit [Vibrio cholerae B33], gi\|229... gi\|75830438, gi\|... - gi\|75830438\|ref\|ZP_00759716.1\| COG2864: Cytochrome b subunit of formate dehydrogenase [Vibrio choler... gi\|75816307 - gi\|75816307\|ref\|ZP_00746781.1\| COG2864: Cytochrome b subunit of formate dehydrogenase [Vibrio choler... gi\|75826876 - gi\|75826876\|ref\|ZP_00756311.1\| COG2864: Cytochrome b subunit of formate dehydrogenase [Vibrio choler...	313.0	[0..2]	[340..1]
gi\|121548574, gi... - gi\|121587231\|ref\|ZP_01677005.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae 2740... gi\|124119271, gi... - gi\|153221913\|ref\|ZP_01952758.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae MAK ... gi\|147675698, gi... - gi\|227117975\|ref\|YP_002819871.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae O39... gi\|121726910, gi... - gi\|121726910\|ref\|ZP_01680111.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae V52]... gi\|9656015, gi\|1... - gi\|9656015\|gb\|AAF94666.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae O1 biovar ... gi\|126510942, gi... - gi\|153818539\|ref\|ZP_01971206.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae NCTC... gi\|11354931 - pir\|\|G82191 formate dehydrogenase, cytochrome B556 chain VC1511 [imported] - Vibrio cholerae (strain... gi\|254848632, gi... - gi\|254848632\|ref\|ZP_05237982.1\| formate dehydrogenase [Vibrio cholerae MO10], gi\|254844337\|gb\|EET227... gi\|126519666, gi... - gi\|153822807\|ref\|ZP_01975474.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae B33]... gi\|227081669, gi... - gi\|227081669\|ref\|YP_002810220.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio cholerae M66...	312.0	[0..2]	[340..3]
gi\|91191214, gi\|... - gi\|91223722\|ref\|ZP_01258986.1\| formate dehydrogenase, cytochrome b556 subunit [Vibrio alginolyticus ...	312.0	[0..6]	[342..2]
gi\|254229548, gi... - gi\|75855487\|ref\|ZP_00763136.1\| COG2864: Cytochrome b subunit of formate dehydrogenase [Vibrio sp. Ex...	310.0	[0..6]	[342..2]
gi\|116220475, gi... - gi\|75819763\|ref\|ZP_00749829.1\| COG2864: Cytochrome b subunit of formate dehydrogenase [Vibrio choler...	304.0	[0..2]	[339..1]
gi\|113890721, gi... - gi\|78689174\|ref\|ZP_00853838.1\| Formate dehydrogenase, gamma subunit [Shewanella sp. MR-7], gi\|785113... gi\|78684376, gi\|... - gi\|78684376\|ref\|ZP_00849160.1\| Formate dehydrogenase, gamma subunit [Shewanella sp. ANA-3], gi\|78507... gi\|82404828, gi\|... - gi\|82497115\|ref\|ZP_00882674.1\| Formate dehydrogenase, gamma subunit [Shewanella sp. MR-4], gi\|824048...	303.0	[0..1]	[342..1]
gi\|27365888, gi\|... - gi\|27365888\|ref\|NP_761416.1\| cytochrome B556 subunit of formate dehydrogenase [Vibrio vulnificus CMC...	301.0	[0..15]	[337..9]
gi\|46913478, gi\|... - gi\|54309046\|ref\|YP_130066.1\| putative formate dehydrogenase, cytochrome B556subunit [Photobacterium ...	300.0	[0..6]	[337..1]
gi\|37679882, gi\|... - gi\|37679882\|ref\|NP_934491.1\| formate dehydrogenase, cytochrome B556 subunit [Vibrio vulnificus YJ016...	297.0	[0..15]	[336..9]

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Predicted Domain #1

Region A:
Residues: [1-125]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLNKQLNKSL RSLFALMVLV MGLGLGSVMS ASPVQASDQQ SSQQQAKAQT SEADLWRAVK  60
   61 SGETGYTTAE GVEAGVLINV AGNQGKELRN QYITPIMALA VTGVFGVFLL FYLVNGPSKL 120
  121 SHGFS

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [126-342]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GKMVVRWSKA DLWIHWIMAI SCLVLMFTGL TIMLGKHVVQ ELLGPDIWAP LIYGSKTVHD  60
   61 WAGPIFIVSW IVCVVKWMPL QTFKMYDLKW FLVVGGYINF GPFKGKHPDS GFANAGEKMW 120
  121 FWTLTLFGLF ISVSGIMLVL PGLDLPREAS MAALLIHSIS AVILIAFTIV HIWMATVLSE 180
  181 GGMECMKSGY CDENWAIQHH NLWYDEIKAN GSLRYKD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.39794
Match:	1kqfC
Description:	Formate dehydrogenase N, cytochrome (gamma) subunit
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
formate dehydrogenase activity	12.0031413212101	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	6.74953039117709	bayes_pls_golite062009
oxidoreductase activity	6.50321219171766	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	6.34988495153085	bayes_pls_golite062009
electron carrier activity	5.12151222577784	bayes_pls_golite062009
ubiquinol-cytochrome-c reductase activity	4.22830694615406	bayes_pls_golite062009
oxidoreductase activity, acting on diphenols and related substances as donors, cytochrome as acceptor	4.22830694615406	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	4.0059637271275	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	3.84393168925676	bayes_pls_golite062009
oxidoreductase activity, acting on diphenols and related substances as donors	3.81757741812263	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	3.03994437587765	bayes_pls_golite062009
cation transmembrane transporter activity	2.71722961068288	bayes_pls_golite062009
ion transmembrane transporter activity	2.41992215050809	bayes_pls_golite062009
catalytic activity	1.19342057724506	bayes_pls_golite062009
binding	0.00724604692107611	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: