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 is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident 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: