YRC Public Data Repository - Protein Structure Prediction

Protein:	COX5B_RAT
Organism:	Rattus norvegicus
Length:	129 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 COX5B_RAT.

Description	E-value	Query Range	Subject Range
COX5B_BOVIN - Cytochrome c oxidase subunit 5B, mitochondrial OS=Bos taurus GN=COX5B PE=1 SV=2	215.0	[0..1]	[129..1]
gi\|74152883, gi\|... - gi\|74199859\|dbj\|BAE20757.1\| unnamed protein product [Mus musculus], gi\|74152883\|dbj\|BAE22451.1\| unna...	214.0	[0..1]	[129..1]
gi\|473729 - gi\|473729\|dbj\|BAA01743.1\| cytochrome c oxidase subunit Vb [Rattus norvegicus]	212.0	[0..1]	[129..1]
gi\|55583747 - gb\|AAV53387.1\| mitochondrial cytochrome c oxidase subunit Vb [Sus scrofa] COX5B_PIG - Cytochrome c oxidase subunit 5B, mitochondrial OS=Sus scrofa GN=COX5B PE=2 SV=1	210.0	[0..1]	[129..1]
gi\|57106580 - gi\|57106580\|ref\|XP_534921.1\| PREDICTED: similar to Cytochrome c oxidase polypeptide Vb, mitochondria...	209.0	[0..1]	[129..1]
gi\|109103898 - gi\|109103898\|ref\|XP_001100566.1\| PREDICTED: similar to cytochrome c oxidase subunit Vb precursor [Ma...	209.0	[0..1]	[129..1]
gi\|60824360 - gi\|60824360\|gb\|AAX36677.1\| cytochrome c oxidase subunit Vb [synthetic construct] gi\|49456415 - gi\|49456415\|emb\|CAG46528.1\| COX5B [Homo sapiens]	206.0	[0..1]	[129..1]
gi\|60833885 - gi\|60833885\|gb\|AAX37069.1\| cytochrome c oxidase subunit Vb [synthetic construct]	206.0	[0..1]	[129..1]

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Predicted Domain #1

Region A:
Residues: [1-129]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MASRLLRGVG ALAAQALRAH GPRGVAATRS MASGGGVPTD EEQATGLERE IMIAAQRGLD  60
   61 PYNMLPPKAA SGTKEDPNLV PSVSNKRIVG CICEEDNCTV IWFWLHQGES QRCPNCGTHY 120
  121 KLVPYQMVH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	45.30103
Match:	1occF
Description:	Cytochrome c oxidase Subunit F
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
cytochrome-c oxidase activity	0.942365217032167	bayes_pls_golite062009
oxidoreductase activity, acting on heme group of donors	0.942365217032167	bayes_pls_golite062009
oxidoreductase activity, acting on heme group of donors, oxygen as acceptor	0.942365217032167	bayes_pls_golite062009
binding	0.925615758639096	bayes_pls_golite062009
heme-copper terminal oxidase activity	0.706848307362399	bayes_pls_golite062009
cation transmembrane transporter activity	0.0832654869651861	bayes_pls_golite062009
ion transmembrane transporter activity	0.00798941779972262	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: