YRC Public Data Repository - Protein Structure Prediction

Protein:	COX13
Organism:	Saccharomyces cerevisiae
Length:	129 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 COX13.

Description	E-value	Query Range	Subject Range
COX13 - Subunit VIa of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membran... gi\|151943625 - gi\|151943625\|gb\|EDN61935.1\| cytochrome c oxidase subunit VIa [Saccharomyces cerevisiae YJM789] gi\|190407131 - gi\|190407131\|gb\|EDV10398.1\| cytochrome c oxidase subunit VIa [Saccharomyces cerevisiae RM11-1a] COX13_YEAST - Cytochrome c oxidase subunit 6A, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S28...	2.0E-48	[1..129]	[1..129]
COX13_SCHPO - Cytochrome c oxidase subunit 6A, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843... cox13 - cytochrome c oxidase subunit VIa	7.0E-34	[11..129]	[17..129]
levy-PA, FBpp0309930 - The gene levy is referred to in FlyBase by the symbol Dmel\levy (CG17280, FBgn0034877). It is a prot... gi\|220958324, gi... - gi\|220958324\|gb\|ACL91705.1\| levy-PA [synthetic construct], gi\|220949164\|gb\|ACL87125.1\| levy-PA [synt...	6.0E-27	[11..122]	[2..101]
COX6A1 - cytochrome c oxidase subunit VIa polypeptide 1 gi\|123999658, gi... - gi\|123999658\|gb\|ABM87370.1\| cytochrome c oxidase subunit VIa polypeptide 1 [synthetic construct], gi... gi\|114647282 - gi\|114647282\|ref\|XP_001160455.1\| PREDICTED: similar to 15E1.4 (Cytochrome C Oxidase Polypeptide VIa-...	1.0E-26	[38..122]	[24..100]
CX6A2_RAT - Cytochrome c oxidase subunit 6A2, mitochondrial (Fragment) OS=Rattus norvegicus GN=Cox6a2 PE=1 SV=3	1.0E-25	[34..122]	[8..85]
COX6A_CYPCA - Cytochrome c oxidase subunit 6A, mitochondrial OS=Cyprinus carpio PE=3 SV=1	2.0E-25	[21..122]	[2..91]
CX6A1_RABIT - Cytochrome c oxidase subunit 6A1, mitochondrial OS=Oryctolagus cuniculus GN=COX6A1 PE=3 SV=1	2.0E-25	[38..122]	[24..100]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	2.0E-25	[38..122]	[1..77]
COX6A_ONCMY - Cytochrome c oxidase subunit 6A, mitochondrial OS=Oncorhynchus mykiss PE=3 SV=1	2.0E-25	[22..122]	[1..91]
CX6A2_MOUSE - Cytochrome c oxidase subunit 6A2, mitochondrial OS=Mus musculus GN=Cox6a2 PE=1 SV=2	2.0E-25	[34..122]	[11..88]

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Predicted Domain #1

Region A:
Residues: [1-129]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFRQCAKRYA SSLPPNALKP AFGPPDKVAA QKFKESLMAT EKHAKDTSNM WVKISVWVAL  60
   61 PAIALTAVNT YFVEKEHAEH REHLKHVPDS EWPRDYEFMN IRSKPFFWGD GDKTLFWNPV 120
  121 VNRHIEHDD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	100.38764
Match:	1occG_
Description:	Mitochondrial cytochrome c oxidase subunit VIa
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
cytochrome-c oxidase activity	8.55593054200713	bayes_pls_golite062009
oxidoreductase activity, acting on heme group of donors	8.55593054200713	bayes_pls_golite062009
oxidoreductase activity, acting on heme group of donors, oxygen as acceptor	8.55593054200713	bayes_pls_golite062009
heme-copper terminal oxidase activity	8.33310447684473	bayes_pls_golite062009
oxidoreductase activity	4.93709142475202	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	3.42266067775966	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	3.27737232830687	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	2.64965096433631	bayes_pls_golite062009
cation transmembrane transporter activity	2.41719119401631	bayes_pls_golite062009
ion transmembrane transporter activity	2.22093703573522	bayes_pls_golite062009
catalytic activity	0.448769452796145	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: