YRC Public Data Repository - Protein Structure Prediction

Protein:	COX10
Organism:	Saccharomyces cerevisiae
Length:	462 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 COX10.

Description	E-value	Query Range	Subject Range
COX10_YEAST - Protoheme IX farnesyltransferase, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S2... COX10 - Heme A:farnesyltransferase, catalyzes the first step in the conversion of protoheme to the heme A pr... gi\|207340665 - gi\|207340665\|gb\|EDZ68947.1\| YPL172Cp-like protein [Saccharomyces cerevisiae AWRI1631]	0.0	[1..462]	[1..462]
COX10 - COX10 homolog, cytochrome c oxidase assembly protein, heme A: farnesyltransferase (yeast) gi\|60656253, gi\|... - gi\|60656255\|gb\|AAX32691.1\| COX10-like [synthetic construct], gi\|60656253\|gb\|AAX32690.1\| COX10-like [...	4.0E-65	[1..405]	[29..413]
gi\|60653195, gi\|... - gi\|60653197\|gb\|AAX29293.1\| cytochrome c oxidase assembly protein [synthetic construct], gi\|60653195\|...	5.0E-65	[1..405]	[29..413]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	1.0E-64	[1..405]	[29..413]
Coq2-PA - The gene Coenzyme Q biosynthesis protein 2 is referred to in FlyBase by the symbol Dmel\Coq2 (CG9613... gi\|220949886 - gi\|220949886\|gb\|ACL87486.1\| Coq2-PA [synthetic construct]	1.0E-54	[85..424]	[3..359]
UBIA_VIBPA - 4-hydroxybenzoate octaprenyltransferase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 22106... UBIA_VIBPA - 4-hydroxybenzoate octaprenyltransferase OS=Vibrio parahaemolyticus GN=ubiA PE=3 SV=1 gi\|153839844, gi... - gi\|153839844\|ref\|ZP_01992511.1\| 4-hydroxybenzoate polyprenyl transferase [Vibrio parahaemolyticus AQ...	7.0E-53	[141..423]	[1..284]
gi\|7480566 - pir\|\|T36006 probable cytochrome oxidase assembly factor - Streptomyces coelicolor gi\|5459401, gi\|2... - gi\|5459401\|emb\|CAB50759.1\| putative cytochrome oxidase assembly factor [Streptomyces coelicolor A3(2...	4.0E-52	[122..444]	[27..338]

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Predicted Domain #1

Region A:
Residues: [1-83]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSYFPRTYAH LMRNVLAHNK GNIYLQIGTQ LHDTQIKIRF NGVRYISRNH GGKQQHINTA  60
   61 PIEFTPNFGY GDRTSNCNKK VES

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.465	0.011	protein complex assembly	b.38.1	Sm-like ribonucleoproteins
View	Download	0.566	0.007	protein complex assembly	b.34.5	Translation proteins SH3-like domain
View	Download	0.553	0.006	protein complex assembly	d.129.1	TATA-box binding protein-like
View	Download	0.549	0.001	protein complex assembly	b.114.1	N-utilization substance G protein NusG, insert domain
View	Download	0.407	N/A	N/A	d.52.5	Probable GTPase Der, C-terminal domain
View	Download	0.358	N/A	N/A	d.93.1	SH2 domain
View	Download	0.355	N/A	N/A	d.93.1	SH2 domain
View	Download	0.338	N/A	N/A	d.93.1	SH2 domain
View	Download	0.323	N/A	N/A	d.93.1	SH2 domain
View	Download	0.312	N/A	N/A	b.44.1	EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain
View	Download	0.310	N/A	N/A	b.7.2	Periplasmic chaperone C-domain
View	Download	0.301	N/A	N/A	a.64.1	Saposin
View	Download	0.286	N/A	N/A	b.34.5	Translation proteins SH3-like domain
View	Download	0.275	N/A	N/A	d.93.1	SH2 domain
View	Download	0.259	N/A	N/A	d.93.1	SH2 domain
View	Download	0.258	N/A	N/A	d.129.1	TATA-box binding protein-like
View	Download	0.249	N/A	N/A	b.38.2	YhbC-like, C-terminal domain
View	Download	0.245	N/A	N/A	b.84.2	Rudiment single hybrid motif
View	Download	0.243	N/A	N/A	d.68.5	C-terminal domain of ProRS
View	Download	0.241	N/A	N/A	d.110.4	SNARE-like
View	Download	0.237	N/A	N/A	d.18.1	ssDNA-binding transcriptional regulator domain
View	Download	0.224	N/A	N/A	b.61.2	Metalloprotease inhibitor
View	Download	0.221	N/A	N/A	b.101.1	Ribonuclease domain of colicin E3
View	Download	0.213	N/A	N/A	b.1.2	Fibronectin type III
View	Download	0.211	N/A	N/A	d.202.1	Transcription factor NusA, N-terminal domain
View	Download	0.211	N/A	N/A	d.217.1	SAND domain-like
View	Download	0.209	N/A	N/A	d.58.44	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View	Download	0.203	N/A	N/A	g.41.5	Rubredoxin-like

Predicted Domain #2

Region A:
Residues: [84-154]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TAMKTLRCTD DISTSSGSEA TTDASTQLPF NVKLVDPMVR KSKRPSHAIS EGLNMKTLKK  60
   61 KVIMPYLQLT K

[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.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.298	0.849	mitochondrial inner membrane	a.3.1	Cytochrome c
View	Download	0.539	0.849	mitochondrial inner membrane	a.159.1	Protein serine/threonine phosphatase 2C, C-terminal domain
View	Download	0.328	0.849	mitochondrial inner membrane	a.58.1	Chemotaxis receptor methyltransferase CheR, N-terminal domain
View	Download	0.337	0.849	mitochondrial inner membrane	a.159.2	FF domain
View	Download	0.273	0.849	mitochondrial inner membrane	a.4.1	Homeodomain-like
View	Download	0.273	0.849	mitochondrial inner membrane	a.144.1	PABC (PABP) domain
View	Download	0.269	0.849	mitochondrial inner membrane	d.201.1	SRP19
View	Download	0.252	0.849	mitochondrial inner membrane	a.3.1	Cytochrome c
View	Download	0.243	0.849	mitochondrial inner membrane	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.232	0.849	mitochondrial inner membrane	a.5.2	UBA-like
View	Download	0.230	0.849	mitochondrial inner membrane	a.156.1	S13-like H2TH domain
View	Download	0.213	0.849	mitochondrial inner membrane	a.6.1	Putative DNA-binding domain
View	Download	0.206	0.849	mitochondrial inner membrane	a.65.1	Annexin
View	Download	0.201	0.849	mitochondrial inner membrane	a.118.1	ARM repeat

Predicted Domain #3

Region A:
Residues: [155-462]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PRLTILVMLS AICSYALSPY PASVNELLCL TVGTTLCSGS ANAINMGREP EFDRQMVRTQ  60
   61 ARPVVRGDVT PTQAFEFAAL IGTLGVSILY FGVNPTVAIL GASNIALYGW AYTSMKRKHI 120
  121 INTWLGALVG MVPPLMGWAA ASPLSHPGSW CLAGLLFAWQ FPHFNTLSHN IRNEYKNAGY 180
  181 VMTAWKNPLL NARVSLRYSI LMFPLCFGLS YFNITDWYYQ IDSGLINAWL TFWAFKFYWQ 240
  241 QRINYSAKTL KDNVKFNKGL SVANIYARKT FMASVLHLPA ILILAIIHKK GRWDWIYPGE 300
  301 AKRPQERF

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	71.568636
Match:	PF01040
Description:	UbiA prenyltransferase family

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

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