YRC Public Data Repository - Protein Structure Prediction

Protein:	CIR2
Organism:	Saccharomyces cerevisiae
Length:	631 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 CIR2.

Description	E-value	Query Range	Subject Range
CIR2 - Mitochondrial protein with similarity to flavoprotein-type oxidoreductases; found in a large supramo... gi\|151945433 - gi\|151945433\|gb\|EDN63676.1\| conserved protein [Saccharomyces cerevisiae YJM789] gi\|190407649 - gi\|190407649\|gb\|EDV10916.1\| hypothetical protein SCRG_01731 [Saccharomyces cerevisiae RM11-1a] ETFD_YEAST - Probable electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial OS=Saccharomyces ce...	0.0	[1..631]	[1..631]
ETFD_RAT - Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial OS=Rattus norvegicus GN=Etfd...	0.0	[17..628]	[28..613]
ETFD_MOUSE - Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial OS=Mus musculus GN=Etfdh PE=...	0.0	[17..628]	[28..613]
ETFD_PIG - Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial (Fragment) OS=Sus scrofa GN=...	0.0	[17..628]	[19..604]
ETFDH - electron-transferring-flavoprotein dehydrogenase	0.0	[17..628]	[29..614]
gi\|26990895, gi\|... - gi\|26990895\|ref\|NP_746320.1\| electron-transferring-flavoprotein dehydrogenase [Pseudomonas putida KT...	0.0	[57..628]	[8..557]
gi\|11353897 - pir\|\|G81920 probable electron transfer flavoprotein-ubiquinone oxidoreductase NMA0766 [imported] - N... gi\|15793741, gi\|... - gi\|7379487\|emb\|CAB84049.1\| putative electron transfer flavoprotein-ubiquinone oxidoreductase [Neisse...	0.0	[45..628]	[25..582]
ETFD_ACIAD - Probable electron transfer flavoprotein-ubiquinone oxidoreductase OS=Acinetobacter baylyi (strain AT...	0.0	[53..628]	[1..567]

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Predicted Domain #1

Region A:
Residues: [1-138]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIKFTNENLI RGIRMTISAK SRHLALGTDM TRKFSLSCRF LNKANLTEEE KELLNEPRAR  60
   61 DYVDVCIVGG GPAGLATAIK LKQLDNSSGT GQLRVVVLEK SSVLGGQTVS GAILEPGVWK 120
  121 ELFPDEKSDI GIPLPKEL

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [175-264]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LNQVVGYLGE KAEEVGVEVY PGIAVSDLIY DENNAVKGVI TKDAGISKSG KPKETFERGM  60
   61 EFWARQTVLA EGCHGSLTKQ ALAKYDLRKG

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [369-438]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QSVPKLNFPG GVLVGASAGF MNVPKIKGTH TAMKSGLLAA ESIFESIKGL PVLEEVEDED  60
   61 AKMAMFDKEA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	39.69897
Match:	1cc4A_
Description:	p-Hydroxybenzoate hydroxylase, PHBH; p-Hydroxybenzoate hydroxylase (PHBH)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
NADH dehydrogenase activity	6.5929955386305	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	6.45562261241375	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	6.34963309803617	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	5.69483449389334	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	4.45434904225178	bayes_pls_golite062009
oxidoreductase activity	3.38767199872766	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	3.11137503143637	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	3.04960158864768	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	2.87261684242536	bayes_pls_golite062009
formate dehydrogenase activity	2.79579164562277	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors, quinone or similar compound as acceptor	2.25002926602325	bayes_pls_golite062009
electron-transferring-flavoprotein dehydrogenase activity	1.55451764082771	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor	1.45104542724719	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors	1.35744482443829	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors	1.31328088143083	bayes_pls_golite062009
transporter activity	1.29839290134235	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor	1.08975609376408	bayes_pls_golite062009
binding	1.08897727611544	bayes_pls_golite062009
transmembrane transporter activity	1.07862908893913	bayes_pls_golite062009
catalytic activity	1.03127962968326	bayes_pls_golite062009
dihydrolipoyl dehydrogenase activity	0.69501605197281	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors	0.643810447309487	bayes_pls_golite062009
substrate-specific transporter activity	0.556967966402473	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.31459693204333	bayes_pls_golite062009
active transmembrane transporter activity	0.301257942260531	bayes_pls_golite062009
protein binding	0.247306689726508	bayes_pls_golite062009
nucleic acid binding	0.162130833238942	bayes_pls_golite062009
NADPH-adrenodoxin reductase activity	0.10059033442163	bayes_pls_golite062009
primary active transmembrane transporter activity	0.0724852054074128	bayes_pls_golite062009
DNA binding	0.022476246602636	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [139-174]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ATLVTKEHLK FLKGKWAISV PEPSQMINKG RNYIVS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [265-368]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RQHQTYGLGI KEVWEVKPEN FNKGFAAHTM GYPLTNDVYG GGFQYHFGDG LVTVGLVVGL  60
   61 DYKNPYVSPY KEFQKMKHHP YYSKVLEGGK CIAYAARALN EGGL

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [439-499]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TINLESYESA FKESSIYKEL YEVRNIRPSF SGKLGGYGGM IYSGIDSLIL KGKVPWTLKF  60
   61 D

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	39.69897
Match:	1cc4A_
Description:	p-Hydroxybenzoate hydroxylase, PHBH; p-Hydroxybenzoate hydroxylase (PHBH)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [500-631]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EKNDGEILEP ASKYKPIEYP KPDGVISFDI LTSVSRTGTY HDDDEPCHLR VPGQDMVKYA  60
   61 ERSFPVWKGV ESRFCPAGVY EFVKDEKSPV GTRLQINSQN CIHCKTCDIK APRQDITWKV 120
  121 PEGGDGPKYT LT

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.813	N/A	N/A	d.24.1	Pili subunits

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: