YRC Public Data Repository - Protein Structure Prediction

Protein:	SCO2
Organism:	Saccharomyces cerevisiae
Length:	301 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 SCO2.

Description	E-value	Query Range	Subject Range
gi\|207347782 - gi\|207347782\|gb\|EDZ73851.1\| YBR024Wp-like protein [Saccharomyces cerevisiae AWRI1631] gi\|151946417 - gi\|151946417\|gb\|EDN64639.1\| suppressor of cytochrome oxidase deficiency [Saccharomyces cerevisiae YJ... SCO2 - Protein anchored to the mitochondrial inner membrane, similar to Sco1p and may have a redundant func... SCO2_YEAST - Protein SCO2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SCO2 PE=1 SV...	3.0E-75	[1..301]	[1..301]
SCO12_ARATH - Protein SCO1 homolog 2, mitochondrial OS=Arabidopsis thaliana GN=HCC2 PE=2 SV=1	4.0E-57	[10..281]	[4..273]
gi\|2352262 - gi\|2352262\|gb\|AAB68798.1\| peroxidoxin-1 [Dirofilaria immitis]	2.0E-54	[109..296]	[1..179]
PRDX_ASCSU - Peroxiredoxin OS=Ascaris suum PE=2 SV=1	2.0E-54	[113..295]	[1..174]
PRDX3_BOVIN - Thioredoxin-dependent peroxide reductase, mitochondrial OS=Bos taurus GN=PRDX3 PE=1 SV=2	3.0E-54	[55..295]	[17..234]
gi\|3193232 - gi\|3193232\|gb\|AAC77922.1\| peroxidoxin-2 [Onchocerca ochengi]	4.0E-54	[109..296]	[1..179]
gi\|14250063 - gi\|14250063\|gb\|AAH08435.1\| Peroxiredoxin 3 [Homo sapiens]	6.0E-54	[63..295]	[10..233]
gi\|3603241 - gi\|3603241\|gb\|AAC35744.1\| type II peroxiredoxin 1 [Mus musculus]	7.0E-54	[116..295]	[6..176]
gi\|632720 - gi\|632720\|gb\|AAB32034.1\| TSA=thiol-specific antioxidant [rats, brain, Peptide, 198 aa] PRDX2_RAT - Peroxiredoxin-2 OS=Rattus norvegicus GN=Prdx2 PE=1 SV=3	8.0E-54	[118..295]	[8..176]

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Predicted Domain #1

Region A:
Residues: [1-109]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLNSSRKYAC RSLFRQANVS IKGLFYNGGA YRRGFSTGCC LRSDNKESPS ARQPLDRLQL  60
   61 GDEINEPEPI RTRFFQFSRW KATIALLLLS GGTYAYLSRK RRLLETEKE

[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	SCOP Match	SCOP Description
View	Download	0.385	a.118.1	ARM repeat
View	Download	0.427	a.74.1	Cyclin-like
View	Download	0.342	a.7.8	GAT domain
View	Download	0.359	a.70.1	N-terminal domain of the delta subunit of the F1F0-ATP synthase
View	Download	0.339	f.1.5	Exotoxin A, middle domain
View	Download	0.338	a.100.1	6-phosphogluconate dehydrogenase C-terminal domain-like
View	Download	0.310	c.23.1	CheY-like
View	Download	0.303	a.26.1	4-helical cytokines
View	Download	0.267	b.111.1	Small protein B (SmpB)
View	Download	0.250	a.77.1	DEATH domain
View	Download	0.247	a.77.1	DEATH domain
View	Download	0.246	a.118.8	TPR-like
View	Download	0.234	a.3.1	Cytochrome c
View	Download	0.207	a.118.18	Cysteine rich protein B (HcpB)
View	Download	0.203	a.45.1	Glutathione S-transferase (GST), C-terminal domain

Predicted Domain #2

Region A:
Residues: [110-301]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ADANRAYGSV ALGGPFNLTD FNGKPFTEEN LKGKFSILYF GFSHCPDICP EELDRLTYWI  60
   61 SELDDKDHIK IQPLFISCDP ARDTPDVLKE YLSDFHPAII GLTGTYDQVK SVCKKYKVYF 120
  121 STPRDVKPNQ DYLVDHSIFF YLIDPEGQFI DALGRNYDEQ SGLEKIREQI QAYVPKEERE 180
  181 RRSKKWYSFI FN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.0
Match:	1qq2A_
Description:	Thioredoxin peroxidase 2 (thioredoxin peroxidase B, 2-cys peroxiredoxin)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
antioxidant activity	3.8464796631544	bayes_pls_golite062009
oxidoreductase activity, acting on peroxide as acceptor	3.44705858438242	bayes_pls_golite062009
peroxidase activity	3.44705858438242	bayes_pls_golite062009
oxidoreductase activity	2.31714727285588	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors	2.23310780102446	bayes_pls_golite062009
peroxiredoxin activity	2.12777217096121	bayes_pls_golite062009
glutathione peroxidase activity	2.012364779649	bayes_pls_golite062009
thioredoxin peroxidase activity	1.96134566495756	bayes_pls_golite062009
NADH dehydrogenase activity	1.58488640079086	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	1.42158072441985	bayes_pls_golite062009
disulfide oxidoreductase activity	1.32811008894503	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	1.29215364159258	bayes_pls_golite062009
glutathione transferase activity	1.17103672502279	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	0.98873267176254	bayes_pls_golite062009
copper ion binding	0.727599469956102	bayes_pls_golite062009
binding	0.680816432660797	bayes_pls_golite062009
catalytic activity	0.672192331361968	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	0.669808779454721	bayes_pls_golite062009
copper chaperone activity	0.442181439383149	bayes_pls_golite062009
protein binding	0.341730456502484	bayes_pls_golite062009
hydrolase activity	0.245867695453855	bayes_pls_golite062009
protein disulfide oxidoreductase activity	0.0719543694089202	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: