YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24371995, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	243 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 gi|24371995, gi|....

Description	E-value	Query Range	Subject Range
gi\|47222756 - gi\|47222756\|emb\|CAG01723.1\| unnamed protein product [Tetraodon nigroviridis]	218.0	[0..3]	[239..36]
gi\|25284631 - pir\|\|D87686 succinate dehydrogenase, iron-sulfur protein [imported] - Caulobacter crescentus gi\|16127756, gi\|... - gi\|16127756\|ref\|NP_422320.1\| succinate dehydrogenase iron-sulfur subunit [Caulobacter crescentus CB1... gi\|220965750, gi... - gi\|221236577\|ref\|YP_002519014.1\| succinate dehydrogenase iron-sulfur protein [Caulobacter crescentus...	216.0	[0..3]	[241..24]
gi\|91090386 - gi\|91090386\|ref\|XP_969572.1\| PREDICTED: similar to AGAP007309-PA [Tribolium castaneum]	216.0	[0..5]	[238..32]
gi\|114554304, gi... - gi\|114554304\|ref\|XP_001155457.1\| PREDICTED: succinate dehydrogenase complex, subunit B, iron sulfur ... SDHB - succinate dehydrogenase complex, subunit B, iron sulfur (Ip)	213.0	[0..2]	[239..35]
SdhB-PA - The gene Succinate dehydrogenase B is referred to in FlyBase by the symbol Dmel\SdhB (CG3283, FBgn00... gi\|195581026, gi... - gi\|195581026\|ref\|XP_002080335.1\| GD10425 [Drosophila simulans], gi\|194192344\|gb\|EDX05920.1\| GD10425 ... gi\|220943896, gi... - gi\|220953770\|gb\|ACL89428.1\| SdhB-PA [synthetic construct], gi\|220943896\|gb\|ACL84491.1\| SdhB-PA [synt...	213.0	[0..3]	[238..43]
gi\|67043769 - gi\|67043769\|gb\|AAY63983.1\| succinate dehydrogenase iron sulfur subunit B [Lysiphlebus testaceipes]	213.0	[0..2]	[238..26]
SDHB_XENLA - Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial OS=Xenopus laevis GN=sdhb PE...	213.0	[0..5]	[240..40]
gi\|54635329, gi\|... - gi\|54635329\|gb\|EAL24732.1\| GA17170 [Drosophila pseudoobscura pseudoobscura], gi\|125806762\|ref\|XP_001... gi\|54635329\|gb\|E... - GA17170-PA [Drosophila pseudoobscura], GA17170 [Drosophila pseudoobscura pseudoobscura] gi\|194109372, gi... - gi\|195149159\|ref\|XP_002015525.1\| GL11120 [Drosophila persimilis], gi\|194109372\|gb\|EDW31415.1\| GL1112...	213.0	[0..3]	[239..43]

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Predicted Domain #1

Region A:
Residues: [1-243]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSQGRQLTFN IFRYDPQEPN DKPKMVRYQL TETPGMTVFI ALNKLREEQD TSLQFDFVCR  60
   61 AGICGSCAMV INGFPTLACR TLTAKYPKGE ITLMPLPGFE LIGDLSVNTG KFMRELAERL 120
  121 KLWLHPKAND ISIHRLEEPM APEEAARLYE LERCVECGVC VSACATKQMR ETFVGAVGMM 180
  181 KIARFELDSR DARTAEDFYH VIGNQDGVFG CMTLLGCQDN CPKDLPHMQQ IAYLRRKMAM 240
  241 TLV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.39794
Match:	1e7pB
Description:	Fumarate reductase; Fumarate reductase iron-sulfur protein, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
succinate dehydrogenase (ubiquinone) activity	8.67170708058767	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor	8.67170708058767	bayes_pls_golite062009
electron carrier activity	5.46307392364196	bayes_pls_golite062009
succinate dehydrogenase activity	5.17247395944711	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	4.95798078106244	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors	4.38887210619429	bayes_pls_golite062009
oxidoreductase activity	4.24568355093737	bayes_pls_golite062009
NADH dehydrogenase activity	4.24327638063454	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	4.15859537745252	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	3.78210410787032	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	3.67682177056786	bayes_pls_golite062009
iron-sulfur cluster binding	3.28424324316751	bayes_pls_golite062009
metal cluster binding	3.28424324316751	bayes_pls_golite062009
binding	1.29066915338738	bayes_pls_golite062009
protein binding	0.507343948317508	bayes_pls_golite062009
catalytic activity	0.105119876745552	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: