YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24376233, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	75 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|24376233, gi|....

Description	E-value	Query Range	Subject Range
gi\|25490641 - pir\|\|E84013 hypothetical protein BH2909 [imported] - Bacillus halodurans (strain C-125) gi\|10175531, gi\|... - gi\|15615472\|ref\|NP_243775.1\| hypothetical protein BH2909 [Bacillus halodurans C-125], gi\|10175531\|db...	87.0	[0..3]	[75..1]
gi\|227554043, gi... - gi\|227554043\|ref\|ZP_03984090.1\| transcriptional regulator [Enterococcus faecalis HH22], gi\|227176791... gi\|29344465, gi\|... - gi\|29376999\|ref\|NP_816153.1\| Cro/CI family transcriptional regulator [Enterococcus faecalis V583], g...	85.0	[0..6]	[74..1]
gi\|91191378, gi\|... - gi\|91223886\|ref\|ZP_01259150.1\| putative transcriptional regulator [Vibrio alginolyticus 12G01], gi\|9...	85.0	[0..9]	[75..3]
gi\|92114209, gi\|... - gi\|92114209\|ref\|YP_574137.1\| XRE family transcriptional regulator [Chromohalobacter salexigens DSM 3...	84.0	[0..11]	[75..5]
gi\|28806770 - gi\|28806770\|dbj\|BAC60041.1\| putative transcriptional regulator [Vibrio parahaemolyticus RIMD 2210633... gi\|28898552, gi\|... - gi\|28898552\|ref\|NP_798157.1\| DNA-binding transcriptional repressor PuuR [Vibrio parahaemolyticus RIM... gi\|153836272, gi... - gi\|153836272\|ref\|ZP_01988939.1\| HTH-type transcriptional regulator PuuR [Vibrio parahaemolyticus AQ3...	84.0	[0..9]	[75..3]
gi\|56419028, gi\|... - gi\|56419028\|ref\|YP_146346.1\| transcriptional regulator [Geobacillus kaustophilus HTA426], gi\|5637887...	83.0	[0..6]	[75..1]
gi\|25519852 - pir\|\|D97388 probable DNA-binding protein (AL138598) [imported] - Agrobacterium tumefaciens (strain C... gi\|15887595, gi\|... - gi\|15887595\|ref\|NP_353276.1\| hypothetical protein AGR_C_418 [Agrobacterium tumefaciens str. C58], gi...	83.0	[0..1]	[75..13]
gi\|86355908, gi\|... - gi\|86355908\|ref\|YP_467800.1\| LacI family transcription regulator [Rhizobium etli CFN 42], gi\|8628001...	83.0	[0..5]	[74..2]
gi\|78043201, gi\|... - gi\|78043201\|ref\|YP_360517.1\| putative prophage LambdaCh01, repressor protein [Carboxydothermus hydro...	82.0	[0..10]	[75..1]
gi\|206596074, gi... - gi\|207744667\|ref\|YP_002261059.1\| hypothetical protein RSIPO_02878 [Ralstonia solanacearum IPO1609], ... gi\|83746380, gi\|... - gi\|83746380\|ref\|ZP_00943432.1\| hypothetical protein RRSL_03974 [Ralstonia solanacearum UW551], gi\|83...	82.0	[0..8]	[74..16]

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Predicted Domain #1

Region A:
Residues: [1-75]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRKPSKKLLD NLANNVRTFR LKNGISQEQL AEICGFHRTY IGSIERGERN TTLSTLEVLA  60
   61 KTLNVSIAQL LNDDE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	13.221849
Match:	1y9qA
Description:	Crystal Structure of HTH_3 family Transcriptional Regulator from Vibrio cholerae
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA binding	3.85002031997592	bayes_pls_golite062009
nucleic acid binding	3.75841546996198	bayes_pls_golite062009
transcription regulator activity	3.48897156115814	bayes_pls_golite062009
transcription factor activity	2.36423264873787	bayes_pls_golite062009
binding	2.32539337034365	bayes_pls_golite062009
catalytic activity	0.374904657353081	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.29966985317584	bayes_pls_golite062009
sequence-specific DNA binding	0.20324889750334	bayes_pls_golite062009
transcription repressor activity	0.0485771867742395	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: