YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39985153, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	146 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|39985153, gi|....

Description	E-value	Query Range	Subject Range
gi\|88916476, gi\|... - gi\|88936781\|ref\|ZP_01142380.1\| Single-strand binding protein [Geobacter uraniumreducens Rf4], gi\|889...	194.0	[0..1]	[146..1]
SSB_NITEU - Single-stranded DNA-binding protein OS=Nitrosomonas europaea GN=ssb PE=3 SV=1 SSB_NITEU - Single-stranded DNA-binding protein OS=Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298) GN=ssb...	192.0	[0..1]	[146..1]
gi\|82703345, gi\|... - gi\|82703345\|ref\|YP_412911.1\| single-strand binding protein [Nitrosospira multiformis ATCC 25196], gi...	191.0	[0..1]	[146..1]
gi\|213646761 - gi\|213646761\|ref\|ZP_03376814.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enteri... SSB2_SALTI - Single-stranded DNA-binding protein 2 OS=Salmonella typhi GN=ssb2 PE=3 SV=1 gi\|213609821 - gi\|213609821\|ref\|ZP_03369647.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enteri... gi\|213428139 - gi\|213428139\|ref\|ZP_03360889.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enteri... gi\|213161420 - gi\|213161420\|ref\|ZP_03347130.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enteri... gi\|32454454 - gi\|32454454\|gb\|AAP83026.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enterica se... SSB2_SALTI - Single-stranded DNA-binding protein 2 OS=Salmonella typhi GN=ssb2 PE=3 SV=1 gi\|224586099, gi... - gi\|224586099\|ref\|YP_002639898.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enter... gi\|29140135, gi\|... - gi\|29144497\|ref\|NP_807839.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enterica ... gi\|16763010 - gi\|16763010\|ref\|NP_458627.1\| single-strand DNA-binding protein [Salmonella enterica subsp. enterica ...	190.0	[0..1]	[146..1]
gi\|221566159, gi... - gi\|222056870\|ref\|YP_002539232.1\| single-strand binding protein [Geobacter sp. FRC-32], gi\|221566159\|...	189.0	[0..1]	[146..1]
gi\|170718024, gi... - gi\|32029356\|ref\|ZP_00132389.1\| COG0629: Single-stranded DNA-binding protein [Haemophilus somnus 2336...	189.0	[0..1]	[146..1]
gi\|88812721, gi\|... - gi\|88812721\|ref\|ZP_01127967.1\| Single-strand binding protein [Nitrococcus mobilis Nb-231], gi\|887899...	188.0	[0..1]	[146..1]
gi\|56477626, gi\|... - gi\|56477626\|ref\|YP_159215.1\| single-strand binding protein (SSB) (helix-destabilizing protein) [Arom...	188.0	[0..1]	[146..1]
gi\|77544340, gi\|... - gi\|77918257\|ref\|YP_356072.1\| ssDNA-binding protein [Pelobacter carbinolicus DSM 2380], gi\|77544340\|g...	187.0	[0..3]	[146..2]
gi\|167964627, gi... - gi\|170729834\|ref\|YP_001775267.1\| single-stranded DNA binding protein [Xylella fastidiosa M12], gi\|16... gi\|71164635, gi\|... - gi\|71274903\|ref\|ZP_00651191.1\| Single-strand binding protein [Xylella fastidiosa Dixon], gi\|71164635... gi\|71731377, gi\|... - gi\|71898791\|ref\|ZP_00680959.1\| Single-strand binding protein [Xylella fastidiosa Ann-1], gi\|71731377...	187.0	[0..1]	[146..25]

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Predicted Domain #1

Region A:
Residues: [1-146]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MASLNKVMLI GNLGKDPEVR YTPAGTAVAS FSLATTEKFK NRNGEFEEKT EWHNVVLWGR  60
   61 QAEIAGEYLA KGRTVFIEGR LQTRKWQDKD GRDRWTTEVV GERMQMLGGK GEGGGGRAGG 120
  121 RGGQESGFGG PSYDEPAFNP DDDIPF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.30103
Match:	1eqqA
Description:	SINGLE STRANDED DNA BINDING PROTEIN AND SSDNA COMPLEX
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	2.26271782657431	bayes_pls_golite062009
binding	2.01819468874386	bayes_pls_golite062009
DNA binding	1.81052012500635	bayes_pls_golite062009
single-stranded DNA binding	1.38758756313423	bayes_pls_golite062009
structure-specific DNA binding	1.30327082958682	bayes_pls_golite062009
transcription regulator activity	0.537716356194117	bayes_pls_golite062009
structural constituent of ribosome	0.0989196136046104	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: