YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|253988291, gi...
Organism:	Photorhabdus asymbiotica
Length:	151 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|253988291, gi....

Description	E-value	Query Range	Subject Range
gi\|167423764, gi... - gi\|167423764\|ref\|ZP_02315517.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Mediaeva... gi\|166214121, gi... - gi\|166214121\|ref\|ZP_02240156.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Antiqua ... gi\|167420477, gi... - gi\|167420477\|ref\|ZP_02312230.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Oriental... gi\|165925870, gi... - gi\|165925870\|ref\|ZP_02221702.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Oriental... gi\|22124704, gi\|... - gi\|22124704\|ref\|NP_668127.1\| dnaK suppressor protein [Yersinia pestis KIM], gi\|21957518\|gb\|AAM84378.... gi\|165991085, gi... - gi\|166010178\|ref\|ZP_02231076.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Antiqua ... gi\|45440147, gi\|... - gi\|45440147\|ref\|NP_991686.1\| DnaK suppressor protein homologue [Yersinia pestis biovar Microtus str.... gi\|162352709, gi... - gi\|162419894\|ref\|YP_001605566.1\| DnaK transcriptional regulator DksA [Yersinia pestis Angola], gi\|16...	185.0	[0..1]	[151..32]

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Predicted Domain #1

Region A:
Residues: [1-151]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQEGQKRKTS SLSILAIAGV EPYQEKPGEE YMNDAQLAHF KLILEAWRNQ LRDEVDRTVS  60
   61 HMQDEAANFP DPVDRAAQEE EFSLELRNRD RERKLIKKIE KTLKKVEDDD FGFCESCGIE 120
  121 IGIRRLEARP TADLCIDCKT LAEIREKQMA G

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.221849
Match:	1tjlA
Description:	Crystal structure of transcription factor DksA from E. coli
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	2.96944106977308	bayes_pls_golite062009
DNA binding	2.64662954118345	bayes_pls_golite062009
nucleic acid binding	2.60185057203337	bayes_pls_golite062009
binding	2.32420977112004	bayes_pls_golite062009
transcription factor activity	1.93863380769331	bayes_pls_golite062009
protein binding	1.39455913713025	bayes_pls_golite062009
sequence-specific DNA binding	0.71958532653437	bayes_pls_golite062009
transcription activator activity	0.715538962910453	bayes_pls_golite062009
ligand-dependent nuclear receptor activity	0.613774016982502	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.57454737035174	bayes_pls_golite062009
transcription factor binding	0.52161600305754	bayes_pls_golite062009
transition metal ion binding	0.300699898963653	bayes_pls_golite062009
catalytic activity	0.101795606736461	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: