YRC Public Data Repository - Protein Structure Prediction

Protein:	YEAI_ECOLI
Organism:	Escherichia coli
Length:	491 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 YEAI_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|69949863, gi\|... - gi\|69949863\|ref\|ZP_00637827.1\| GGDEF [Shewanella frigidimarina NCIMB 400], gi\|69166487\|gb\|EAN75458.1...	258.0	[0..5]	[491..147]
gi\|77955162, gi\|... - gi\|77955162\|ref\|ZP_00819538.1\| GGDEF [Marinobacter aquaeolei VT8], gi\|77865944\|gb\|EAO97251.1\| GGDEF ...	253.0	[0..6]	[487..138]
gi\|73855381, gi\|... - gi\|74311904\|ref\|YP_310323.1\| hypothetical protein SSON_1377 [Shigella sonnei Ss046], gi\|73855381\|gb\|...	250.0	[0..1]	[491..1]
gi\|77811816, gi\|... - gi\|77813368\|ref\|ZP_00812646.1\| GGDEF [Shewanella putrefaciens CN-32], gi\|77811816\|gb\|EAO96186.1\| GGD...	249.0	[0..4]	[489..128]
gi\|187731228, gi... - gi\|187731228\|ref\|YP_001880574.1\| diguanylate cyclase (GGDEF) domain protein [Shigella boydii CDC 308... gi\|81245227, gi\|... - gi\|82543816\|ref\|YP_407763.1\| hypothetical protein SBO_1308 [Shigella boydii Sb227], gi\|81245227\|gb\|A...	249.0	[0..1]	[491..1]
gi\|120560554, gi... - gi\|82742417\|ref\|ZP_00905111.1\| GGDEF [Shewanella sp. W3-18-1], gi\|82720254\|gb\|EAP55126.1\| GGDEF [She... gi\|124507966, gi... - gi\|124549246\|ref\|ZP_01707576.1\| diguanylate cyclase [Shewanella putrefaciens 200], gi\|124507966\|gb\|E...	248.0	[0..4]	[489..128]
gi\|68542000, gi\|... - gi\|68542000\|ref\|ZP_00581738.1\| GGDEF [Shewanella baltica OS155], gi\|68520387\|gb\|EAN43895.1\| GGDEF [S...	247.0	[0..5]	[489..131]
gi\|89953179, gi\|... - gi\|90023579\|ref\|YP_529406.1\| response regulator receiver domain-containing protein [Saccharophagus d...	247.0	[0..5]	[489..115]
gi\|78687910, gi\|... - gi\|78687910\|ref\|ZP_00852643.1\| GGDEF [Shewanella sp. ANA-3], gi\|78504373\|gb\|EAP17933.1\| GGDEF [Shewa...	247.0	[0..6]	[489..131]
gi\|94501819, gi\|... - gi\|94501819\|ref\|ZP_01308331.1\| Response regulator containing a CheY-like receiver domain and a GGDEF...	246.0	[0..5]	[489..141]

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Predicted Domain #1

Region A:
Residues: [1-229]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIQSTRISMG LFFKYFLSLT KIDPGQNYIS LPSIKSSTHI ALLFMVSMGT QKLKAQSFFI  60
   61 FSLLLTLILF CITTLYNENT NVKLIPQMNY LMVVVALFFL NAVIFLFMLM KYFTNKQILP 120
  121 TLILSLAFLS GLIYLVETIV IIHKPINGST LIQTKSNDVS IFYIFRQLSF ICLTSLALFC 180
  181 YGKDNILDNN KKKTGILLLA LIPFLVFPLL AHNLSSYNAD YSLYVVDYC

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [230-491]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PDNHTATWGI NYTKILVCLW AFLLFFIIMR TRLASELWPL IALLCLASLC CNLLLLTLDE  60
   61 YNYTIWYISR GIEVSSKLFV VSFLIYNIFQ ELQLSSKLAV HDVLTNIYNR RYFFNSVESL 120
  121 LSRPVVKDFC VMLVDINQFK RINAQWGHRV GDKVLVSIVD IIQQSIRPDD ILARLEGEVF 180
  181 GLLFTELNSA QAKIIAERMR KNVELLTGFS NRYDVPEQMT ISIGTVFSTG DTRNISLVMT 240
  241 EADKALREAK SEGGNKVIIH HI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	41.69897
Match:	1w25A
Description:	Response regulator PleD in complex with c-diGMP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA binding	1.11037597107903	bayes_pls_golite062009
nucleic acid binding	0.93151849951839	bayes_pls_golite062009
signal transducer activity	0.85091435551594	bayes_pls_golite062009
molecular transducer activity	0.85091435551594	bayes_pls_golite062009
transcription factor activity	0.62886970109503	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: