YRC Public Data Repository - Protein Structure Prediction

Protein:	YDEH_ECOLI
Organism:	Escherichia coli
Length:	296 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 YDEH_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|83310313, gi\|... - gi\|83310313\|ref\|YP_420577.1\| signal transduction protein [Magnetospirillum magneticum AMB-1], gi\|829...	268.0	[0..1]	[295..309]
gi\|23011596 - gi\|23011596\|ref\|ZP_00051909.1\| COG2199: FOG: GGDEF domain [Magnetospirillum magnetotacticum MS-1]	260.0	[0..1]	[295..110]
gi\|150962859, gi... - gi\|94412913\|ref\|ZP_01292810.1\| hypothetical protein PaerP_01005272 [Pseudomonas aeruginosa PA7], gi\|...	258.0	[0..3]	[292..673]
gi\|9946445, gi\|1... - gi\|9946445\|gb\|AAG03964.1\|AE004493_9 conserved hypothetical protein [Pseudomonas aeruginosa PAO1], gi... gi\|11347679 - pir\|\|H83574 conserved hypothetical protein PA0575 [imported] - Pseudomonas aeruginosa (strain PAO1)	258.0	[0..2]	[292..672]
gi\|84318885, gi\|... - gi\|84318885\|ref\|ZP_00967302.1\| COG2202: FOG: PAS/PAC domain [Pseudomonas aeruginosa C3719], gi\|25423...	258.0	[0..2]	[292..672]
gi\|88858416, gi\|... - gi\|88858416\|ref\|ZP_01133058.1\| hypothetical protein PTD2_13539 [Pseudoalteromonas tunicata D2], gi\|8...	257.0	[0..1]	[296..275]
gi\|84324190, gi\|... - gi\|84324190\|ref\|ZP_00972253.1\| COG2202: FOG: PAS/PAC domain [Pseudomonas aeruginosa 2192], gi\|254243...	257.0	[0..2]	[292..669]
gi\|107099561 - gi\|107099561\|ref\|ZP_01363479.1\| hypothetical protein PaerPA_01000574 [Pseudomonas aeruginosa PACS2]	257.0	[0..2]	[292..672]
gi\|116054303, gi... - gi\|53727219\|ref\|ZP_00141032.2\| COG2202: FOG: PAS/PAC domain [Pseudomonas aeruginosa UCBPP-PA14], gi\|...	257.0	[0..2]	[292..672]

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Predicted Domain #1

Region A:
Residues: [1-296]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIKKTTEIDA ILLNLNKAID AHYQWLVSMF HSVVARDASK PEITDNHSYG LCQFGRWIDH  60
   61 LGPLDNDELP YVRLMDSAHQ HMHNCGRELM LAIVENHWQD AHFDAFQEGL LSFTAALTDY 120
  121 KIYLLTIRSN MDVLTGLPGR RVLDESFDHQ LRNAEPLNLY LMLLDIDRFK LVNDTYGHLI 180
  181 GDVVLRTLAT YLASWTRDYE TVYRYGGEEF IIIVKAANDE EACRAGVRIC QLVDNHAITH 240
  241 SEGHINITVT AGVSRAFPEE PLDVVIGRAD RAMYEGKQTG RNRCMFIDEQ NVINRV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	35.221849
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: