YRC Public Data Repository - Protein Structure Prediction

Protein:	YCDC_ECOLI, RUTR...
Organism:	Escherichia coli
Length:	212 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 YCDC_ECOLI, RUTR....

Description	E-value	Query Range	Subject Range
gi\|94500677, gi\|... - gi\|94500677\|ref\|ZP_01307207.1\| transcriptional regulator, TetR family protein [Oceanobacter sp. RED6...	155.0	[0..9]	[209..3]
gi\|77380914, gi\|... - gi\|77456911\|ref\|YP_346416.1\| TetR family transcriptional regulator [Pseudomonas fluorescens Pf0-1], ...	152.0	[0..1]	[210..1]
gi\|70734232, gi\|... - gi\|70734232\|ref\|YP_257872.1\| TetR family transcriptional regulator [Pseudomonas fluorescens Pf-5], g...	149.0	[0..4]	[210..9]
gi\|104779931, gi... - gi\|95108918\|emb\|CAK13614.1\| putative transcriptional regulator, TetR/AcrR family [Pseudomonas entomo... gi\|95108918 - gi\|95108918\|emb\|CAK13614.1\| putative transcriptional regulator, TetR/AcrR family [Pseudomonas]	149.0	[0..4]	[210..9]
gi\|83643976, gi\|... - gi\|83643976\|ref\|YP_432411.1\| transcriptional regulator [Hahella chejuensis KCTC 2396], gi\|83632019\|g...	147.0	[0..12]	[212..11]
gi\|88773325, gi\|... - gi\|88795339\|ref\|ZP_01111037.1\| transcriptional regulator, TetR family protein [Alteromonas macleodii...	146.0	[0..5]	[211..16]
gi\|24981982, gi\|... - gi\|26987332\|ref\|NP_742757.1\| TetR family transcriptional regulator [Pseudomonas putida KT2440], gi\|2...	145.0	[0..6]	[210..38]
gi\|71736598, gi\|... - gi\|71736598\|ref\|YP_273319.1\| TetR family transcriptional regulator [Pseudomonas syringae pv. phaseol...	144.0	[0..3]	[212..67]
gi\|46188282, gi\|... - gi\|66044253\|ref\|YP_234094.1\| regulatory protein, TetR [Pseudomonas syringae pv. syringae B728a], gi\|...	144.0	[0..3]	[212..31]

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Predicted Domain #1

Region A:
Residues: [1-212]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTQGAVKTTG KRSRAVSAKK KAILSAALDT FSQFGFHGTR LEQIAELAGV SKTNLLYYFP  60
   61 SKEALYIAVL RQILDIWLAP LKAFREDFAP LAAIKEYIRL KLEVSRDYPQ ASRLFCMEML 120
  121 AGAPLLMDEL TGDLKALIDE KSALIAGWVK SGKLAPIDPQ HLIFMIWAST QHYADFAPQV 180
  181 EAVTGATLRD EVFFNQTVEN VQRIIIEGIR PR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	34.39794
Match:	1pb6A
Description:	Hypothetical transcriptional regulator YcdC
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.29755359385997	bayes_pls_golite062009
DNA binding	3.01268207226307	bayes_pls_golite062009
transcription factor activity	3.00408040212712	bayes_pls_golite062009
nucleic acid binding	2.9430921064275	bayes_pls_golite062009
binding	1.69234246404005	bayes_pls_golite062009
sequence-specific DNA binding	0.46503550280898	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.24108783215685	bayes_pls_golite062009
protein binding	0.111941607625758	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: