YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|153820439, gi...
Organism:	Vibrio cholerae NCTC 8457
Length:	190 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|153820439, gi....

Description	E-value	Query Range	Subject Range
gi\|27364928, gi\|... - gi\|27364928\|ref\|NP_760456.1\| RNA polymerase sigma factor RpoE [Vibrio vulnificus CMCP6], gi\|27361074... gi\|37681022, gi\|... - gi\|37681022\|ref\|NP_935631.1\| RNA polymerase sigma factor RpoE [Vibrio vulnificus YJ016], gi\|37199772...	156.0	[0..1]	[190..1]
gi\|86146365, gi\|... - gi\|86146365\|ref\|ZP_01064689.1\| RNA polymerase sigma-70 factor [Vibrio sp. MED222], gi\|85835844\|gb\|EA... gi\|84390098, gi\|... - gi\|84390098\|ref\|ZP_00991360.1\| RNA polymerase sigma-70 factor [Vibrio splendidus 12B01], gi\|84376752...	156.0	[0..1]	[190..1]
gi\|153840480, gi... - gi\|153840480\|ref\|ZP_01993147.1\| RNA polymerase sigma factor RpoE [Vibrio parahaemolyticus AQ3810], g... gi\|28899352, gi\|... - gi\|28899352\|ref\|NP_798957.1\| RNA polymerase sigma factor RpoE [Vibrio parahaemolyticus RIMD 2210633]... gi\|28807588 - gi\|28807588\|dbj\|BAC60841.1\| RNA polymerase sigma-E factor [Vibrio parahaemolyticus RIMD 2210633]	155.0	[0..1]	[190..1]
gi\|91227859, gi\|... - gi\|91227859\|ref\|ZP_01262032.1\| RNA polymerase sigma-70 factor [Vibrio alginolyticus 12G01], gi\|91188... gi\|116183469, gi... - gi\|75854013\|ref\|ZP_00761739.1\| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma...	154.0	[0..1]	[190..1]
gi\|76589515, gi\|... - gi\|76795206\|ref\|ZP_00777628.1\| Sigma-70 region 2:Sigma-70 region 4 [Pseudoalteromonas atlantica T6c]...	153.0	[0..1]	[190..1]
gi\|75237408, gi\|... - gi\|75237408\|ref\|ZP_00721443.1\| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma...	152.0	[0..1]	[190..1]
gi\|76874588, gi\|... - gi\|77359677\|ref\|YP_339252.1\| RNA polymerase sigma factor RpoE [Pseudoalteromonas haloplanktis TAC125...	151.0	[0..1]	[190..1]
gi\|90438621, gi\|... - gi\|90580319\|ref\|ZP_01236126.1\| RNA polymerase sigma-70 factor [Vibrio angustum S14], gi\|90438621\|gb\|... gi\|89075094, gi\|... - gi\|89075094\|ref\|ZP_01161535.1\| RNA polymerase sigma-70 factor [Photobacterium sp. SKA34], gi\|8904918...	150.0	[0..1]	[190..1]
gi\|88819827, gi\|... - gi\|88858210\|ref\|ZP_01132852.1\| sigma E (sigma 24) factor of RNA polymerase [Pseudoalteromonas tunica...	149.0	[0..1]	[190..1]
gi\|30749943, gi\|... - gi\|30749945\|pdb\|1OR7\|B Chain B, Crystal Structure Of Escherichia Coli Sigmae With The Cytoplasmic Do...	149.0	[0..1]	[190..4]

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Predicted Domain #1

Region A:
Residues: [1-190]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNEQLTDQVL IERVQNGDKQ AFNLLVLRYQ NKVCNLISRY VSNSGDVADV AQEAFIKAYR  60
   61 AIPTFRGESA FYTWLYRIAV NTAKNHIVAQ SRRPPASDVD AEEAEFYEGG DALKELSNPE 120
  121 NITLSKELKK TVFDAIDALP DDLKTAMTLR ELDGLSYEEI AEVMDCPVGT VRSRIFRARE 180
  181 AVEKKIKPLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	36.221849
Match:	1or7A
Description:	SigmaE factor (RpoE)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription initiation factor activity	5.71806750193815	bayes_pls_golite062009
sigma factor activity	5.58029806879061	bayes_pls_golite062009
transcription regulator activity	3.67872017549582	bayes_pls_golite062009
binding	1.02634976114785	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: