YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|38233589
Organism:	Corynebacterium diphtheriae NCTC 13129
Length:	239 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|38233589.

Description	E-value	Query Range	Subject Range
gi\|196253313, gi... - gi\|196253313\|ref\|ZP_03151946.1\| RNA polymerase, sigma-24 subunit, ECF subfamily [Clostridium thermoc... gi\|67849833, gi\|... - gi\|67916230\|ref\|ZP_00509948.1\| Sigma-70 region 2:Sigma-70 region 4 [Clostridium thermocellum ATCC 27...	159.0	[0..49]	[226..4]
gi\|221312309 - gi\|221312309\|ref\|ZP_03594114.1\| RNA polymerase sigma factor SigW [Bacillus subtilis subsp. subtilis ... gi\|221317242 - gi\|221317242\|ref\|ZP_03598536.1\| RNA polymerase sigma factor SigW [Bacillus subtilis subsp. subtilis ... gi\|221321505 - gi\|221321505\|ref\|ZP_03602799.1\| RNA polymerase sigma factor SigW [Bacillus subtilis subsp. subtilis ... SIGW_BACSU - RNA polymerase sigma factor sigW OS=Bacillus subtilis GN=sigW PE=2 SV=1 SIGW_BACSU - ECF RNA polymerase sigma factor SigW OS=Bacillus subtilis (strain 168) GN=sigW PE=1 SV=1	149.0	[0..54]	[223..9]
gi\|158140438, gi... - gi\|158320239\|ref\|YP_001512746.1\| ECF subfamily RNA polymerase sigma-24 factor [Alkaliphilus oremland...	148.0	[0..48]	[227..3]
gi\|11356111 - pir\|\|H82073 RNA polymerase sigma-E factor VC2467 [imported] - Vibrio cholerae (strain N16961 serogro... gi\|9657045, gi\|1... - gi\|9657045\|gb\|AAF95609.1\| RNA polymerase sigma-E factor [Vibrio cholerae O1 biovar El Tor str. N1696... gi\|121547169, gi... - gi\|121590992\|ref\|ZP_01678311.1\| RNA polymerase sigma-E factor [Vibrio cholerae 2740-80], gi\|12154716... gi\|116216118, gi... - gi\|75822887\|ref\|ZP_00752440.1\| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma... gi\|124115308, gi... - gi\|153214506\|ref\|ZP_01949415.1\| RNA polymerase sigma-E factor [Vibrio cholerae 1587], gi\|124115308\|g... gi\|121729904, gi... - gi\|75814520\|ref\|ZP_00745097.1\| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma... gi\|153222434, gi... - gi\|153222434\|ref\|ZP_01953168.1\| RNA polymerase sigma-E factor [Vibrio cholerae MAK 757], gi\|12411887... gi\|227082588, gi... - gi\|227082588\|ref\|YP_002811139.1\| RNA polymerase sigma-E factor [Vibrio cholerae M66-2], gi\|227010476... gi\|153820439, gi... - gi\|153820439\|ref\|ZP_01973106.1\| RNA polymerase sigma-E factor [Vibrio cholerae NCTC 8457], gi\|126509... gi\|254291667, gi... - gi\|254291667\|ref\|ZP_04962455.1\| RNA polymerase sigma-E factor [Vibrio cholerae AM-19226], gi\|1977510... gi\|126518781, gi... - gi\|153823693\|ref\|ZP_01976360.1\| RNA polymerase sigma-E factor [Vibrio cholerae B33], gi\|126518781\|gb... gi\|148873419, gi... - gi\|153831098\|ref\|ZP_01983765.1\| RNA polymerase sigma-E factor [Vibrio cholerae 623-39], gi\|148873419... gi\|254845297, gi... - gi\|75829328\|ref\|ZP_00758635.1\| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma... gi\|147675349, gi... - gi\|75827731\|ref\|ZP_00757166.1\| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma...	148.0	[0..44]	[222..1]
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...	147.0	[0..44]	[222..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...	147.0	[0..44]	[222..1]
gi\|150390876, gi... - gi\|77685958\|ref\|ZP_00801335.1\| Sigma-70 region 2:Sigma-70 region 4 [Alkaliphilus metalliredigenes QY...	146.0	[0..47]	[223..5]
gi\|89160528, gi\|... - gi\|89209876\|ref\|ZP_01188270.1\| Sigma-70 region 2:Sigma-70 region 4 [Halothermothrix orenii H 168], g...	146.0	[0..45]	[228..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]	146.0	[0..44]	[222..1]
gi\|224989625, gi... - gi\|224989625\|ref\|YP_002644312.1\| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172... gi\|219557111 - gi\|219557111\|ref\|ZP_03536187.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis T17] gi\|215445395 - gi\|215445395\|ref\|ZP_03432147.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis T85] gi\|215430099 - gi\|215430099\|ref\|ZP_03428018.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis EAS054] SIGE_MYCTU - ECF RNA polymerase sigma factor SigE OS=Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) GN=si... gi\|31792414, gi\|... - gi\|31792414\|ref\|NP_854907.1\| RNA polymerase sigma factor SigE [Mycobacterium bovis AF2122/97], gi\|31... gi\|121637150, gi... - gi\|121637150\|ref\|YP_977373.1\| RNA polymerase sigma factor SigE [Mycobacterium bovis BCG str. Pasteur... gi\|254550226 - gi\|254550226\|ref\|ZP_05140673.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis '98-R60... SIGE_MYCTO - ECF RNA polymerase sigma factor SigE OS=Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh) GN=si... gi\|253799735, gi... - gi\|253799735\|ref\|YP_003032736.1\| alternative RNA polymerase sigma factor sigE [Mycobacterium tubercu... gi\|124600542, gi... - gi\|254231483\|ref\|ZP_04924810.1\| alternative RNA polymerase sigma factor sigE [Mycobacterium tubercul... gi\|255096000 - gi\|255096000\|ref\|ZP_05325478.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis KZN 605... gi\|148720963, gi... - gi\|148822436\|ref\|YP_001287190.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis F11], ... gi\|254815022 - gi\|254815022\|ref\|ZP_05220023.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis KZN 420... SIGE_MYCTE - ECF RNA polymerase sigma factor SigE OS=Mycobacterium tuberculosis (strain ATCC 35801 / TMC 107 / Er... gi\|215426528 - gi\|215426528\|ref\|ZP_03424447.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis T92] gi\|215410852 - gi\|215410852\|ref\|ZP_03419660.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis 94_M424... gi\|215403058 - gi\|215403058\|ref\|ZP_03415239.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis 02_1987... gi\|254364121, gi... - gi\|254364121\|ref\|ZP_04980167.1\| alternative RNA polymerase sigma factor sigE [Mycobacterium tubercul... gi\|148661008, gi... - gi\|167967897\|ref\|ZP_02550174.1\| RNA polymerase sigma factor SigE [Mycobacterium tuberculosis H37Ra],... SIGE_MYCTU - ECF RNA polymerase sigma factor SigE OS=Mycobacterium tuberculosis GN=sigE PE=1 SV=1	145.0	[0..64]	[238..83]

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Predicted Domain #1

Region A:
Residues: [1-239]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRCQPFCRNL AGFPQNSPAQ STTMTYTHGS ALPSTDDVTI DADVATEELT GTAAFDAGVG  60
   61 DMPSWEELVA QHADSVYRLA FRLSGNQHDA EDLTQETFMR VFRSLKGYQP GTFEGWLHRI 120
  121 TTNLFLDMVR HRAKIRMEAL PEDYERVPGT DMTPEQAYNV SNLDPALQKA LDDLSPDFRV 180
  181 AVVLCDVVGM SYDEIADTLG VKMGTVRSRI HRGRSQLRAH LENQATSDEG AQLLLATGR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.522879
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: