YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39995827, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	181 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|39995827, gi|....

Description	E-value	Query Range	Subject Range
gi\|89160528, gi\|... - gi\|89209876\|ref\|ZP_01188270.1\| Sigma-70 region 2:Sigma-70 region 4 [Halothermothrix orenii H 168], g...	152.0	[0..3]	[177..15]
gi\|69291471, gi\|... - gi\|69291471\|ref\|ZP_00619248.1\| Sigma-70 region 2:Sigma-70 region 4 [Kineococcus radiotolerans SRS302...	148.0	[0..9]	[181..54]
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	148.0	[0..2]	[177..74]
gi\|25323335, gi\|... - pir\|\|F87043 ECF subfamily sigma subunit [imported] - Mycobacterium leprae, gi\|13093076\|emb\|CAC31457.... gi\|15827526 - gi\|15827526\|ref\|NP_301789.1\| RNA polymerase sigma factor SigE [Mycobacterium leprae TN] gi\|221230003, gi... - gi\|221230003\|ref\|YP_002503419.1\| ECF subfamily sigma subunit [Mycobacterium leprae Br4923], gi\|21993...	146.0	[0..2]	[176..78]
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	146.0	[0..2]	[178..13]
gi\|54026703, gi\|... - gi\|54026703\|ref\|YP_120945.1\| RNA polymerase sigma factor SigE [Nocardia farcinica IFM 10152], gi\|540...	145.0	[0..2]	[180..73]
gi\|2062634 - gi\|2062634\|gb\|AAC45219.1\| extracytoplasmic function alternative sigma factor [Mycobacterium avium] gi\|41408655, gi\|... - gi\|41408655\|ref\|NP_961491.1\| RNA polymerase sigma factor SigE [Mycobacterium avium subsp. paratuberc...	145.0	[0..2]	[177..71]
gi\|108800958, gi... - gi\|108800958\|ref\|YP_641155.1\| RNA polymerase sigma factor SigE [Mycobacterium sp. MCS], gi\|108771377... gi\|92917056, gi\|... - gi\|92917056\|ref\|ZP_01285672.1\| Sigma-70 region 2:Sigma-70 region 4 [Mycobacterium sp. KMS], gi\|92438...	145.0	[0..8]	[181..92]
gi\|90202324, gi\|... - gi\|90202324\|ref\|ZP_01204970.1\| Sigma-70 region 2:Sigma-70 region 4 [Mycobacterium vanbaalenii PYR-1]...	144.0	[0..2]	[178..303]
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...	144.0	[0..2]	[179..13]

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Predicted Domain #1

Region A:
Residues: [1-181]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTLDTTDELN RFLAGVERRA FRMARLATSD DDEALDVVQD AMLGFVRNYA RKPEAEWPPL  60
   61 FHRTLQSRIV DWHRRSTLRN RFRAWFGKND DEDGGDPLDG IPDVNSPDPA RQLLDRDLGQ 120
  121 AIEAALRKLP TRQRQAFLLR NWEGLDTSET AFAMGCSEGS VKTHLSRAVH ALRGMLEEYG 180
  181 P

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	30.69897
Match:	1or7A
Description:	SigmaE factor (RpoE)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription initiation factor activity	5.78609205758337	bayes_pls_golite062009
sigma factor activity	5.64833683794078	bayes_pls_golite062009
transcription regulator activity	3.74356768143558	bayes_pls_golite062009
binding	1.07192234179226	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: