YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|254852080
Organism:	Listeria monocytogenes FSL R2-503
Length:	374 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|254852080.

Description	E-value	Query Range	Subject Range
gi\|217964400, gi... - gi\|217964400\|ref\|YP_002350078.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Listeria mon... gi\|116872885, gi... - gi\|116872885\|ref\|YP_849666.1\| RNA polymerase sigma factor RpoD [Listeria welshimeri serovar 6b str. ... RPOD_LISIN - RNA polymerase sigma factor rpoD OS=Listeria innocua GN=rpoD PE=3 SV=1 gi\|254873717 - gi\|254873717\|ref\|ZP_05246427.1\| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N1-017] SIGA_LISIN - RNA polymerase sigma factor SigA OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=sigA PE=3 SV=...	317.0	[0..1]	[374..1]
gi\|89084822, gi\|... - gi\|89100479\|ref\|ZP_01173341.1\| RNA polymerase sigma factor [Bacillus sp. NRRL B-14911], gi\|89084822\|...	302.0	[0..1]	[374..1]
RPOD_BACHD - RNA polymerase sigma factor rpoD OS=Bacillus halodurans GN=sigA PE=3 SV=2 SIGA_BACHD - RNA polymerase sigma factor SigA OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344...	298.0	[0..1]	[374..1]
gi\|56963455, gi\|... - gi\|56963455\|ref\|YP_175186.1\| RNA polymerase sigma factor RpoD [Bacillus clausii KSM-K16], gi\|5690969...	298.0	[0..1]	[374..1]
gi\|56421017, gi\|... - gi\|56421017\|ref\|YP_148335.1\| RNA polymerase sigma factor RpoD [Geobacillus kaustophilus HTA426], gi\|... gi\|220706653, gi... - gi\|221089364\|ref\|ZP_03558883.1\| RNA polymerase, sigma 70 subunit, RpoD family [Geobacillus sp. Y412M...	298.0	[0..1]	[374..1]
gi\|3062909 - gi\|3062909\|dbj\|BAA25730.1\| SigA [Bacillus sp.]	297.0	[0..1]	[374..1]
gi\|227894905, gi... - gi\|227894905\|ref\|ZP_04012710.1\| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp. pla... gi\|28271441, gi\|... - gi\|28378605\|ref\|NP_785497.1\| RNA polymerase sigma factor RpoD [Lactobacillus plantarum WCFS1], gi\|28...	295.0	[0..9]	[374..3]
gi\|125973412, gi... - gi\|67916227\|ref\|ZP_00509945.1\| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 regi...	294.0	[0..17]	[374..8]
gi\|70726356, gi\|... - gi\|70726356\|ref\|YP_253270.1\| RNA polymerase sigma factor RpoD [Staphylococcus haemolyticus JCSC1435]...	293.0	[0..1]	[374..1]
gi\|30022370, gi\|... - gi\|30022370\|ref\|NP_834001.1\| RNA polymerase sigma factor RpoD [Bacillus cereus ATCC 14579], gi\|29897... gi\|218160218, gi... - gi\|218232261\|ref\|YP_002369099.1\| RNA polymerase sigma-43 factor [Bacillus cereus B4264], gi\|21816021... gi\|228631100, gi... - gi\|229152492\|ref\|ZP_04280684.1\| RNA polymerase sigma factor [Bacillus cereus m1550], gi\|228631100\|gb... gi\|228960557, gi... - gi\|228960557\|ref\|ZP_04122206.1\| RNA polymerase sigma factor [Bacillus thuringiensis serovar pakistan... gi\|228923044, gi... - gi\|228923044\|ref\|ZP_04086337.1\| RNA polymerase sigma factor [Bacillus thuringiensis serovar huazhong... gi\|229146877, gi... - gi\|229146877\|ref\|ZP_04275242.1\| RNA polymerase sigma factor [Bacillus cereus BDRD-ST24], gi\|22863670... gi\|229129569, gi... - gi\|229129569\|ref\|ZP_04258539.1\| RNA polymerase sigma factor [Bacillus cereus BDRD-Cer4], gi\|22865388... gi\|229111765, gi... - gi\|229111765\|ref\|ZP_04241313.1\| RNA polymerase sigma factor [Bacillus cereus Rock1-15], gi\|228671759... gi\|228723468, gi... - gi\|229048011\|ref\|ZP_04193587.1\| RNA polymerase sigma factor [Bacillus cereus AH676], gi\|228723468\|gb...	293.0	[0..1]	[374..1]

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Predicted Domain #1

Region A:
Residues: [1-374]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDKTKNTKP VAELSVEQVK EALIEEGKKK GILTYAKIAA RLAPFTLDSD QMDEYLEHVG  60
   61 EAGIEVSDDA DDEDPDETEL VKEETESFDL TDMSVPPGVK INDPVRMYLK EIGRVDLLTA 120
  121 DEEIALAKRI EAGDIEAKGR LAEANLRLVV SIAKRYVGRG MLFLDLIQEG NMGLMKAVEK 180
  181 FDFNKGFKFS TYATWWIRQA ITRAIADQAR TIRIPVHMVE TINKLIRVQR SLLQDLGRDP 240
  241 SPEEIGEEMD LPTEKVREIL KIAQEPVSLE TPIGEEDDSH LGDFIEDQDA TSPSDHAAYE 300
  301 LLKEQLEDVL DTLTDREENV LRLRFGLDDG RTRTLEEVGR VFGVTRERIR QIEAKALRKL 360
  361 RHPSRSKQLK DFLE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	59.0
Match:	1iw7F
Description:	Sigma70
Matching Structure (courtesy of the PDB):

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