YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|30253605, gi\|...
Organism:	Bacillus anthracis str. Ames
Length:	218 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|30253605, gi|....

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...	5.0E-32	[17..214]	[4..190]
gi\|89079310, gi\|... - gi\|89090874\|ref\|ZP_01163909.1\| Sigma-70 factor [Lactobacillus reuteri JCM 1112], gi\|89079310\|gb\|EAR5... gi\|227364887, gi... - gi\|227364887\|ref\|ZP_03848933.1\| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuter... gi\|227531077, gi... - gi\|227531077\|ref\|ZP_03961126.1\| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuter...	6.0E-32	[13..206]	[124..367]
gi\|89160528, gi\|... - gi\|89209876\|ref\|ZP_01188270.1\| Sigma-70 region 2:Sigma-70 region 4 [Halothermothrix orenii H 168], g...	7.0E-32	[13..214]	[1..191]
gi\|109644065, gi... - gi\|109646116\|ref\|ZP_01370036.1\| RNA polymerase, sigma 38 subunit, RpoS [Desulfitobacterium hafniense...	7.0E-32	[11..206]	[134..379]
gi\|92089653, gi\|... - gi\|92089653\|ref\|ZP_01274588.1\| RNA polymerase sigma factor RpoD-like [Lactobacillus reuteri 100-23],...	8.0E-32	[13..206]	[124..367]
gi\|88923028, gi\|... - gi\|88947512\|ref\|ZP_01150491.1\| RNA polymerase ECF-type sigma factor [Desulfotomaculum reducens MI-1]...	1.0E-31	[15..212]	[2..188]
gi\|116494985, gi... - gi\|116494985\|ref\|YP_806719.1\| RNA polymerase sigma factor RpoD [Lactobacillus casei ATCC 334], gi\|11... gi\|191638497, gi... - gi\|191638497\|ref\|YP_001987663.1\| RNA polymerase sigma factor RpoD [Lactobacillus casei BL23], gi\|190... gi\|224453634 - gi\|224453634\|ref\|ZP_03662107.1\| RNA polymerase sigma factor RpoD [Lactobacillus paracasei subsp. par... gi\|227187324, gi... - gi\|227535009\|ref\|ZP_03965058.1\| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus paraca...	1.0E-31	[13..206]	[166..409]
gi\|55739378, gi\|... - gi\|55823393\|ref\|YP_141834.1\| RNA polymerase sigma factor RpoD [Streptococcus thermophilus CNRZ1066],... gi\|116101464, gi... - gi\|62527015\|ref\|ZP_00388317.1\| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)... gi\|55739378 - gb\|AAV63019.1\| DNA directed RNA polymerase sigma 42 protein [Streptococcus thermophilus CNRZ1066]	2.0E-31	[11..206]	[110..355]
gi\|58254795, gi\|... - gi\|58337478\|ref\|YP_194063.1\| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus NCFM], gi\|5...	2.0E-31	[11..206]	[98..343]
gi\|5030433 - gi\|5030433\|gb\|AAC44889.2\| sigma 70-type sigma factor SigA [Thermotoga maritima]	3.0E-31	[11..206]	[142..387]

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Predicted Domain #1

Region A:
Residues: [1-218]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEAGFVSVGD VTFRDLEDEA IVELVRKGNT DALEYLIHKY KNFVRAKSRS YFLVGADRED  60
   61 IVQEGMIGLF KAIRDYKEDK LSSFKAFAEL CITRQIITAI KTATRQKHIP LNSYVSLDKP 120
  121 IYDEESDRTL LDVISEAKVT DPEEMIISQE EYTDIESKIS ELLSDLERKV LSLYLDGRSY 180
  181 QEISEQLNRH VKSIDNALQR VKRKLERYME MRESTTSN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	30.221849
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	0.503184853376433	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: