YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|30264150, gi\|...
Organism:	Bacillus anthracis str. Ames
Length:	252 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|30264150, gi|....

Description	E-value	Query Range	Subject Range
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]	1.0E-45	[1..247]	[99..355]
gi\|55737450, gi\|... - gi\|55821465\|ref\|YP_139907.1\| RNA polymerase sigma factor RpoD [Streptococcus thermophilus LMG 18311]... gi\|55737450 - gb\|AAV61092.1\| DNA directed RNA polymerase sigma 42 protein [Streptococcus thermophilus LMG 18311]	2.0E-45	[1..247]	[99..355]
gi\|78044024, gi\|... - gi\|78044024\|ref\|YP_359316.1\| RNA polymerase sigma factor RpoD [Carboxydothermus hydrogenoformans Z-2...	3.0E-45	[1..247]	[101..357]
gi\|149019675, gi... - gi\|149019675\|ref\|ZP_01834994.1\| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP23-BS72],... gi\|147762031, gi... - gi\|149006254\|ref\|ZP_01829966.1\| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP18-BS74... gi\|149013172, gi... - gi\|149013172\|ref\|ZP_01833989.1\| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP19-BS75],... gi\|148998339, gi... - gi\|148998339\|ref\|ZP_01825781.1\| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP11-BS70],... gi\|149003984, gi... - gi\|149003984\|ref\|ZP_01828792.1\| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP14-BS69],... gi\|168483147, gi... - gi\|172043392\|gb\|EDT51438.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pne... gi\|168487460, gi... - gi\|183569691\|gb\|EDT90219.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pne... gi\|183572434, gi... - gi\|183572434\|gb\|EDT92962.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pne... gi\|168494506, gi... - gi\|183575600\|gb\|EDT96128.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pne... gi\|242245350, gi... - gi\|242245350\|ref\|ZP_04799787.1\| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pneumo... gi\|183577989, gi... - gi\|183577989\|gb\|EDT98517.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pne... gi\|237821736 - gi\|237821736\|ref\|ZP_04597581.1\| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae CCRI 1974... gi\|147925339, gi... - gi\|148989116\|ref\|ZP_01820506.1\| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP6-BS73], ... gi\|237650028 - gi\|237650028\|ref\|ZP_04524280.1\| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae CCRI 1974... gi\|147927422, gi... - gi\|148994179\|ref\|ZP_01823494.1\| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP9-BS68]... gi\|225728137, gi... - gi\|225861039\|ref\|YP_002742548.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcu... gi\|225720127, gi... - gi\|225858886\|ref\|YP_002740396.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcu... gi\|147922742, gi... - gi\|148985044\|ref\|ZP_01818287.1\| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP3-BS71], ... gi\|225856717, gi... - gi\|225856717\|ref\|YP_002738228.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcu... gi\|225854569, gi... - gi\|225854569\|ref\|YP_002736081.1\| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcu... RPOD_STRPN - RNA polymerase sigma factor rpoD OS=Streptococcus pneumoniae GN=rpoD PE=3 SV=1 gi\|169833634, gi... - gi\|169833634\|ref\|YP_001694498.1\| RNA polymerase sigma factor RpoD (sigma-A) (sigma-43) [Streptococcu... gi\|182629511, gi... - gi\|182684177\|ref\|YP_001835924.1\| RNA polymerase sigma factor [Streptococcus pneumoniae CGSP14], gi\|1... gi\|220674277, gi... - gi\|221231817\|ref\|YP_002510969.1\| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae ATCC 700... SIGA_STRPN - RNA polymerase sigma factor SigA OS=Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4... SIGA_STRR6 - RNA polymerase sigma factor SigA OS=Streptococcus pneumoniae (strain ATCC BAA-255 / R6) GN=sigA PE=3... gi\|116516638, gi... - gi\|116516638\|ref\|YP_816435.1\| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae D39], gi\|11...	5.0E-45	[1..248]	[99..356]
gi\|223932503, gi... - gi\|81096984\|ref\|ZP_00875303.1\| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 regi... gi\|146321288, gi... - gi\|146321288\|ref\|YP_001200999.1\| RNA polymerase sigma factor RpoD [Streptococcus suis 98HAH33], gi\|1... gi\|145689888, gi... - gi\|146319082\|ref\|YP_001198794.1\| RNA polymerase sigma factor RpoD [Streptococcus suis 05ZYH33], gi\|1... gi\|251820209, gi... - gi\|253753963\|ref\|YP_003027104.1\| RNA polymerase sigma factor RpoD [Streptococcus suis P1/7], gi\|2518... gi\|251816427, gi... - gi\|253752138\|ref\|YP_003025279.1\| RNA polymerase sigma factor RpoD [Streptococcus suis SC84], gi\|2518... gi\|253755898, gi... - gi\|253755898\|ref\|YP_003029038.1\| RNA polymerase sigma factor RpoD [Streptococcus suis BM407], gi\|251...	8.0E-45	[1..247]	[102..358]
gi\|76563399, gi\|... - gi\|76788342\|ref\|YP_330069.1\| RNA polymerase sigma factor RpoD [Streptococcus agalactiae A909], gi\|76... gi\|77159097, gi\|... - gi\|77414847\|ref\|ZP_00790961.1\| RNA polymerase sigma-70 factor [Streptococcus agalactiae 515], gi\|771... gi\|22537572, gi\|... - gi\|22537572\|ref\|NP_688423.1\| RNA polymerase sigma factor RpoD [Streptococcus agalactiae 2603V/R], gi... gi\|77161430, gi\|... - gi\|77412516\|ref\|ZP_00788814.1\| RNA polymerase sigma-70 factor [Streptococcus agalactiae CJB111], gi\|... gi\|77409561, gi\|... - gi\|77409561\|ref\|ZP_00786243.1\| RNA polymerase sigma-70 factor [Streptococcus agalactiae COH1], gi\|77... gi\|25011538, gi\|... - gi\|25011538\|ref\|NP_735933.1\| RNA polymerase sigma factor RpoD [Streptococcus agalactiae NEM316], gi\|...	8.0E-45	[1..247]	[99..355]
gi\|77406972, gi\|... - gi\|77406972\|ref\|ZP_00783989.1\| RNA polymerase sigma-70 factor [Streptococcus agalactiae H36B], gi\|77...	1.0E-44	[1..247]	[99..355]
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...	2.0E-44	[1..247]	[153..409]
gi\|254997617 - gi\|254997617\|dbj\|BAH88218.1\| DNA-dependent RNA polymerase sigma subunit [Streptococcus mutans NN2025... SIGA_STRMU - RNA polymerase sigma factor SigA OS=Streptococcus mutans serotype c (strain ATCC 700610 / UA159) GN=... RPOD_STRMU - RNA polymerase sigma factor rpoD OS=Streptococcus mutans GN=rpoD PE=3 SV=1	2.0E-44	[1..247]	[101..357]
gi\|58254795, gi\|... - gi\|58337478\|ref\|YP_194063.1\| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus NCFM], gi\|5...	4.0E-44	[1..247]	[87..343]

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Predicted Domain #1

Region A:
Residues: [1-252]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDIEVKNEKK KPQLKDHELK ALIQKSQDGD QQARDTIVQS NMRLVWSVVQ RFLNRGYEPD  60
   61 DLFQIGCIGL LKSVDKFDLS FDVKFSTYAV PMIIGEIQRF LRDDGSVKVS RSLKETGNKI 120
  121 RKMRDELSKE FGRAPTINEV AEALELTPEE VVLAQEASRA PSSIHETVYE NDGDPITILD 180
  181 QIADQSETKW FDKIALKEAI RELDERERLI VYLRYYKDQT QSEVAERIGI SQVQVSRLEK 240
  241 KILKQMKDRI DE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.39794
Match:	1l0oC
Description:	SigmaF
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	0.548757434020842	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: