YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|30260328, gi\|...
Organism:	Bacillus anthracis str. Ames
Length:	314 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|30260328, gi|....

Description	E-value	Query Range	Subject Range
gi\|229500502, gi... - gi\|229500502\|ref\|ZP_04394163.1\| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. Y412MC52... RPOA_GEOKA - DNA-directed RNA polymerase subunit alpha OS=Geobacillus kaustophilus GN=rpoA PE=3 SV=1 RPOA_GEOKA - DNA-directed RNA polymerase subunit alpha OS=Geobacillus kaustophilus (strain HTA426) GN=rpoA PE=3 S...	0.0	[1..314]	[1..314]
RPOA_BACSK - DNA-directed RNA polymerase subunit alpha OS=Bacillus clausii (strain KSM-K16) GN=rpoA PE=3 SV=1	0.0	[1..314]	[1..314]
RPOA_BACHD - DNA-directed RNA polymerase subunit alpha OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / ... RPOA_BACHD - DNA-directed RNA polymerase subunit alpha OS=Bacillus halodurans GN=rpoA PE=3 SV=1	0.0	[1..314]	[1..314]
gi\|89153233, gi\|... - gi\|89208824\|ref\|ZP_01187308.1\| DNA-directed RNA polymerase, alpha subunit [Bacillus weihenstephanens... gi\|228652358, gi... - gi\|229131145\|ref\|ZP_04260057.1\| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-ST19...	0.0	[1..314]	[1..314]
RPOA_BACLD - DNA-directed RNA polymerase subunit alpha OS=Bacillus licheniformis (strain ATCC 14580 / DSM 13 / JC...	0.0	[1..314]	[1..314]
gi\|89084941, gi\|... - gi\|89100320\|ref\|ZP_01173185.1\| DNA-directed RNA polymerase alpha subunit [Bacillus sp. NRRL B-14911]...	0.0	[1..314]	[1..314]
gi\|98660488 - gi\|98660488\|dbj\|GAA02330.1\| unnamed protein product [Pelotomaculum thermopropionicum SI]	0.0	[1..314]	[28..341]
gi\|221312277 - gi\|221312277\|ref\|ZP_03594082.1\| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. ... gi\|221317211 - gi\|221317211\|ref\|ZP_03598505.1\| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. ... gi\|221321474 - gi\|221321474\|ref\|ZP_03602768.1\| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. ... RPOA_BACSU - DNA-directed RNA polymerase subunit alpha OS=Bacillus subtilis GN=rpoA PE=1 SV=1 RPOA_BACSU - DNA-directed RNA polymerase subunit alpha OS=Bacillus subtilis (strain 168) GN=rpoA PE=1 SV=1 gi\|116733896 - gi\|116733896\|gb\|ABK20007.1\| DNA-directed RNA polymerase alpha subunit [synthetic construct]	0.0	[1..314]	[1..314]
RPOA_BACMF - DNA-directed RNA polymerase subunit alpha OS=Bacillus methylotrophicus (strain DSM 23117 / BGSC 10A6... gi\|52313146 - gi\|52313146\|emb\|CAH55603.1\| DNA-directed RNA polymerase alpha chain [Bacillus amyloliquefaciens]	0.0	[1..314]	[1..314]
gi\|227533985, gi... - gi\|227533985\|ref\|ZP_03964034.1\| DNA-directed RNA polymerase [Lactobacillus paracasei subsp. paracase... RPOA_LACC3 - DNA-directed RNA polymerase subunit alpha OS=Lactobacillus casei (strain ATCC 334) GN=rpoA PE=3 SV=1 gi\|239630326, gi... - gi\|239630326\|ref\|ZP_04673357.1\| DNA-directed RNA polymerase subunit alpha [Lactobacillus paracasei s... RPOA_LACCB - DNA-directed RNA polymerase subunit alpha OS=Lactobacillus casei (strain BL23) GN=rpoA PE=3 SV=1	0.0	[1..314]	[1..312]

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Predicted Domain #1

Region A:
Residues: [1-314]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIEIEKPKIE TVELNEDAKY GKFVIEPLER GYGTTLGNSL RRILLSSLPG AAVTAIQIDG  60
   61 VLHEFSTVEG VVEDVTTIIL NLKKLALKIY SEEEKTLEID VQGEGIVTAA DITHDSDVEI 120
  121 LNPDLHIATL AKDAHFRVRL TAKRGRGYTP ADANKSEDQP IGVIPIDSIY TPVSRVTYQV 180
  181 EKTRVGQVAN YDKLTLDVWT DGSIGPKEAI SLGAKILTEH LNIFVGLTDE AQNAEIMVEK 240
  241 EEDQKEKVLE MTIEELDLSV RSYNCLKRAG INTVQELANK TEEDMMKVRN LGRKSLEEVK 300
  301 HKLEELGLGL RKDD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	88.045757
Match:	1l9uA
Description:	DNA-directed RNA polymerase alpha(2), beta, beta-prime and omega subunits
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA-directed RNA polymerase activity	9.7234602659063	bayes_pls_golite062009
RNA polymerase activity	9.7234602659063	bayes_pls_golite062009
nucleotidyltransferase activity	7.15121167353057	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	5.00321253017182	bayes_pls_golite062009
transferase activity	4.43019288788219	bayes_pls_golite062009
binding	1.71036005361152	bayes_pls_golite062009
catalytic activity	1.14991565197115	bayes_pls_golite062009
nucleic acid binding	0.912313560512218	bayes_pls_golite062009
DNA binding	0.830570793255009	bayes_pls_golite062009
protein binding	0.224464975113154	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: