YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24349657, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	326 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|24349657, gi|....

Description	E-value	Query Range	Subject Range
gi\|4587113 - gi\|4587113\|dbj\|BAA76622.1\| RpoT [Mycobacterium leprae]	258.0	[0..8]	[322..232]
gi\|88912059, gi\|... - gi\|88931788\|ref\|ZP_01137481.1\| Carbamoyl-phosphate synthase L chain, ATP-binding [Acidothermus cellu...	257.0	[0..10]	[322..137]
gi\|219933076, gi... - gi\|221229969\|ref\|YP_002503385.1\| RNA polymerase sigma factor [Mycobacterium leprae Br4923], gi\|21993... gi\|15827492 - gi\|15827492\|ref\|NP_301755.1\| RNA polymerase sigma factor [Mycobacterium leprae TN] gi\|699190, gi\|45... - gi\|699190\|gb\|AAA62955.1\| rpoT [Mycobacterium leprae], gi\|4587111\|dbj\|BAA76621.1\| RpoT [Mycobacterium...	256.0	[0..8]	[322..230]
gi\|119717187, gi... - gi\|71369155\|ref\|ZP_00659620.1\| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region...	256.0	[0..5]	[322..149]
gi\|56963455, gi\|... - gi\|56963455\|ref\|YP_175186.1\| RNA polymerase sigma factor RpoD [Bacillus clausii KSM-K16], gi\|5690969...	254.0	[0..5]	[322..48]
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...	253.0	[0..5]	[322..48]
gi\|109644065, gi... - gi\|109646116\|ref\|ZP_01370036.1\| RNA polymerase, sigma 38 subunit, RpoS [Desulfitobacterium hafniense...	253.0	[0..52]	[322..121]
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]	253.0	[0..12]	[320..61]
gi\|151360016, gi... - gi\|69288837\|ref\|ZP_00618470.1\| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region...	253.0	[0..39]	[322..191]
gi\|69249285, gi\|... - gi\|69249285\|ref\|ZP_00604924.1\| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 regi... gi\|48823945 - ref\|ZP_00285397.1\| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Enterococc...	253.0	[0..9]	[322..55]

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Predicted Domain #1

Region A:
Residues: [1-326]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSRINSTAAE ELVDFSVDTA EFDLDKEDIA ADLVQELGLE QQVQDDLQKN LDATQLYLGE  60
   61 IGFSPLLSAE EEVYFSRKAL KGCEKSRNRM IESNLRLVVK IARRYNNRGL ALLDLIEEGN 120
  121 LGLIRAVEKF DPERGFRFST YATWWIRQTI ERAIMNQTRT IRLPIHVVKE LNVYLRTARE 180
  181 LAQKLDHEPT AEEIAEKLQV SSVDVSRMLK LNEKITSVDV PLGGDNDKAL LDVLADDDNV 240
  241 GPDYKVQDED ISNSVVKWLN ELNTKQREVL ARRFGLLGYE PSTLEDVGAE IGLTRERVRQ 300
  301 IQVEALKRLR DLLGAQGLSV EALFRN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.69897
Match:	1l9zH
Description:	DNA-directed RNA polymerase alpha(2), beta, beta-prime and omega subunits
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