YRC Public Data Repository - Protein Structure Prediction

Protein:	rpb9
Organism:	Schizosaccharomyces pombe
Length:	113 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 rpb9.

Description	E-value	Query Range	Subject Range
gi\|50797497 - gi\|50797497\|ref\|XP_423952.1\| PREDICTED: similar to DNA-directed RNA polymerase II 14.5 kDa polypepti...	133.0	[0..4]	[112..92]
gi\|94733479, gi\|... - gi\|94733479\|emb\|CAK04397.1\| novel protein similar to human polymerase (RNA) II (DNA directed) polype...	127.0	[0..4]	[112..15]
RPB9_BOVIN - DNA-directed RNA polymerase II subunit RPB9 OS=Bos taurus GN=POLR2I PE=1 SV=1	125.0	[0..4]	[112..14]
gi\|149721893 - gi\|149721893\|ref\|XP_001493833.1\| PREDICTED: similar to RNA Polymerase II subunit 14.5 kD [Equus caba... tr\|M3X8K0\|M3X8K0... - DNA-directed RNA polymerase subunit OS=Felis catus GN=POLR2I PE=3 SV=1 POLR2I - polymerase (RNA) II (DNA directed) polypeptide I, 14.5kDa tr\|G1TAL1\|G1TAL1... - pep:novel scaffold:oryCun2:GL018786:846736:847756:-1 gene:ENSOCUG00000013044 transcript:ENSOCUT00000... gi\|76641410 - gi\|76641410\|ref\|XP_871092.1\| PREDICTED: similar to DNA-directed RNA polymerase II 14.5 kDa polypepti... RPB9_MOUSE - DNA-directed RNA polymerase II subunit RPB9 OS=Mus musculus GN=Polr2i PE=1 SV=1 CCDS12487.1_1 - null RPB9_PIG - DNA-directed RNA polymerase II subunit RPB9 OS=Sus scrofa GN=POLR2I PE=3 SV=1 gi\|126329203 - gi\|126329203\|ref\|XP_001364276.1\| PREDICTED: similar to RNA Polymerase II subunit 14.5 kD [Monodelphi... gi\|73947834 - gi\|73947834\|ref\|XP_853642.1\| PREDICTED: similar to DNA-directed RNA polymerase II 14.5 kDa polypepti... gi\|114676836 - gi\|114676836\|ref\|XP_001162834.1\| PREDICTED: DNA directed RNA polymerase II polypeptide I [Pan troglo... gi\|208967088, gi... - gi\|208967088\|dbj\|BAG73558.1\| polymerase (RNA) II (DNA directed) polypeptide I, 14.5kDa [synthetic co... ENSCJAT00000018746 - null gi\|149056348, gi... - gi\|34855683\|ref\|XP_214895.2\| PREDICTED: similar to DNA-directed RNA polymerase II 14.5 kDa polypepti... gi\|109124448 - gi\|109124448\|ref\|XP_001102318.1\| PREDICTED: similar to DNA-directed RNA polymerase II 14.5 kDa polyp...	125.0	[0..4]	[112..14]
gi\|47215803 - gi\|47215803\|emb\|CAG02857.1\| unnamed protein product [Tetraodon nigroviridis]	125.0	[0..4]	[112..15]
gi\|49642344 - gi\|49642344\|emb\|CAH00306.1\| KLLA0D03234p [Kluyveromyces lactis] gi\|50306473, gi\|... - gi\|50306473\|ref\|XP_453210.1\| unnamed protein product [Kluyveromyces lactis], gi\|49642344\|emb\|CAH0030...	125.0	[0..1]	[113..1]
gi\|88182107, gi\|... - gi\|88182107\|gb\|EAQ89575.1\| conserved hypothetical protein [Chaetomium globosum CBS 148.51], gi\|11619...	125.0	[0..4]	[112..3]
gi\|194120158, gi... - gi\|195329032\|ref\|XP_002031215.1\| GM24158 [Drosophila sechellia], gi\|194120158\|gb\|EDW42201.1\| GM24158... FBpp0301701, RpI... - The gene RNA polymerase II 15kD subunit is referred to in FlyBase by the symbol Dmel\RpII15 (CG3284,... gi\|194183981, gi... - gi\|195501642\|ref\|XP_002097880.1\| GE24228 [Drosophila yakuba], gi\|194183981\|gb\|EDW97592.1\| GE24228 [D... gi\|194199388, gi... - gi\|195570939\|ref\|XP_002103461.1\| GD18953 [Drosophila simulans], gi\|194199388\|gb\|EDX12964.1\| GD18953 ... gi\|194900739, gi... - gi\|194900739\|ref\|XP_001979913.1\| GG16847 [Drosophila erecta], gi\|190651616\|gb\|EDV48871.1\| GG16847 [D...	125.0	[0..4]	[112..18]
gi\|187030356, gi... - gi\|39590421\|emb\|CAE66160.1\| Hypothetical protein CBG11394 [Caenorhabditis briggsae], gi\|187030356\|em... gi\|157759842 - gi\|157759842\|ref\|XP_001672263.1\| Hypothetical protein CBG11394 [Caenorhabditis briggsae AF16]	125.0	[0..4]	[112..35]
gi\|195145378, gi... - gi\|195145378\|ref\|XP_002013673.1\| GL23270 [Drosophila persimilis], gi\|194102616\|gb\|EDW24659.1\| GL2327... gi\|54638389\|gb\|E... - GA17176-PA [Drosophila pseudoobscura], GA17176 [Drosophila pseudoobscura pseudoobscura] gi\|54638389, gi\|... - gi\|54638389\|gb\|EAL27791.1\| GA17176 [Drosophila pseudoobscura pseudoobscura], gi\|125774797\|ref\|XP_001...	124.0	[0..4]	[112..18]

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Predicted Domain #1

Region A:
Residues: [1-113]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNFQYCIEC NNMLYPREDK VDRVLRLACR NCDYSEIAAT SKVYRHELQS SNVENTTVSH  60
   61 DASTDPTLPR SDKECPRCHQ HEAVFYQTHS RRGDTMMTLI YVCVHCGFAF EEQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	29.30103
Match:	1i3qI
Description:	RBP9 subunit of RNA polymerase II
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