YRC Public Data Repository - Protein Structure Prediction

Protein:	Rpb10-PA
Organism:	Drosophila melanogaster
Length:	67 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 Rpb10-PA.

Description	E-value	Query Range	Subject Range
gi\|33086454 - gi\|33086454\|gb\|AAP92539.1\| Ab1-108 [Rattus norvegicus]	139.0	[0..1]	[67..257]
gi\|68362888 - gi\|68362888\|ref\|XP_697922.1\| PREDICTED: similar to DNA-directed RNA polymerase II 7.6 kDa polypeptid...	134.0	[0..1]	[67..112]
gi\|94382943, gi\|... - gi\|94382943\|ref\|XP_997962.1\| PREDICTED: similar to DNA-directed RNA polymerase II 7.6 kDa polypeptid...	130.0	[0..1]	[67..22]
gi\|109150091, gi... - gi\|138519706\|gb\|AAI35759.1\| Unknown (protein for MGC:121801) [Xenopus tropicalis], gi\|109150091\|gb\|A...	128.0	[0..1]	[67..1]
gi\|115960169, gi... - gi\|115960169\|ref\|XP_001176583.1\| PREDICTED: similar to RNA polymerase II subunit [Strongylocentrotus...	128.0	[0..1]	[67..1]
AGAP011761-PA - DNA-directed RNA polymerases I, II, and III subunit RPABC5\|protein_coding\|3L:32976410:32976688:-1\|ge... gi\|58394474, gi\|... - gi\|58394474\|ref\|XP_320749.2\| AGAP011761-PA [Anopheles gambiae str. PEST], gi\|55234923\|gb\|EAA00426.2\|... gi\|219881542 - gi\|219881542\|ref\|NP_001137388.1\| RNA polymerase II subunit 10 [Tribolium castaneum] gi\|170039744, gi... - gi\|170039744\|ref\|XP_001847684.1\| DNA-directed RNA polymerase II 7.6 kDa polypeptide [Culex quinquefa... gi\|94468736, gi\|... - gi\|94468736\|gb\|ABF18217.1\| DNA-directed RNA polymerase subunit RPB10 [Aedes aegypti], gi\|157107235\|r... gi\|110749402 - gi\|110749402\|ref\|XP_001119937.1\| PREDICTED: similar to DNA-directed RNA polymerase II 7.6 kDa polype... gi\|80973030 - gi\|80973030\|gb\|ABB53243.1\| DNA-directed RNA polymerase [Ixodes ricinus] gi\|241743332, gi... - gi\|241743332\|ref\|XP_002412419.1\| DNA-directed RNA polymerase [Ixodes scapularis], gi\|215505748\|gb\|EE...	127.0	[0..1]	[67..1]
gi\|115484555, gi... - gi\|77549069\|gb\|ABA91866.1\| DNA-directed RNA polymerase II 8.2 kDa polypeptide, putative, expressed [...	126.0	[0..1]	[67..1]
RPAB5_MOUSE - DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Mus musculus GN=Polr2l PE=3 SV=1 gi\|109104892 - gi\|109104892\|ref\|XP_001089261.1\| PREDICTED: similar to DNA-directed RNA polymerase II 7.6 kDa polype... POLR2L - polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa RPAB5_BOVIN - DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Bos taurus GN=POLR2L PE=1 SV=1 gi\|225704656 - gi\|225704656\|gb\|ACO08174.1\| DNA-directed RNA polymerase II 7.6 kDa polypeptide [Oncorhynchus mykiss] gi\|225717028 - gi\|225717028\|gb\|ACO14360.1\| DNA-directed RNA polymerases I, II, and III subunit RPABC5 [Esox lucius] gi\|149061666, gi... - gi\|219881034\|ref\|NP_001137383.1\| polymerase (RNA) II (DNA directed) polypeptide L [Rattus norvegicus... RPAB5_CHILA - DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Chinchilla lanigera GN=POLR2L PE=3 SV=... gi\|209735392, gi... - gi\|209735824\|gb\|ACI68781.1\| DNA-directed RNA polymerases I, II, and III subunit RPABC5 [Salmo salar]... gi\|197127740, gi... - gi\|197127740\|gb\|ACH44238.1\| putative DNA directed RNA polymerase II polypeptide L variant 2a [Taenio... gi\|163644265, gi... - gi\|66911780\|gb\|AAH97791.1\| Polr2l protein [Xenopus laevis], gi\|163644265\|ref\|NP_001106198.1\| polymer... gi\|123992941, gi... - gi\|61361807\|gb\|AAX42106.1\| polymerase II polypeptide L [synthetic construct], gi\|208968665\|dbj\|BAG74... gi\|114635497 - gi\|114635497\|ref\|XP_001151400.1\| PREDICTED: DNA directed RNA polymerase II polypeptide L [Pan troglo... gi\|62858625, gi\|... - gi\|89266960\|emb\|CAJ82315.1\| polymerase (RNA) II (DNA directed) polypeptide L [Xenopus tropicalis], g... gi\|118091290 - gi\|118091290\|ref\|XP_001233059.1\| PREDICTED: similar to RNA polymerase II subunit [Gallus gallus]	126.0	[0..1]	[67..1]
gi\|60653741 - gi\|60653741\|gb\|AAX29564.1\| polymerase [synthetic construct]	126.0	[0..1]	[67..1]
gi\|47230481 - gi\|47230481\|emb\|CAF99674.1\| unnamed protein product [Tetraodon nigroviridis]	126.0	[0..1]	[67..1]

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Predicted Domain #1

Region A:
Residues: [1-67]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIIPIRCFTC GKVIGNKWES YLGLLQAEYT EGDALDALGL KRYCCRRMLL GHVDLIEKLL  60
   61 NYAPLEK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.69897
Match:	1i3qJ
Description:	RNA polymerase subunit RPB10
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA-directed RNA polymerase activity	8.75117285798821	bayes_pls_golite062009
RNA polymerase activity	8.75117285798821	bayes_pls_golite062009
nucleotidyltransferase activity	6.19778374025439	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	4.14604589390528	bayes_pls_golite062009
transferase activity	3.67290653698956	bayes_pls_golite062009
binding	1.92719310476535	bayes_pls_golite062009
catalytic activity	0.740488970089403	bayes_pls_golite062009
protein binding	0.445041376423941	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: