YRC Public Data Repository - Protein Structure Prediction

Protein:	RPB10
Organism:	Saccharomyces cerevisiae
Length:	70 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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.

Description	E-value	Query Range	Subject Range
gi\|190407520 - gi\|190407520\|gb\|EDV10787.1\| RNA polymerase II core subunit [Saccharomyces cerevisiae RM11-1a] ORFP:21112 - YOR210W, Contig c270 13225-13437 Sbay_494.4, Sbay... - probable YOR210W RPB10 (5340-5552), null gi\|151945300 - gi\|151945300\|gb\|EDN63543.1\| ABC10-beta [Saccharomyces cerevisiae YJM789] RPB10 - RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III RPAB5_YEAST - DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Saccharomyces cerevisiae (strain ATCC ...	3.0E-26	[1..70]	[1..70]
gi\|195158697, gi... - gi\|195158697\|ref\|XP_002020222.1\| GL13620 [Drosophila persimilis], gi\|194116991\|gb\|EDW39034.1\| GL1362... gi\|194121491, gi... - gi\|195331721\|ref\|XP_002032548.1\| GM26620 [Drosophila sechellia], gi\|194121491\|gb\|EDW43534.1\| GM26620... gi\|194151107, gi... - gi\|195388708\|ref\|XP_002053021.1\| GJ23650 [Drosophila virilis], gi\|194151107\|gb\|EDW66541.1\| GJ23650 [... gi\|194185296, gi... - gi\|195504710\|ref\|XP_002099195.1\| GE23508 [Drosophila yakuba], gi\|194185296\|gb\|EDW98907.1\| GE23508 [D... gi\|194200689, gi... - gi\|195573564\|ref\|XP_002104762.1\| GD21123 [Drosophila simulans], gi\|194200689\|gb\|EDX14265.1\| GD21123 ... gi\|220952410, gi... - gi\|220952410\|gb\|ACL88748.1\| Rpb10-PA [synthetic construct], gi\|220942200\|gb\|ACL83643.1\| Rpb10-PA [sy... Rpb10-PA - The gene Rpb10 is referred to in FlyBase by the symbol Dmel\Rpb10 (CG13628, FBgn0039218). It is a pr... gi\|190626474, gi... - gi\|194741880\|ref\|XP_001953415.1\| GF17223 [Drosophila ananassae], gi\|190626474\|gb\|EDV41998.1\| GF17223... gi\|190656588, gi... - gi\|194909458\|ref\|XP_001981950.1\| GG11312 [Drosophila erecta], gi\|190656588\|gb\|EDV53820.1\| GG11312 [D... gi\|195037216, gi... - gi\|195037216\|ref\|XP_001990060.1\| GH18444 [Drosophila grimshawi], gi\|193894256\|gb\|EDV93122.1\| GH18444... gi\|193915120, gi... - gi\|195107889\|ref\|XP_001998526.1\| GI24021 [Drosophila mojavensis], gi\|193915120\|gb\|EDW13987.1\| GI2402... gi\|54637449, gi\|... - gi\|54637449\|gb\|EAL26851.1\| GA12420 [Drosophila pseudoobscura pseudoobscura], gi\|125772917\|ref\|XP_001... gi\|54637449\|gb\|E... - GA12420-PA [Drosophila pseudoobscura], GA12420 [Drosophila pseudoobscura pseudoobscura]	5.0E-26	[1..68]	[1..67]
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]	7.0E-26	[1..68]	[1..67]
RPBAL_ARATH - DNA-directed RNA polymerase subunit 10-like protein OS=Arabidopsis thaliana GN=NRPB10L PE=1 SV=1	9.0E-26	[1..70]	[1..69]
RPAB5_CAEBR - DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Caenorhabditis briggsae GN=rpb-10 PE=3... rpb-10 - status:Confirmed UniProt:Q9GR61 protein_id:AAK27863.1 CRE03964 - RP42399 WBGene00060590 locus:Cre-rpb-10 status:Predicted gi\|157744933 - gi\|157744933\|ref\|XP_001667563.1\| Hypothetical protein CBG22047 [Caenorhabditis briggsae AF16]	2.0E-25	[1..68]	[1..67]
RPAB5_BRANA - DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Brassica napus PE=3 SV=1	4.0E-25	[1..70]	[1..69]
RPAB5_SCHPO - DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Schizosaccharomyces pombe (strain 972 ... rpb10 - DNA-directed RNA polymerase I, II, and III subunit Rpb10	1.0E-24	[1..69]	[1..68]
gi\|25314516, gi\|... - pir\|\|C90129 Putative RNA polymerase II subunit Rpb10 [imported] - Guillardia theta nucleomorph, gi\|1...	1.0E-22	[1..64]	[1..63]
gi\|7447620 - gi\|7447620\|pir\|\|H71042 probable DNA-directed RNA polymerase subunit N - Pyrococcus horikoshii gi\|14591404, gi\|... - gi\|3258061\|dbj\|BAA30744.1\| 119aa long hypothetical DNA-directed RNA polymerase subunit N [Pyrococcus...	1.0E-22	[1..63]	[55..116]
RPON_SULTO - DNA-directed RNA polymerase subunit N OS=Sulfolobus tokodaii GN=rpoN PE=3 SV=1 RPON_SULTO - DNA-directed RNA polymerase subunit N OS=Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 10...	4.0E-22	[1..63]	[1..62]

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Predicted Domain #1

Region A:
Residues: [1-70]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIVPVRCFSC GKVVGDKWES YLNLLQEDEL DEGTALSRLG LKRYCCRRMI LTHVDLIEKF  60
   61 LRYNPLEKRD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	350.165202
Match:	1k83J_
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: