YRC Public Data Repository - Protein Structure Prediction

Protein:	RPAB5_BRANA
Organism:	Brassica napus
Length:	71 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 RPAB5_BRANA.

Description	E-value	Query Range	Subject Range
gi\|33086454 - gi\|33086454\|gb\|AAP92539.1\| Ab1-108 [Rattus norvegicus]	146.0	[0..1]	[67..257]
gi\|68362888 - gi\|68362888\|ref\|XP_697922.1\| PREDICTED: similar to DNA-directed RNA polymerase II 7.6 kDa polypeptid...	139.0	[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...	136.0	[0..1]	[67..22]
gi\|115484555, gi... - gi\|77549069\|gb\|ABA91866.1\| DNA-directed RNA polymerase II 8.2 kDa polypeptide, putative, expressed [...	135.0	[0..1]	[71..1]
gi\|109150091, gi... - gi\|138519706\|gb\|AAI35759.1\| Unknown (protein for MGC:121801) [Xenopus tropicalis], gi\|109150091\|gb\|A...	134.0	[0..1]	[67..1]
NRPBA_ARATH - DNA-directed RNA polymerases II, IV and V subunit 10 OS=Arabidopsis thaliana GN=NRPB10 PE=1 SV=1	133.0	[0..1]	[71..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...	133.0	[0..1]	[67..1]
gi\|115960169, gi... - gi\|115960169\|ref\|XP_001176583.1\| PREDICTED: similar to RNA polymerase II subunit [Strongylocentrotus...	133.0	[0..1]	[67..1]
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]	132.0	[0..1]	[67..1]

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Predicted Domain #1

Region A:
Residues: [1-71]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIIPVRCFTC GKVIGNKWDA YLDLLQLDYT EGDALDALNL VRYCCRRMLM THVDLIEKLL  60
   61 NYNTLEKSDN S

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.39794
Match:	1i3qJ
Description:	RNA polymerase subunit RPB10
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