YRC Public Data Repository - Protein Structure Prediction

Protein:	RpII18-PA
Organism:	Drosophila melanogaster
Length:	131 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 RpII18-PA.

Description	E-value	Query Range	Subject Range
gi\|71020411, gi\|... - gi\|71020411\|ref\|XP_760436.1\| hypothetical protein UM04289.1 [Ustilago maydis 521], ref\|XP_401904.1\| ...	164.0	[0..1]	[131..1]
AGAP005873-PA - DNA-directed RNA polymerases I, II, and III subunit RPABC2\|protein_coding\|2L:22716242:22716721:1\|gen... gi\|55238688, gi\|... - gi\|58387910\|ref\|XP_315900.2\| AGAP005873-PA [Anopheles gambiae str. PEST], gi\|55238688\|gb\|EAA11626.2\|...	151.0	[0..25]	[131..26]
gi\|108880924, gi... - gi\|157137087\|ref\|XP_001663881.1\| DNA-directed RNA polymerase subunit rpb6 [Aedes aegypti], gi\|108880...	150.0	[0..25]	[131..26]
gi\|91084023 - gi\|91084023\|ref\|XP_975355.1\| PREDICTED: similar to AGAP005873-PA [Tribolium castaneum]	147.0	[0..33]	[131..34]
rpb6 - DNA-directed RNA polymerase I, II and III subunit Rpb6 RPAB2_SCHPO - DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Schizosaccharomyces pombe (strain 972 ...	146.0	[0..4]	[127..2]
gi\|125586969, gi... - gi\|50399946\|gb\|AAT76334.1\| putative DNA-directed RNA polymerase II subunit [Oryza sativa (japonica c...	145.0	[0..1]	[131..1]
gi\|114050977, gi... - gi\|87248209\|gb\|ABD36157.1\| DNA-directed RNA polymerase subunit 6-like protein [Bombyx mori], gi\|1140...	145.0	[0..1]	[130..1]
gi\|6522686, gi\|4... - gi\|6522686\|emb\|CAB62065.1\| RNA polymerase common subunit RPB6 [Gallus gallus], gi\|45382031\|ref\|NP_99...	144.0	[0..1]	[130..1]
gi\|125776791, gi... - gi\|54639138\|gb\|EAL28540.1\| GA11109-PA [Drosophila pseudoobscura], gi\|125776791\|ref\|XP_001359394.1\| G...	144.0	[0..30]	[131..20]
gi\|66524012 - gi\|66524012\|ref\|XP_393973.2\| PREDICTED: similar to RNA polymerase II 18kD subunit CG1163-PA [Apis me...	144.0	[0..1]	[131..1]

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Predicted Domain #1

Region A:
Residues: [1-131]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDDADYDNDD VGGDDFDDVD EDVDEDINQE EEADNIEIIA PGGAGGGGVP KSKRITTKYM  60
   61 TKYERARVLG TRALQIAMCA PIMVELDGET DPLQIAMKEL KQKKIPIIIR RYLPDHSYED 120
  121 WSIDELIMVD N

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	35.0
Match:	1qklA
Description:	RPB6
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	0.372436499192166	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: