YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|55661193
Organism:	Pan troglodytes
Length:	127 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 gi|55661193.

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\| ...	2.0E-39	[3..127]	[15..138]
RPAB2_BOVIN - DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Bos taurus GN=POLR2F PE=1 SV=1	1.0E-37	[1..127]	[1..127]
gi\|57092769 - gi\|57092769\|ref\|XP_531740.1\| PREDICTED: similar to DNA directed RNA polymerase II polypeptide F isof... tr\|M3VZ62\|M3VZ62... - RNA polymerase II subunit F OS=Felis catus GN=POLR2F PE=4 SV=1	1.0E-37	[1..127]	[1..127]
gi\|194037227 - gi\|194037227\|ref\|XP_001925706.1\| PREDICTED: similar to RNA polymerase II [Sus scrofa] RPAB2_MOUSE - DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus GN=Polr2f PE=2 SV=1 RPAB2_RAT - DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus GN=Polr2f PE=1 SV=1	2.0E-37	[1..127]	[1..127]
gi\|74225195 - gi\|74225195\|dbj\|BAE38285.1\| unnamed protein product [Mus musculus]	3.0E-37	[1..127]	[1..127]
gi\|47217008 - gi\|47217008\|emb\|CAG01636.1\| unnamed protein product [Tetraodon nigroviridis]	6.0E-37	[1..127]	[1..127]
gi\|6522686, gi\|4... - gi\|6522686\|emb\|CAB62065.1\| RNA polymerase common subunit RPB6 [Gallus gallus], gi\|45382031\|ref\|NP_99...	7.0E-37	[1..127]	[1..127]
gi\|6573580 - gi\|6573580\|pdb\|1QKL\|A Chain A, Hrpabc14.4, Essential Subunit Of Human Rna Polymerases I, Ii And Iii	1.0E-36	[2..127]	[2..127]

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Predicted Domain #1

Region A:
Residues: [1-127]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDNEDNFDG DDFDDVEEDE GLDDLENAEE EGQENVEILP SGERPQANQK RITTPYMTKY  60
   61 ERARVLGTRA LQIAMCAPVM VELEGETDPL LIAMKELKAR KIPIIIRRYL PDGSYEDWGV 120
  121 DELIITD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	39.0
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: