YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|109497177, gi...
Organism:	Rattus norvegicus
Length:	117 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|109497177, gi....

Description	E-value	Query Range	Subject Range
gi\|73957788 - gi\|73957788\|ref\|XP_546937.2\| PREDICTED: similar to RAS p21 protein activator 4 [Canis familiaris]	7.0E-45	[1..117]	[992..1108]
gi\|109066247 - gi\|109066247\|ref\|XP_001114618.1\| PREDICTED: similar to DNA-directed RNA polymerase II subunit J (DNA...	2.0E-41	[1..117]	[75..191]
gi\|62088376 - gi\|62088376\|dbj\|BAD92635.1\| MGC13098 protein variant [Homo sapiens]	3.0E-38	[1..106]	[23..127]
RPB11_MOUSE - DNA-directed RNA polymerase II subunit RPB11 OS=Mus musculus GN=Polr2j PE=1 SV=1	3.0E-38	[1..117]	[1..117]
gi\|47211212 - gi\|47211212\|emb\|CAF90169.1\| unnamed protein product [Tetraodon nigroviridis]	4.0E-38	[1..117]	[1..117]
gi\|169146277, gi... - gi\|68361602\|ref\|XP_683502.1\| PREDICTED: hypothetical protein XP_678410 [Danio rerio], gi\|66773140\|re...	1.0E-37	[1..117]	[1..117]

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Predicted Domain #1

Region A:
Residues: [1-117]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNAPPAFESF LLFEGEKKIT INKDTKVPNA CLFTINKEDH TLGNIIKSQL LKDPQVLFAG  60
   61 YKVPHPLEHK IIIRVQTTPD YSPQEAFTNA ITDLISELSL LEERFRVAIK DKQEGIE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	34.154902
Match:	1i3qK
Description:	RPB11
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