YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|109507081, gi...
Organism:	Rattus norvegicus
Length:	142 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|109507081, gi....

Description	E-value	Query Range	Subject Range
gi\|50751915 - gi\|50751915\|ref\|XP_422576.1\| PREDICTED: similar to RIKEN cDNA 2610028L19 [Gallus gallus]	214.0	[0..1]	[142..218]
gi\|83754534, gi\|... - gi\|83754534\|pdb\|2C35\|G Chain G, Subunits Rpb4 And Rpb7 Of Human Rna Polymerase Ii, gi\|83754532\|pdb\|2...	180.0	[0..1]	[142..11]
gi\|115497864, gi... - gi\|94574089\|gb\|AAI16156.1\| Polymerase (RNA) II (DNA directed) polypeptide D [Bos taurus], gi\|1154978...	175.0	[0..1]	[142..1]
gi\|109104556 - gi\|109104556\|ref\|XP_001090528.1\| PREDICTED: polymerase (RNA) II (DNA directed) polypeptide D isoform...	175.0	[0..1]	[142..1]
CE28327 - WBGene00018391 status:Partially_confirmed TR:O02092 protein_id:AAC71124.2	172.0	[0..2]	[141..91]
gi\|189441952, gi... - gi\|62858949\|ref\|NP_001016248.1\| polymerase (RNA) II (DNA directed) polypeptide D [Xenopus (Silurana)...	165.0	[0..1]	[142..1]
gi\|148233814, gi... - gi\|51873947\|gb\|AAH78547.1\| MGC85403 protein [Xenopus laevis], gi\|148233814\|ref\|NP_001087315.1\| MGC85...	165.0	[0..1]	[142..1]
gi\|66267586, gi\|... - gi\|66267586\|gb\|AAH95261.1\| Polymerase (RNA) II (DNA directed) polypeptide D [Danio rerio], gi\|505397...	160.0	[0..1]	[142..1]
gi\|125776201, gi... - gi\|54638941\|gb\|EAL28343.1\| GA16175-PA [Drosophila pseudoobscura], gi\|125776201\|ref\|XP_001359199.1\| G...	154.0	[0..26]	[142..505]

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Predicted Domain #1

Region A:
Residues: [1-142]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAAGGSDPRA GDVEEDASQL IFPKEFETAE TLLNSEVHML LEHRKQQNES AEDEQELSEV  60
   61 FMKTLNYTAR FSRFKNRETI ASVRSLLLQK KLHKFELACL ANLCPETAEE SKALIPSLEG 120
  121 RFEDEELQQI LDDIQTKRSF QY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	46.0
Match:	2c35A
Description:	Subunits Rpb4 and Rpb7 of human RNA polymerase II
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