YRC Public Data Repository - Protein Structure Prediction

Protein:	rpc40
Organism:	Schizosaccharomyces pombe
Length:	348 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 rpc40.

Description	E-value	Query Range	Subject Range
gi\|1914859 - gi\|1914859\|emb\|CAA71570.1\| homologous to 40kD subunit of RNA-polymerase I and III [Cricetulus griseu...	481.0	[0..5]	[348..4]
RPAC1_BOVIN - DNA-directed RNA polymerases I and III subunit RPAC1 OS=Bos taurus GN=POLR1C PE=2 SV=1	468.0	[0..2]	[348..5]
gi\|57094492 - gi\|57094492\|ref\|XP_532147.1\| PREDICTED: similar to DNA-directed RNA polymerase I 40 kDa polypeptide ...	468.0	[0..2]	[348..5]
gi\|34874462, gi\|... - gi\|56605738\|ref\|NP_001008331.1\| polymerase (RNA) I polypeptide C [Rattus norvegicus], gi\|55778316\|gb...	468.0	[0..2]	[348..5]
RPAC1_MOUSE - DNA-directed RNA polymerases I and III subunit RPAC1 OS=Mus musculus GN=Polr1c PE=1 SV=3	467.0	[0..2]	[348..5]
ENSPTRT00000033663 - null POLR1C - polymerase (RNA) I polypeptide C, 30kDa	465.0	[0..2]	[348..5]
gi\|68401640 - gi\|68401640\|ref\|XP_707981.1\| PREDICTED: similar to RNA polymerase 1-1 isoform 5 [Danio rerio]	462.0	[0..1]	[348..5]

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Predicted Domain #1

Region A:
Residues: [1-348]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAAVDRSRTE ISVLSDRVTD VGSVDFPGYY FDEDNIWDLD KFKKNLKVSI TSLDQETMVF  60
   61 EISGIDASIA NAFRRILIAE IPTLAFEFVY IINNTSIIQD EVLSHRIGLV PISADPDMFK 120
  121 WFQHPLPGQE ATHTDYDTVV FSLNKKCEFN KNAATDEKDP KRLYVNSEVY SGDLIWKPQG 180
  181 RQEERFADNP IRVVNPDIVV AKLRPGQEID LEAHAILGIG QDHAKFSPVA TASYRLLPTI 240
  241 HILSPIEGED AVKFQKCFPK GVIELEEGPD GKKQARVADV RKDTVSRECL RHPEFADKVQ 300
  301 LGRVRDHYLF SVESTGIMKP DVLFIKSIAV LKSKCLAVKS SLQNISSD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	83.30103
Match:	1i3qC
Description:	RPB3
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