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View Structure Prediction Details

Protein: RPC40
Organism: Saccharomyces cerevisiae
Length: 335 amino acids
Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076



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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
RPC40 - RNA polymerase subunit AC40, common to RNA polymerase I and III
gi|151942887 - gi|151942887|gb|EDN61233.1| AC40 [Saccharomyces cerevisiae YJM789]
RPAC1_YEAST - DNA-directed RNA polymerases I and III subunit RPAC1 OS=Saccharomyces cerevisiae (strain ATCC 204508...
0.0 [1..335] [1..335]
gi|627869, gi|57... - gi|6677787|ref|NP_033111.1| RNA polymerase 1-1 [Mus musculus], gi|627869|pir||A55082 DNA-directed RN...
0.0 [1..330] [19..347]
ENSPTRT00000033663 - null
POLR1C - polymerase (RNA) I polypeptide C, 30kDa
0.0 [1..330] [10..338]
gi|68401632, gi|... - gi|68401632|ref|XP_685461.1| PREDICTED: similar to RNA polymerase 1-1 isoform 1 [Danio rerio], gi|41...
0.0 [1..325] [11..334]
rpc40 - DNA-directed RNA polymerase I and III subunit Rpc40
RPAC1_SCHPO - DNA-directed RNA polymerases I and III subunit RPAC1 OS=Schizosaccharomyces pombe (strain 972 / ATCC...
0.0 [2..330] [8..340]
gi|1914859 - gi|1914859|emb|CAA71570.1| homologous to 40kD subunit of RNA-polymerase I and III [Cricetulus griseu...
0.0 [2..330] [7..339]
gi|32422577, gi|... - gi|32422577|ref|XP_331732.1| hypothetical protein [Neurospora crassa], gi|28927476|gb|EAA36428.1| DN...
gi|85119573 - gi|85119573|ref|XP_965664.1| DNA-directed RNA polymerases I and III 40 kDa polypeptide [Neurospora c...
0.0 [2..329] [25..370]

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Predicted Domain #1
Region A:
Residues: [1-229]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNIVGIEYN RVTNTTSTDF PGFSKDAENE WNVEKFKKDF EVNISSLDAR EANFDLINID  60
   61 TSIANAFRRI MISEVPSVAA EYVYFFNNTS VIQDEVLAHR IGLVPLKVDP DMLTWVDSNL 120
  121 PDDEKFTDEN TIVLSLNVKC TRNPDAPKGS TDPKELYNNA HVYARDLKFE PQGRQSTTFA 180
  181 DCPVVPADPD ILLAKLRPGQ EISLKAHCIL GIGGDHAKFS PVSTASYRL

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [295-335]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RNHFIFNVES AGAMTPEEIF FKSVRILKNK AEYLKNCPIT Q

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 228.211549
Match: 1i3qC_
Description: RPB3
Matching Structure (courtesy of the PDB):

Predicted Domain #2
Region A:
Residues: [230-294]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPQINILQPI KGESARRFQK CFPPGVIGID EGSDEAYVKD ARKDTVSREV LRYEEFADKV  60
   61 KLGRV

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 228.211549
Match: 1i3qC_
Description: RPB3
Matching Structure (courtesy of the PDB):

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle