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View Structure Prediction Details

Protein: RNP1
Organism: Saccharomyces cerevisiae
Length: 249 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 RNP1.

Description E-value Query
Range		 Subject
Range
gi|2665654 - gi|2665654|gb|AAB88449.1| polyadenylate binding protein [Petromyzon marinus]
 2.0E-65 [2..245] [154..385]
PABPC4 - poly(A) binding protein, cytoplasmic 4 (inducible form)
 5.0E-65 [2..248] [154..385]
PABP1_MOUSE - Polyadenylate-binding protein 1 OS=Mus musculus GN=Pabpc1 PE=1 SV=2
 7.0E-65 [2..248] [154..385]
PABP1_RAT - Polyadenylate-binding protein 1 OS=Rattus norvegicus GN=Pabpc1 PE=1 SV=1
 9.0E-65 [2..248] [154..385]
gi|19526272 - gi|19526272|gb|AAL89666.1|AF411956_7 polyA-binding protein [Takifugu rubripes]
 3.0E-64 [2..248] [154..385]
gi|13560783 - gi|13560783|gb|AAK30205.1|AF349964_1 poly(A)-binding protein [Daucus carota]
 5.0E-64 [2..248] [184..416]
gi|13430610 - gi|13430610|gb|AAK25927.1|AF360217_1 putative poly(A) binding protein [Arabidopsis thaliana]
 1.0E-63 [2..248] [190..422]

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Predicted Domain #1
Region A:
Residues: [1-119] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLIEEIEFYN VNGKKTTTVV PENTKIKKRV LNDRRTLYVG NLPKNCRKQD LRDLFEPNYG  60
   61 KITINMLKKK PLKKPLKRFA FIEFQEGVNL KKVKEKMNGK IFMNEKIVIE NILTKEEKS

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 56.09691
Match: 1l3kA_
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 3.21855128520939 bayes_pls_golite062009
binding 2.3703087647328 bayes_pls_golite062009
nucleic acid binding 1.47284776517711 bayes_pls_golite062009
protein binding 0.89093640300829 bayes_pls_golite062009
mRNA binding 0.0462802122373264 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [120-249] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FEKNQKSNKK TAPDLKPLST NTLYVKNIPM KSTNEDLAKI FGVDPKNINF VRRELVDLRT  60
   61 NKVFFSDEFH TGEAFIKFDN LGTGDSIQKK CREFKGRKAS NGRVLLVKIA SAKKNEQKQE 120
  121 GGDNTKIKQN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 56.09691
Match: 1l3kA_
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):
YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle