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View Structure Prediction Details

Protein: SNP1
Organism: Saccharomyces cerevisiae
Length: 300 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 SNP1.

Description E-value Query
Range
Subject
Range
PABP1_RAT - Polyadenylate-binding protein 1 OS=Rattus norvegicus GN=Pabpc1 PE=1 SV=1
2.0E-65 [2..290] [105..387]
PABP1_MOUSE - Polyadenylate-binding protein 1 OS=Mus musculus GN=Pabpc1 PE=1 SV=2
2.0E-65 [2..290] [105..387]
PABP1_BOVIN - Polyadenylate-binding protein 1 OS=Bos taurus GN=PABPC1 PE=2 SV=1
gi|109087089 - gi|109087089|ref|XP_001098239.1| PREDICTED: poly(A) binding protein, cytoplasmic 1 isoform 2 [Macaca...
gi|123993665, gi... - gi|168278070|dbj|BAG11013.1| polyadenylate-binding protein 1 [synthetic construct], gi|123999981|gb|...
gi|194036975 - gi|194036975|ref|XP_001927782.1| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-bind...
PABPC1 - poly(A) binding protein, cytoplasmic 1
gi|73974130, gi|... - gi|73974178|ref|XP_857695.1| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-binding ...
2.0E-65 [2..290] [105..387]
gi|19526272 - gi|19526272|gb|AAL89666.1|AF411956_7 polyA-binding protein [Takifugu rubripes]
8.0E-63 [2..290] [105..392]
gi|2665654 - gi|2665654|gb|AAB88449.1| polyadenylate binding protein [Petromyzon marinus]
1.0E-62 [2..293] [105..396]

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Predicted Domain #1
Region A:
Residues: [1-90]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNYNLSKYPD DVSRLFKPRP PLSYKRPTDY PYAKRQTNPN ITGVANLLST SLKHYMEEFP  60
   61 EGSPNNHLQR YEDIKLSKIK NAQLLDRRLQ 

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 99.9691
Match: 2up1A_
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 6.73097473547076 bayes_pls_golite062009
6.62953239642182 bayes_pls_golite062009
mRNA binding 5.29759606920196 bayes_pls_golite062009
U1 snRNA binding 4.22094068431436 bayes_pls_golite062009
snRNA binding 4.06596327298973 bayes_pls_golite062009
nucleic acid binding 3.81920018903278 bayes_pls_golite062009
poly-pyrimidine tract binding 3.11990160533699 bayes_pls_golite062009
binding 3.05116833253954 bayes_pls_golite062009
single-stranded RNA binding 2.93798024346416 bayes_pls_golite062009
structural molecule activity 1.29928829870122 bayes_pls_golite062009
transcription regulator activity 1.07788694919471 bayes_pls_golite062009
DNA binding 0.978604858165557 bayes_pls_golite062009
protein binding 0.872515134876947 bayes_pls_golite062009
ligase activity 0.633198446266208 bayes_pls_golite062009
mRNA 3'-UTR binding 0.591700155096213 bayes_pls_golite062009
transcription factor activity 0.234742017105535 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [91-187]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NWNPNVDPHI KDTDPYRTIF IGRLPYDLDE IELQKYFVKF GEIEKIRIVK DKITQKSKGY  60
   61 AFIVFKDPIS SKMAFKEIGV HRGIQIKDRI CIVDIER

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 99.9691
Match: 2up1A_
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [188-300]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GRTVKYFKPR RLGGGLGGRG YSNRDSRLPG RFASASTSNP AERNYAPRLP RRETSSSAYS  60
   61 ADRYGSSTLD ARYRGNRPLL SAATPTAAVT SVYKSRNSRT RESQPAPKEA PDY

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 80.30103
Match: 1fxlA_
Description: Hu antigen D (Hud)
Matching Structure (courtesy of the PDB):

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