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View Structure Prediction Details

Protein: PRP42
Organism: Saccharomyces cerevisiae
Length: 544 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 PRP42.

Description E-value Query
Range
Subject
Range
PRP42 - U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatri...
PRP42_YEAST - U1 small nuclear ribonucleoprotein component PRP42 OS=Saccharomyces cerevisiae (strain ATCC 204508 /...
0.0 [1..544] [1..544]
gi|28201783, gi|... - sp|Q9BZJ0|CRN1_HUMAN Crooked neck-like protein 1 (Crooked neck homolog) (hCrn) (CGI-201) (MSTP021), ...
1.0E-58 [11..452] [226..739]
gi|46101125, gi|... - gi|71022837|ref|XP_761648.1| hypothetical protein UM05501.1 [Ustilago maydis 521], ref|XP_403116.1| ...
gi|14279385 - gi|14279385|gb|AAK58576.1|AF268097_1 TPR-containing protein Mql1 [Ustilago maydis]
1.0E-51 [9..364] [163..522]
CRNL1_MOUSE - Crooked neck-like protein 1 OS=Mus musculus GN=Crnkl1 PE=1 SV=1
CRNL1_RAT - Crooked neck-like protein 1 OS=Rattus norvegicus GN=Crnkl1 PE=2 SV=1
4.0E-50 [11..452] [65..578]
CYC8_SCHPO - General transcriptional corepressor ssn6 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=s...
ssn6 - transcriptional corepressor Ssn6
5.0E-50 [10..387] [351..719]
SYF1_RAT - Pre-mRNA-splicing factor SYF1 OS=Rattus norvegicus GN=Xab2 PE=2 SV=1
2.0E-48 [20..469] [228..673]

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Predicted Domain #1
Region A:
Residues: [1-193]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDKYTALIHD ENFSTLTLNV SRYPKSLAYW EKLLNYIVKA SAPICKSTEP QLLKLIRCTY  60
   61 SSMLNEFPYL ENYYIDFALL EYKLGNVSMS HKIFQRGLQA FNQRSLLLWT SYLKFCNNVI 120
  121 SHQKQLFKKY ETAEEYVGLH FFSGEFWDLY LEQISSRCTS SKKYWNVLRK ILEIPLHSFS 180
  181 KFYALWLQRI DDI

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 16.045757
Match: 1fchA_
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 2.76684454218635 bayes_pls_golite062009
binding 2.12690485191789 bayes_pls_golite062009
transcription regulator activity 1.26149030245805 bayes_pls_golite062009
DNA binding 0.9531600253493 bayes_pls_golite062009
protein binding 0.931467806305272 bayes_pls_golite062009
nucleic acid binding 0.93037889019021 bayes_pls_golite062009
transcription factor activity 0.374364600772076 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [194-290]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDLKQLSQLT SKDELLKKLK IDINYSGRKG PYLQDAKKKL KKITKEMYMV VQYQVLEIYS  60
   61 IFESKIYINY YTSPETLVSS DEIETWIKYL DYTITLQ

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 16.045757
Match: 1fchA_
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [291-409]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TDSLTHLNFQ RALLPLAHYD LVWIKYSKWL INSKNDLLGA KNVLLMGLKF SLKKTEIIKL  60
   61 LYSVICKLNE YVLLRNLLEK IESSYSDNVE NVDDFEIFWD YLQFKTFCQN SLYSSRYSD

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 16.045757
Match: 1fchA_
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [410-544]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SQSNGLLNKE LFDKVWKRLS CKEKKSGQEI LLNNLVQFYS KDTVEFVEKN IFQKIIEFGW  60
   61 EYYLQNGMFW NCYCRLIYFD TSRSYLDKRQ YIVRKIWPQI DKKFAQSVLP SLTEFCESYF 120
  121 PEEMDTLEEM FTEEP

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.


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