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View Structure Prediction Details

Protein: PUF4
Organism: Saccharomyces cerevisiae
Length: 888 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 PUF4.

Description E-value Query
Range
Subject
Range
gi|4261598, gi|2... - gi|4261598|gb|AAD13898.1|S58126_1111111 Unknown [Saccharomyces cerevisiae], gi|234327|gb|AAB19616.1|...
661.0 [0..1] [888..1]
PUM3_ARATH - Pumilio homolog 3 OS=Arabidopsis thaliana GN=APUM3 PE=1 SV=1
543.0 [0..71] [884..103]
PUM2_MOUSE - Pumilio homolog 2 OS=Mus musculus GN=Pum2 PE=1 SV=2
496.0 [0..3] [884..174]
gi|114576341, gi... - gi|114576341|ref|XP_001140758.1| PREDICTED: pumilio homolog 2 isoform 11 [Pan troglodytes], gi|11457...
494.0 [0..3] [884..175]
gi|109102137, gi... - gi|109102137|ref|XP_001095963.1| PREDICTED: similar to pumilio homolog 2 isoform 4 [Macaca mulatta],...
494.0 [0..3] [884..175]

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Predicted Domain #1
Region A:
Residues: [1-89]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSTKGLKEEI DDVPSVDPVV SETVNSALEQ LQLDDPEENA TSNAFANKVS QDSQFANGPP  60
   61 SQMFPHPQMM GGMGFMPYSQ MMQVPHNPC

[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.

Predicted Domain #2
Region A:
Residues: [90-216]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PFFPPPDFND PTAPLSSSPL NAGGPPMLFK NDSLPFQMLS SGAAVATQGG QNLNPLINDN  60
   61 SMKVLPIASA DPLWTHSNVP GSASVAIEET TATLQESLPS KGRESNNKAS SFRRQTFHAL 120
  121 SPTDLIN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 3.09691
Match: 1deqA
Description: Fibrinogen
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [217-446]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AANNVTLSKD FQSDMQNFSK AKKPSVGANN TAKTRTQSIS FDNTPSSTSF IPPTNSVSEK  60
   61 LSDFKIETSK EDLINKTAPA KKESPTTYGA AYPYGGPLLQ PNPIMPGHPH NISSPIYGIR 120
  121 SPFPNSYEMG AQFQPFSPIL NPTSHSLNAN SPIPLTQSPI HLAPVLNPSS NSVAFSDMKN 180
  181 DGGKPTTDND KAGPNVRMDL INPNLGPSMQ PFHILPPQQN TPPPPWLYST 

[Run NCBI BLAST on this sequence.]

Detection Method: ab initio
Confidence: 11.96
Match:
Description: No description for 1deqA was found.

Predicted Domain #4
Region A:
Residues: [447-521]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PPPFNAMVPP HLLAQNHMPL MNSANNKHHG RNNNSMSSHN DNDNIGNSNY NNKDTGRSNV  60
   61 GKMKNMKNSY HGYYN

[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.

Predicted Domain #5
Region A:
Residues: [522-673]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NNNNNNNNNN NNNNSNATNS NSAEKQRKIE ESSRFADAVL DQYIGSIHSL CKDQHGCRFL  60
   61 QKQLDILGSK AADAIFEETK DYTVELMTDS FGNYLIQKLL EEVTTEQRIV LTKISSPHFV 120
  121 EISLNPHGTR ALQKLIECIK TDEEAQIVVD SL

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 624.228787
Match: 1ib2A
Description: Pumilio 1
Matching Structure (courtesy of the PDB):

Predicted Domain #6
Region A:
Residues: [674-776]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RPYTVQLSKD LNGNHVIQKC LQRLKPENFQ FIFDAISDSC IDIATHRHGC CVLQRCLDHG  60
   61 TTEQCDNLCD KLLALVDKLT LDPFGNYVVQ YIITKEAEKN KYD

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 624.228787
Match: 1ib2A
Description: Pumilio 1
Matching Structure (courtesy of the PDB):

Predicted Domain #7
Region A:
Residues: [777-888]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YTHKIVHLLK PRAIELSIHK FGSNVIEKIL KTAIVSEPMI LEILNNGGET GIQSLLNDSY  60
   61 GNYVLQTALD ISHKQNDYLY KRLSEIVAPL LVGPIRNTPH GKRIIGMLHL DS

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 624.228787
Match: 1ib2A
Description: Pumilio 1
Matching Structure (courtesy of the PDB):

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