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View Structure Prediction Details

Protein: PIN4
Organism: Saccharomyces cerevisiae
Length: 668 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 PIN4.

Description E-value Query
Range		 Subject
Range
PIN4 - Protein involved in G2/M phase progression and response to DNA damage, interacts with Rad53p; contai...
PIN4_YEAST - RNA-binding protein PIN4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PIN4 PE=1 SV=1
 0.0 [1..668] [1..668]
gi|19526272 - gi|19526272|gb|AAL89666.1|AF411956_7 polyA-binding protein [Takifugu rubripes]
 0.0 [1..529] [26..545]
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 ...
 0.0 [1..529] [26..561]
PABP1_MOUSE - Polyadenylate-binding protein 1 OS=Mus musculus GN=Pabpc1 PE=1 SV=2
 0.0 [1..529] [26..561]
PABP1_RAT - Polyadenylate-binding protein 1 OS=Rattus norvegicus GN=Pabpc1 PE=1 SV=1
 0.0 [1..529] [26..561]
gi|64970 - gi|64970|emb|CAA40721.1| polyA binding protein [Xenopus laevis]
 0.0 [1..529] [26..559]

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Predicted Domain #1
Region A:
Residues: [1-74] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 METSSFENAP PAAINDAQDN NINTETNDQE TNQQSIETRD AIDKENGVQT ETGENSAKNA  60
   61 EQNVSSTNLN NAPT

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 47.221849
Match: 1cvjA_
Description: Poly(A)-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
nucleic acid binding 3.64594243387558 bayes_pls_golite062009
binding 3.00411894202318 bayes_pls_golite062009
mRNA binding 2.76744192669109 bayes_pls_golite062009
RNA binding 2.41328743949172 bayes_pls_golite062009
protein binding 1.12215421354121 bayes_pls_golite062009
transcription regulator activity 0.737458867828906 bayes_pls_golite062009
DNA binding 0.691258294213766 bayes_pls_golite062009
mRNA 3'-UTR binding 0.599389001184667 bayes_pls_golite062009
translation regulator activity 0.38120065819101 bayes_pls_golite062009
translation factor activity, nucleic acid binding 0.128616879457381 bayes_pls_golite062009
structural molecule activity 0.0829058000493267 bayes_pls_golite062009
structure-specific DNA binding 0.0666589824195664 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [75-164] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NGALDDDVIP NAIVIKNIPF AIKKEQLLDI IEEMDLPLPY AFNYHFDNGI FRGLAFANFT  60
   61 TPEETTQVIT SLNGKEISGR KLKVEYKKML

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 57.0
Match: 1up1__
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
nucleic acid binding 3.64594243387558 bayes_pls_golite062009
binding 3.00411894202318 bayes_pls_golite062009
mRNA binding 2.76744192669109 bayes_pls_golite062009
RNA binding 2.41328743949172 bayes_pls_golite062009
protein binding 1.12215421354121 bayes_pls_golite062009
transcription regulator activity 0.737458867828906 bayes_pls_golite062009
DNA binding 0.691258294213766 bayes_pls_golite062009
mRNA 3'-UTR binding 0.599389001184667 bayes_pls_golite062009
translation regulator activity 0.38120065819101 bayes_pls_golite062009
translation factor activity, nucleic acid binding 0.128616879457381 bayes_pls_golite062009
structural molecule activity 0.0829058000493267 bayes_pls_golite062009
structure-specific DNA binding 0.0666589824195664 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [165-300] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PQAERERIER EKREKRGQLE EQHRSSSNLS LDSLSKMSGS GNNNTSNNQL FSTLMNGINA  60
   61 NSMMNSPMNN TINNNSSNNN NSGNIILNQP SLSAQHTSSS LYQTNVNNQA QMSTERFYAP 120
  121 LPSTSTLPLP PQQLDF

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 57.0
Match: 1up1__
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
binding 1.45278097493666 bayes_pls_golite062009
nucleic acid binding 1.29585787691257 bayes_pls_golite062009
DNA binding 1.21862098093327 bayes_pls_golite062009
transcription regulator activity 1.06027197080527 bayes_pls_golite062009
protein binding 0.741098311996669 bayes_pls_golite062009
catalytic activity 0.307971467423079 bayes_pls_golite062009
structure-specific DNA binding 0.0146459886075777 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [301-443] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NDPDTLEIYS QLLLFKDREK YYYELAYPMG ISASHKRIIN VLCSYLGLVE VYDPRFIIIR  60
   61 RKILDHANLQ SHLQQQGQMT SAHPLQPNST GGSMNRSQSY TSLLQAHAAA AANSISNQAV 120
  121 NNSSNSNTIN SNNGNGNNVI INN

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #5
Region A:
Residues: [444-530] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NSASSTPKIS SQGQFSMQPT LTSPKMNIHH SSQYNSADQP QQPQPQTQQN VQSAAQQQQS  60
   61 FLRQQATLTP SSRIPSGYSA NHYQINS

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 8.522879
Match: 1g9lA_
Description: poly(A) binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
mRNA binding 2.78281658065802 bayes_pls_golite062009
nucleic acid binding 2.51377464669599 bayes_pls_golite062009
poly(A) RNA binding 2.40208706397043 bayes_pls_golite062009
poly-purine tract binding 2.34978214792168 bayes_pls_golite062009
binding 2.12178506555766 bayes_pls_golite062009
RNA binding 1.38020034067888 bayes_pls_golite062009
single-stranded RNA binding 1.00503950757483 bayes_pls_golite062009
protein binding 0.856075580719879 bayes_pls_golite062009
ligase activity 0.38737123012383 bayes_pls_golite062009
catalytic activity 0.287695754348243 bayes_pls_golite062009
small conjugating protein ligase activity 0.109419310631115 bayes_pls_golite062009
ubiquitin-protein ligase activity 0.0911314408939872 bayes_pls_golite062009
eukaryotic initiation factor 4G binding 0.054315640496152 bayes_pls_golite062009

Predicted Domain #6
Region A:
Residues: [531-668] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VNPLLRNSQI SPPNSQIPIN SQTLSQAQPP AQSQTQQRVP VAYQNASLSS QQLYNLNGPS  60
   61 SANSQSQLLP QHTNGSVHSN FSYQSYHDES MLSAHNLNSA DLIYKSLSHS GLDDGLEQGL 120
  121 NRSLSGLDLQ NQNKKNLW

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

Shown below is our most confident 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