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View Structure Prediction Details

Protein: PAP1
Organism: Saccharomyces cerevisiae
Length: 568 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 PAP1.

Description E-value Query
Range
Subject
Range
ENSPTRT00000012343 - null
PAPOLA - poly(A) polymerase alpha
0.0 [4..568] [17..528]
PAPS4_ARATH - Nuclear poly(A) polymerase 4 OS=Arabidopsis thaliana GN=PAPS4 PE=1 SV=1
0.0 [1..566] [15..566]
gi|190409824 - gi|190409824|gb|EDV13089.1| poly(A) polymerase [Saccharomyces cerevisiae RM11-1a]
gi|151941547 - gi|151941547|gb|EDN59910.1| poly(A) polymerase [Saccharomyces cerevisiae YJM789]
PAP1 - Poly(A) polymerase, one of three factors required for mRNA 3'-end polyadenylation, forms multiprotei...
PAP_YEAST - Poly(A) polymerase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PAP1 PE=1 SV=1
0.0 [1..568] [1..568]
PAPOA_BOVIN - Poly(A) polymerase alpha OS=Bos taurus GN=PAPOLA PE=1 SV=3
0.0 [4..568] [17..528]
gi|447739 - gi|447739|prf||1915304A nylB upstream ORF
0.0 [4..568] [17..528]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
0.0 [4..568] [17..528]
gi|120538567, gi... - gi|9910588|ref|NP_064327.1| poly(A) polymerase beta (testis specific) [Mus musculus], gi|5701744|dbj...
0.0 [3..568] [17..529]

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Predicted Domain #1
Region A:
Residues: [1-38]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSQKVFGIT GPVSTVGATA AENKLNDSLI QELKKEGS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [191-353]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TRVTDEILEL VPKPNVFRIA LRAIKLWAQR RAVYANIFGF PGGVAWAMLV ARICQLYPNA  60
   61 CSAVILNRFF IILSEWNWPQ PVILKPIEDG PLQVRVWNPK IYAQDRSHRM PVITPAYPSM 120
  121 CATHNITEST KKVILQEFVR GVQITNDIFS NKKSWANLFE KND

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 10166.0
Match: 1fa0A_
Description: Poly(A) polymerase, middle domain; Poly(A) polymerase N-terminal, catalytic domain; Poly(A) polymerase, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
polynucleotide adenylyltransferase activity 5.40967709450432 bayes_pls_golite062009
RNA binding 2.46555984694381 bayes_pls_golite062009
nucleotidyltransferase activity 2.12021443504286 bayes_pls_golite062009
nucleic acid binding 1.43322212500405 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 1.08480919674453 bayes_pls_golite062009
DNA binding 0.920001549206154 bayes_pls_golite062009
binding 0.888087430062829 bayes_pls_golite062009
catalytic activity 0.75232920999699 bayes_pls_golite062009
protein binding 0.516354942587518 bayes_pls_golite062009
transferase activity 0.432029324907561 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [39-190]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FETEQETANR VQVLKILQEL AQRFVYEVSK KKNMSDGMAR DAGGKIFTYG SYRLGVHGPG  60
   61 SDIDTLVVVP KHVTREDFFT VFDSLLRERK ELDEIAPVPD AFVPIIKIKF SGISIDLICA 120
  121 RLDQPQVPLS LTLSDKNLLR NLDEKDLRAL NG

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [354-568]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FFFRYKFYLE ITAYTRGSDE QHLKWSGLVE SKVRLLVMKL EVLAGIKIAH PFTKPFESSY  60
   61 CCPTEDDYEM IQDKYGSHKT ETALNALKLV TDENKEEESI KDAPKAYLST MYIGLDFNIE 120
  121 NKKEKVDIHI PCTEFVNLCR SFNEDYGDHK VFNLALRFVK GYDLPDEVFD ENEKRPSKKS 180
  181 KRKNLDARHE TVKRSKSDAA SGDNINGTTA AVDVN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 10166.0
Match: 1fa0A_
Description: Poly(A) polymerase, middle domain; Poly(A) polymerase N-terminal, catalytic domain; Poly(A) polymerase, C-terminal domain
Matching Structure (courtesy of the PDB):

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