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Protein Overview: PUB1

General Information:
Name(s) found: PUB1 / YNL016W [SGD]
Description(s) found:
Found 23 descriptions.
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  • Poly (A)+ RNA-binding protein, abundant mRNP-component protein that binds mRNA and is required for stability of many mRNAs; component of glucose deprivation induced stress granules, involved in P-body-dependent granule assembly [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 453 amino acids

    Gene Ontology:
    Cellular Component: nucleus [IDALink to PubMed article]
    cytoplasm [IDALink to PubMed article]
    heterogeneous nuclear ribonucleoprotein complex [IDALink to PubMed article]
    Biological Process: nuclear-transcribed mRNA catabolic process, nonsense-mediated decay [IDALink to PubMed article]
    regulation of mRNA stability [IMPLink to PubMed article]
    Molecular Function: nucleic acid binding [TASLink to PubMed article]
    mRNA binding [IDALink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSENNEEQHQ QQQQQQPVAV ETPSAVEAPA SADPSSEQSV AVEGNSEQAE DNQGENDPSV  60
   61 VPANAITGGR ETSDRVLYVG NLDKAITEDI LKQYFQVGGP IANIKIMIDK NNKNVNYAFV 120
  121 EYHQSHDANI ALQTLNGKQI ENNIVKINWA FQSQQSSSDD TFNLFVGDLN VNVDDETLRN 180
  181 AFKDFPSYLS GHVMWDMQTG SSRGYGFVSF TSQDDAQNAM DSMQGQDLNG RPLRINWAAK 240
  241 RDNNNNNNYQ QRRNYGNNNR GGFRQYNSNN NNNMNMGMNM NMNMNMNNSR GMPPSSMGMP 300
  301 IGAMPLPSQG QPQQSQTIGL PPQVNPQAVD HIIRSAPPRV TTAYIGNIPH FATEADLIPL 360
  361 FQNFGFILDF KHYPEKGCCF IKYDTHEQAA VCIVALANFP FQGRNLRTGW GKERSNFMPQ 420
  421 QQQQGGQPLI MNDQQQPVMS EQQQQQQQQQ QQQ

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) PUB1 SGN1
    View Details Gavin AC, et al. (2002) HCA4 IML1 LHP1 NAB3 NAB6 NAM7 NPL3 NRD1 NRP1 POL2 PUB1 SGN1 SMD3 SNF2 STO1 SWI1 TIF4631 TIF4632
    View Details Ho Y, et al. (2002) CLU1 FUN12 NPL3 PDI1 PUB1 SGN1 SPT2 TIF4631 TIF4632 YGR250C
    View Details Qiu et al. (2008) HRB1 PUB1

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run MLP2 #32 Asynchronous Prep-No Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #31 Asynchronous Prep (Protease cleavage) Keck JM, et al. (2011)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    NOT SHOWING SINGLE HITS. [ Show Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

    No yeast two-hybrid interactions found for this protein.

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data PUB1 Huh WK, et al. (2003)

    Protein Structure Data


    [What does the above image mean?]
    [View Top Sequence Alignments] [Show Ginzu Version Information]

    Domains predicted:

    #   Region(s) Method Confidence Match Description
    1 View Details [1..152] PSI-BLAST 261.211549 Poly(A)-binding protein
    2 View Details [153..275] PSI-BLAST 261.211549 Poly(A)-binding protein
    3 View Details [276..331] deduced N/A No confident structure predictions are available.
    4 View Details [332..453] PSI-BLAST 7.045757 No description for 1bnyA_ was found.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • RNA binding
    		•  6.73097473547076 bayes_pls_golite062009
  • mRNA binding
    		•  5.29759606920196 bayes_pls_golite062009
  • nucleic acid binding
    		•  4.92126426323641 bayes_pls_golite062009
    		• 4.08350076268185 bayes_pls_golite062009
  • binding
    		•  3.64400841800969 bayes_pls_golite062009
  • single-stranded RNA binding
    		•  2.93798024346416 bayes_pls_golite062009
  • structural molecule activity
    		•  2.78501986457503 bayes_pls_golite062009
  • poly-pyrimidine tract binding
    		•  2.47215943693079 bayes_pls_golite062009
  • transcription regulator activity
    		•  1.92450390013691 bayes_pls_golite062009
  • DNA binding
    		•  1.8021593476478 bayes_pls_golite062009
  • transcription factor activity
    		•  1.15127506309683 bayes_pls_golite062009
  • snRNA binding
    		•  1.12690941758278 bayes_pls_golite062009
  • protein binding
    		•  1.12215421354121 bayes_pls_golite062009
  • mRNA 3'-UTR binding
    		•  0.824614388276642 bayes_pls_golite062009
  • general RNA polymerase II transcription factor activity
    		•  0.425042944899091 bayes_pls_golite062009
  • hydrolase activity
    		•  0.389390547875764 bayes_pls_golite062009
  • sequence-specific DNA binding
    		•  0.383589644462932 bayes_pls_golite062009
  • translation regulator activity
    		•  0.38120065819101 bayes_pls_golite062009
  • translation factor activity, nucleic acid binding
    		•  0.128616879457381 bayes_pls_golite062009
  • snoRNA binding
    		•  0.0568636182001701 bayes_pls_golite062009
    2 No functions predicted.
    3 No functions predicted.
    4 No functions predicted.


    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


    Philius Transmembrane Prediction:

    Protein predicted to be: GLOBULAR (No transmembrane regions or signal peptide)
    Confidence of classification: 0.97

    Source: Reynolds et al. (2008)

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