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Protein Overview: DOA4

General Information:
Name(s) found: DOA4 / YDR069C [SGD]
Description(s) found:
Found 33 descriptions.
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  • Ubiquitin isopeptidase, required for recycling ubiquitin from proteasome-bound ubiquitinated intermediates, acts at the late endosome/prevacuolar compartment to recover ubiquitin from ubiquitinated membrane proteins en route to the vacuole [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 926 amino acids

    Gene Ontology:
    Cellular Component: membrane fraction [IDALink to PubMed article]
    endosome [IDALink to PubMed article]
    mitochondrion [IDALink to PubMed articleLink to PubMed article]
    proteasome complex [IPILink to PubMed article]
    Biological Process: protein deubiquitination [TASLink to PubMed article]
    telomere maintenance [IMPLink to PubMed article]
    regulation of DNA replication [IMPLink to PubMed article]
    endocytosis [IMPLink to PubMed article]
    ubiquitin-dependent protein catabolic process [IMPLink to PubMed article]
    Molecular Function: ubiquitin-specific protease activity [TASLink to PubMed article]
    endopeptidase activity [IGILink to PubMed article][IPILink to PubMed article]
    ubiquitin thiolesterase activity [IDALink to PubMed article][IMPLink to PubMed article]
    hydrolase activity [TASLink to PubMed articleLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEQNIISTIR DECIRHRSKY LTIAQLTAIA EAKINEFIIT GKAKDQDLSS LLDKCIDILS  60
   61 IYKKNSKDIK NIISCKNKGA MISSNSVMII QLNYVYYKVI HIIVTTNIPH LSEFAKIKLH 120
  121 KSTSDEGNGN NNNNEFQLMN IYNTLLETLL KDENIAKIKS FIKSSIKQTK LNHEQEECNL 180
  181 MRTGSYITSN QLNSLISSSA NSASSQMEIL LIDIRSRLEF NKSHIDTKNI ICLEPISFKM 240
  241 SYSDHDLEKK SLITSPNSEI KMFQSRNLFK FIILYTDANE YNVKQQSVLL DILVNHSFEK 300
  301 PISDDFTKIF ILESGFPGWL KSNYGRQVSS SFPSNNNIKD DSVYINGNTS GLSLQHLPKM 360
  361 SPSIRHSMDD SMKEMLVAPT PLNHLQQQQQ QQSDNDHVLK RSSSFKKLFS NYTSPNPKNS 420
  421 NSNLYSISSL SISSSPSPLP LHSPDPVKGN SLPINYPETP HLWKNSETDF MTNQREQLNH 480
  481 NSFAHIAPIN TKAITSPSRT ATPKLQRFPQ TISMNLNMNS NGHSSATSTI QPSCLSLSNN 540
  541 DSLDHTDVTP TSSHNYDLDF AVGLENLGNS CYMNCIIQCI LGTHELTQIF LDDSYAKHIN 600
  601 INSKLGSKGI LAKYFARLVH MMYKEQVDGS KKISISPIKF KLACGSVNSL FKTASQQDCQ 660
  661 EFCQFLLDGL HEDLNQCGSN PPLKELSQEA EARREKLSLR IASSIEWERF LTTDFSVIVD 720
  721 LFQGQYASRL KCKVCSHTST TYQPFTVLSI PIPKKNSRNN ITIEDCFREF TKCENLEVDE 780
  781 QWLCPHCEKR QPSTKQLTIT RLPRNLIVHL KRFDNLLNKN NDFVIYPFLL DLTPFWANDF 840
  841 DGVFPPGVND DELPIRGQIP PFKYELYGVA CHFGTLYGGH YTAYVKKGLK KGWLYFDDTK 900
  901 YKPVKNKADA INSNAYVLFY HRVYGV

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details (MIPS) Mewes HW, et al. (2004) DOA4 RPN4 YTA7
    View Details Krogan NJ, et al. (2006) AVT1 DOA4 MPC54 YEF1
    View Details Gavin AC, et al. (2006) DOA4 DUR1,2
    View Details Gavin AC, et al. (2002) APM1 BRE2 CYM1 DOA4 DUR1,2 HSP42 LAT1 LPD1 PDA1 PDB1 PDX1 PRP46 PRX1 RPN11 RSM7 SDC1 SET1 SPP1 SSZ1 SWD1 SWD3 TCM62
    View Details Qiu et al. (2008) DOA4 UBP6

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run RPA135 No Comments Schneider, DA, et al. (2006)
    View Run MLP2 #31 Asynchronous Prep (Protease cleavage) Keck JM, et al. (2011)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    SHOWING SINGLE HITS. [ Hide Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

      BAIT PREY HITS PUBLICATION
    View Screen RPN5 DOA4 1 Unpublished Fields Lab Data
    View Screen PSF1 DOA4 1 Hazbun TR, et al. (2003)
    View Screen SWC4 DOA4 1 Hazbun TR, et al. (2003)

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data DOA4 and SNF7 Huh WK, et al. (2003)
    View Data DOA4 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..184] deduced N/A No confident structure predictions are available.
    2 View Details [185..335] PSI-BLAST 14.0 Adipocyte-transcription factor FREAC-11 (s12, fkh-14)
    3 View Details [336..561] ORFEUS 7.33 No description for 1ldvA was found.
    4 View Details [562..753] MSA 3.22999 View MSA. No confident structure predictions are available.
    5 View Details [754..926] MSA 12.214985 View MSA. No confident structure predictions are available.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2 No functions predicted.
    3
    Term Confidence Notes
  • transcription regulator activity
    		•  5.29569167054278 bayes_pls_golite062009
  • DNA binding
    		•  4.90756541371868 bayes_pls_golite062009
  • nucleic acid binding
    		•  4.69183445184264 bayes_pls_golite062009
  • transcription factor activity
    		•  4.14166958134441 bayes_pls_golite062009
  • binding
    		•  3.52874320222492 bayes_pls_golite062009
  • sequence-specific DNA binding
    		•  2.48053910222825 bayes_pls_golite062009
  • hydrolase activity
    		•  2.30467124306022 bayes_pls_golite062009
  • transcription activator activity
    		•  2.29614125067822 bayes_pls_golite062009
  • transcription repressor activity
    		•  2.19033875364989 bayes_pls_golite062009
  • RNA polymerase II transcription factor activity
    		•  1.48055533524841 bayes_pls_golite062009
  • small conjugating protein ligase activity
    		•  1.27763700765562 bayes_pls_golite062009
  • ubiquitin-protein ligase activity
    		•  1.12147035668008 bayes_pls_golite062009
  • transcription factor binding
    		•  0.83705247708153 bayes_pls_golite062009
  • acid-amino acid ligase activity
    		•  0.754042916649094 bayes_pls_golite062009
  • protein binding
    		•  0.753698599635855 bayes_pls_golite062009
  • structure-specific DNA binding
    		•  0.379762425417023 bayes_pls_golite062009
  • structural molecule activity
    		•  0.272316540117209 bayes_pls_golite062009
  • signal transducer activity
    		•  0.120341737642948 bayes_pls_golite062009
  • molecular transducer activity
    		•  0.120341737642948 bayes_pls_golite062009
  • structural constituent of ribosome
    		•  0.0912115683429473 bayes_pls_golite062009
    4 No functions predicted.
    5 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: 0.94

    Source: Reynolds et al. (2008)

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