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Protein Overview: VPS54

General Information:
Name(s) found: VPS54 / YDR027C [SGD]
Description(s) found:
Found 31 descriptions.
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  • Component of the GARP (Golgi-associated retrograde protein) complex, Vps51p-Vps52p-Vps53p-Vps54p, which is required for the recycling of proteins from endosomes to the late Golgi; potentially phosphorylated by Cdc28p [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 889 amino acids

    Gene Ontology:
    Cellular Component: GARP complex [IPILink to PubMed article]
    mitochondrion [IDALink to PubMed articleLink to PubMed article]
    Golgi apparatus [IDALink to PubMed article][TASLink to PubMed article]
    Biological Process: telomere maintenance [IMPLink to PubMed article]
    retrograde transport, endosome to Golgi [IDALink to PubMed article]
    Golgi to vacuole transport [IMPLink to PubMed article]
    Molecular Function: molecular_function [ND]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSISETPHNK SQGLQKAAGR PKIVVPEGSP SRNSDSGSFT IEGDTSLNDD LLSISGSVTP  60
   61 RARRSSRLSL DSITPRRSFD SRTLSVANSR SFGFENETHS GSMDFSPLGN NSIYEIVMNT 120
  121 RRKNWLNYPT VADIPQVSLS KNDLDDHWKT HVIEYVKNIK SDYQIFQSTN NIRNMNQMEQ 180
  181 LKELREGENM HEESFEANLR QGDAELINSI PDFYFSDKFQ LDNPRTFHKV LDAIDLFLTK 240
  241 LDMKRQAERD EAFSELRDRL NDFLDIVETL LVTEISKSSH KFFHALSEVD NIQKRALDTM 300
  301 SELKELAQNI KTIDAENIRK KISHLEMIFK RKNVEKLEQG LLQAKLVLNK TDECKSMYEE 360
  361 NKLDNCLELI KSIDYLIKGD DSINEDVQSW TRCWPYKLSN LRTIPALSAT REFLTNMKIE 420
  421 IGGKFSLQLS ILLIDDLRSF CKSIKPKETL HRIQTGSNDK KQTIFTDNFS SKITELIVRL 480
  481 NRCEELTSAF DLYREKSITE LKSIIKIYLP TENAHADNNH DEKHLNNGST SGSKLSRLIK 540
  541 EQTPAEFQSM LVNIFTHALE ALRRLYGHQK LLLDISLNEL ASVKSPNENQ HNMITQLDIR 600
  601 TGINEIIRII QLRTGKIIAV RRELNLSLRY DYFLKFYAIC VIFIQECEVL SGEFLTKYLS 660
  661 NVLASQIKHY ANAQSSKNYR NIKKKIDAEE WIPYIVDSSI QSDVNDIVSS IDIDPLSWTT 720
  721 ILDMVGGSHD CENGRSEDKE KDEGNETYQG HRKSVVVGDK TFVASSSLLA TIEVIKELMV 780
  781 LSINLPSIYL SNFEKLCYDA LQYYNSSAMA SVTQPGNSLL KTGRNLSIMG ESLDCLAEFV 840
  841 IIVQRFYQRL SNSNRDFEPF DASHYTTLLG QFQASSNKIY MANAPPPPV

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) VPS52 VPS53 VPS54
    View Details Krogan NJ, et al. (2006) TOR1 VPS52 VPS53 VPS54
    View Details Gavin AC, et al. (2006) KAR2 VPS52 VPS53 VPS54
    View Details Gavin AC, et al. (2002) VPS51 VPS52 VPS53 VPS54
    View Details Qiu et al. (2008) VPS51 VPS52 VPS53 VPS54

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run MLP2 #14 Mitotic Prep2-TiO2 Flowthrough Keck JM, et al. (2011)
    View Run MLP2 #12 Mitotic Prep1-TiO2 Flowthrough 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 VPS54 and COP1 Huh WK, et al. (2003)
    View Data VPS54 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..41]
    [98..245]    		 ORFEUS 7.08 Botulinum neurotoxin
    2 View Details [42..97] ORFEUS 7.08 Botulinum neurotoxin
    3 View Details [246..417] ORFEUS 8.47 alpha-actinin
    4 View Details [418..556] ORFEUS 8.47 alpha-actinin
    5 View Details [557..693] ORFEUS 8.47 alpha-actinin
    6 View Details [694..889] MSA 1.008939 View MSA. Confident ab initio structure predictions are available.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2
    Term Confidence Notes
  • binding
    		•  2.3468119246528 bayes_pls_golite062009
  • cytoskeletal protein binding
    		•  2.28760768499625 bayes_pls_golite062009
  • actin binding
    		•  2.06460396235438 bayes_pls_golite062009
  • protein binding
    		•  1.84956862293123 bayes_pls_golite062009
  • syntaxin binding
    		•  1.83513067528946 bayes_pls_golite062009
  • SNARE binding
    		•  1.71642476140333 bayes_pls_golite062009
  • actin filament binding
    		•  1.58451318432641 bayes_pls_golite062009
  • integrin binding
    		•  1.00016212897166 bayes_pls_golite062009
  • protein complex binding
    		•  0.895042950779324 bayes_pls_golite062009
  • receptor binding
    		•  0.497776738275844 bayes_pls_golite062009
    3 No functions predicted.
    4 No functions predicted.
    5 No functions predicted.
    6 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: 0.99

    Source: Reynolds et al. (2008)

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