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Q03465

- RPN4_YEAST

UniProt

Q03465 - RPN4_YEAST

Protein

Protein RPN4

Gene

RPN4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 126 (01 Oct 2014)
      Sequence version 1 (01 Oct 1993)
      Previous versions | rss
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    Functioni

    Acts as a transcriptional activator of a number of genes encoding proteasomal subunits. Binds to a PACE (proteasome-associated control element) DNA sequence 5'-GGTGGCAAA-3'. Its expression is in turn regulated by the 26S proteasome, thereby providing a negative feedback control mechanism. Required for normal growth at low temperatures.2 Publications

    GO - Molecular functioni

    1. metal ion binding Source: InterPro
    2. protein binding Source: IntAct
    3. RNA polymerase II core promoter proximal region sequence-specific DNA binding Source: SGD
    4. RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: SGD

    GO - Biological processi

    1. negative regulation of transcription from RNA polymerase II promoter Source: SGD
    2. positive regulation of proteasomal ubiquitin-dependent protein catabolic process Source: SGD
    3. positive regulation of transcription from RNA polymerase II promoter Source: SGD
    4. positive regulation of transcription from RNA polymerase II promoter in response to stress Source: SGD
    5. regulation of DNA repair Source: SGD

    Keywords - Molecular functioni

    Activator

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-29449-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Protein RPN4
    Alternative name(s):
    Nuclear protein SON1
    Ubiquitin fusion degradation protein 5
    Gene namesi
    Name:RPN4
    Synonyms:SON1, UFD5
    Ordered Locus Names:YDL020C
    ORF Names:D2840
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome IV

    Organism-specific databases

    CYGDiYDL020c.
    SGDiS000002178. RPN4.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: SGD

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Disruption phenotypei

    Mutants grow slowly at low temperatures and show partial mislocalization of nuclear antigens.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 531531Protein RPN4PRO_0000173871Add
    BLAST

    Post-translational modificationi

    Ubiquitinated by UBR2 in the presence of UBC2; which leads to proteasomal degradation.2 Publications

    Keywords - PTMi

    Ubl conjugation

    Expressioni

    Gene expression databases

    GenevestigatoriQ03465.

    Interactioni

    Subunit structurei

    Probably interacts with SEC63. Interacts with MUB1, UBR2 and RPN2.2 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    MUB1Q031623EBI-15931,EBI-28207
    UBR2Q079632EBI-15931,EBI-34338

    Protein-protein interaction databases

    BioGridi32035. 515 interactions.
    DIPiDIP-5779N.
    IntActiQ03465. 5 interactions.
    MINTiMINT-583572.
    STRINGi4932.YDL020C.

    Structurei

    3D structure databases

    ProteinModelPortaliQ03465.
    SMRiQ03465. Positions 426-508.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi382 – 39817Nuclear localization signalSequence AnalysisAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi211 – 22919Asp/Glu-rich (acidic)Add
    BLAST
    Compositional biasi300 – 31516Asp/Glu-rich (acidic)Add
    BLAST

    Phylogenomic databases

    eggNOGiNOG70197.
    HOGENOMiHOG000144400.
    KOiK03034.
    OMAiNKYADPT.
    OrthoDBiEOG7TF7PD.

    Family and domain databases

    InterProiIPR007087. Znf_C2H2.
    IPR015880. Znf_C2H2-like.
    [Graphical view]
    SMARTiSM00355. ZnF_C2H2. 2 hits.
    [Graphical view]
    PROSITEiPS50157. ZINC_FINGER_C2H2_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q03465-1 [UniParc]FASTAAdd to Basket

    « Hide

    MASTELSLKR TLTDILEDEL YHTNPGHSQF TSHYQNYHPN ASITPYKLVN    50
    KNKENNTFTW NHSLQHQNES SAASIPPQQT YHFPIFNKYA DPTLTTTTSF 100
    TTSEATANDR QINNVHLIPN EIKGASETPL QKTVNLKNIM KVSDPYVPTR 150
    NTFNYDVKIS NDFFDNGDNL YGNDEEVLFY EDNYNPKMQW SLQDNSAAIN 200
    NEDARAIFNN EFDSDDDDIS DDEEDEIEEN CLQQEQHQEE PLLSLDVTPI 250
    SMFGSDQKTG RAKSSSHLFN EYSYVDSNMD SISSVVSEDL LDERGHEKIE 300
    DEDEDNDLDE DDIYDISLLK NRRKQSFVLN KNTIDFERFP SPSTSANVPS 350
    TATTGKRKPA KSSSNRSCVS NSNENGTLER IKKPTSAVVS SNASRRKLIN 400
    YTKKHLSSHS STNSNSKPST ASPSAHTSSS DGNNEIFTCQ IMNLITNEPC 450
    GAQFSRSYDL TRHQNTIHAK RKIVFRCSEC IKILGSEGYQ KTFSRLDALT 500
    RHIKSKHEDL SLEQRQEVTK FAKANIGYVM G 531
    Length:531
    Mass (Da):60,153
    Last modified:October 1, 1993 - v1
    Checksum:i4316281AC09FBE7F
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti231 – 2311C → Y in AAU09680. (PubMed:17322287)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L00928 Genomic DNA. Translation: AAA35067.1.
    Z48432 Genomic DNA. Translation: CAA88339.1.
    Z74068 Genomic DNA. Translation: CAA98579.1.
    AY723763 Genomic DNA. Translation: AAU09680.1.
    BK006938 Genomic DNA. Translation: DAA11830.1.
    PIRiS41986.
    RefSeqiNP_010264.3. NM_001180079.3.

    Genome annotation databases

    EnsemblFungiiYDL020C; YDL020C; YDL020C.
    GeneIDi851542.
    KEGGisce:YDL020C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L00928 Genomic DNA. Translation: AAA35067.1 .
    Z48432 Genomic DNA. Translation: CAA88339.1 .
    Z74068 Genomic DNA. Translation: CAA98579.1 .
    AY723763 Genomic DNA. Translation: AAU09680.1 .
    BK006938 Genomic DNA. Translation: DAA11830.1 .
    PIRi S41986.
    RefSeqi NP_010264.3. NM_001180079.3.

    3D structure databases

    ProteinModelPortali Q03465.
    SMRi Q03465. Positions 426-508.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 32035. 515 interactions.
    DIPi DIP-5779N.
    IntActi Q03465. 5 interactions.
    MINTi MINT-583572.
    STRINGi 4932.YDL020C.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YDL020C ; YDL020C ; YDL020C .
    GeneIDi 851542.
    KEGGi sce:YDL020C.

    Organism-specific databases

    CYGDi YDL020c.
    SGDi S000002178. RPN4.

    Phylogenomic databases

    eggNOGi NOG70197.
    HOGENOMi HOG000144400.
    KOi K03034.
    OMAi NKYADPT.
    OrthoDBi EOG7TF7PD.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-29449-MONOMER.

    Miscellaneous databases

    NextBioi 968949.

    Gene expression databases

    Genevestigatori Q03465.

    Family and domain databases

    InterProi IPR007087. Znf_C2H2.
    IPR015880. Znf_C2H2-like.
    [Graphical view ]
    SMARTi SM00355. ZnF_C2H2. 2 hits.
    [Graphical view ]
    PROSITEi PS50157. ZINC_FINGER_C2H2_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Extragenic suppressors of mutations in the cytoplasmic C-terminus of SEC63 define five genes in Saccharomyces cerevisiae."
      Nelson M.K., Kurihara T., Silver P.A.
      Genetics 134:159-173(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], DISRUPTION PHENOTYPE.
      Strain: ATCC 200060 / W303.
    2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
      Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
      , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
      Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    5. "A proteolytic pathway that recognizes ubiquitin as a degradation signal."
      Johnson E.S., Ma P.C.M., Ota I.M., Varshavsky A.
      J. Biol. Chem. 270:17442-17456(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: CHARACTERIZATION.
      Strain: ATCC 204508 / S288c.
    6. "Son1p is a component of the 26S proteasome of the yeast Saccharomyces cerevisiae."
      Fujimuro M., Tanaka K., Yokosawa H., Toh-e A.
      FEBS Lett. 423:149-154(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: PRELIMINARY CHARACTERIZATION.
    7. "Rpn4p acts as a transcription factor by binding to PACE, a nonamer box found upstream of 26S proteasomal and other genes in yeast."
      Mannhaupt G., Schnall R., Karpov V., Vetter I., Feldmann H.
      FEBS Lett. 450:27-34(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    8. "RPN4 is a ligand, substrate, and transcriptional regulator of the 26S proteasome: a negative feedback circuit."
      Xie Y., Varshavsky A.
      Proc. Natl. Acad. Sci. U.S.A. 98:3056-3061(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    9. "Rpn4 is a physiological substrate of the Ubr2 ubiquitin ligase."
      Wang L., Mao X., Ju D., Xie Y.
      J. Biol. Chem. 279:55218-55223(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: UBIQUITINATION, INTERACTION WITH UBR2.
    10. "Genome-wide analysis identifies MYND-domain protein Mub1 as an essential factor for Rpn4 ubiquitylation."
      Ju D., Wang X., Xu H., Xie Y.
      Mol. Cell. Biol. 28:1404-1412(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: UBIQUITINATION, INTERACTION WITH MUB1.

    Entry informationi

    Entry nameiRPN4_YEAST
    AccessioniPrimary (citable) accession number: Q03465
    Secondary accession number(s): D6VRX0, E9P944
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1993
    Last sequence update: October 1, 1993
    Last modified: October 1, 2014
    This is version 126 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Caution

    According to PubMed:9512348, it is a component of the 26S proteasome.Curated

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    2. Yeast chromosome IV
      Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

    External Data

    Dasty 3