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P31385

- DEP1_YEAST

UniProt

P31385 - DEP1_YEAST

Protein

Transcriptional regulatory protein DEP1

Gene

DEP1

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 112 (01 Oct 2014)
      Sequence version 3 (27 Jul 2011)
      Previous versions | rss
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    Functioni

    Component of the RPD3C(L) histone deacetylase complex (HDAC) responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events.1 Publication

    GO - Biological processi

    1. histone deacetylation Source: SGD
    2. negative regulation of chromatin silencing at rDNA Source: SGD
    3. negative regulation of chromatin silencing at silent mating-type cassette Source: SGD
    4. negative regulation of chromatin silencing at telomere Source: SGD
    5. negative regulation of inositol biosynthetic process by negative regulation of transcription from RNA polymerase II promoter Source: SGD
    6. negative regulation of phosphatidylcholine biosynthetic process by negative regulation of transcription from RNA polymerase II promoter Source: SGD
    7. negative regulation of phosphatidylserine biosynthetic process by negative regulation of transcription from RNA polymerase II promoter Source: SGD
    8. negative regulation of transcription from RNA polymerase II promoter Source: SGD
    9. positive regulation of inositol biosynthetic process by positive regulation of transcription from RNA polymerase II promoter Source: SGD
    10. positive regulation of phosphatidylcholine biosynthetic process by positive regulation of transcription from RNA polymerase II promoter Source: SGD
    11. positive regulation of phosphatidylserine biosynthetic process by positive regulation of transcription from RNA polymerase II promoter Source: SGD
    12. positive regulation of transcription from RNA polymerase II promoter in response to heat stress Source: SGD
    13. regulation of DNA-dependent DNA replication initiation Source: SGD
    14. regulation of transcription from RNA polymerase II promoter Source: SGD
    15. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation

    Enzyme and pathway databases

    BioCyciYEAST:G3O-28825-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Transcriptional regulatory protein DEP1
    Gene namesi
    Name:DEP1
    Synonyms:FUN54
    Ordered Locus Names:YAL013W
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome I

    Organism-specific databases

    CYGDiYAL013w.
    SGDiS000000011. DEP1.

    Subcellular locationi

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell
    2. Rpd3L complex Source: SGD

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 405405Transcriptional regulatory protein DEP1PRO_0000079864Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei56 – 561Phosphoserine1 Publication
    Modified residuei120 – 1201Phosphoserine2 Publications
    Modified residuei370 – 3701Phosphoserine1 Publication

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiP31385.
    PaxDbiP31385.

    Expressioni

    Gene expression databases

    GenevestigatoriP31385.

    Interactioni

    Subunit structurei

    Component of the RPD3C(L) complex composed of at least ASH1, CTI6, DEP1, PHO23, RPD3, RXT2, RXT3, SAP30, SDS3, SIN3, UME1 and UME6.2 Publications

    Protein-protein interaction databases

    BioGridi31753. 462 interactions.
    DIPiDIP-5922N.
    IntActiP31385. 7 interactions.
    MINTiMINT-641697.
    STRINGi4932.YAL013W.

    Structurei

    3D structure databases

    ProteinModelPortaliP31385.
    SMRiP31385. Positions 174-212.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi81 – 17797Glu-richAdd
    BLAST

    Phylogenomic databases

    eggNOGiNOG44093.
    OrthoDBiEOG7CK3H7.

    Family and domain databases

    InterProiIPR013907. Sds3.
    [Graphical view]
    PfamiPF08598. Sds3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P31385-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSQQTPQESE QTTAKEQDLD QESVLSNIDF NTDLNHNLNL SEYCISSDAG    50
    TEKMDSDEEK SLANLPELKY APKLSSLVKQ ETLTESLKRP HEDEKEAIDE 100
    AKKMKVPGEN EDESKEEEKS QELEEAIDSK EKSTDARDEQ GDEGDNEEEN 150
    NEEDNENENE HTAPPALVMP SPIEMEEQRM TALKEITDIE YKFAQLRQKL 200
    YDNQLVRLQT ELQMCLEGSH PELQVYYSKI AAIRDYKLHR AYQRQKYELS 250
    CINTETIATR TFIHQDFHKK VTDLRARLLN RTTQTWYDIN KERRDMDIVI 300
    PDVNYHVPIK LDNKTLSCIT GYASAAQLCY PGEPVAEDLA CESIEYRYRA 350
    NPVDKLEVIV DRMRLNNEIS DLEGLRKYFH SFPGAPELNP LRDSEINDDF 400
    HQWAQ 405
    Length:405
    Mass (Da):46,978
    Last modified:July 27, 2011 - v3
    Checksum:i3A67F052C3920A22
    GO

    Sequence cautioni

    The sequence AAC04944.2 differs from that shown. Reason: Frameshift at position 405.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L05146 Genomic DNA. Translation: AAC04944.2. Frameshift.
    AY260888 Genomic DNA. Translation: AAP21756.1.
    BK006935 Genomic DNA. Translation: DAA06975.2.
    PIRiS36721.
    RefSeqiNP_009389.3. NM_001178158.2.

    Genome annotation databases

    EnsemblFungiiYAL013W; YAL013W; YAL013W.
    GeneIDi851220.
    KEGGisce:YAL013W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L05146 Genomic DNA. Translation: AAC04944.2 . Frameshift.
    AY260888 Genomic DNA. Translation: AAP21756.1 .
    BK006935 Genomic DNA. Translation: DAA06975.2 .
    PIRi S36721.
    RefSeqi NP_009389.3. NM_001178158.2.

    3D structure databases

    ProteinModelPortali P31385.
    SMRi P31385. Positions 174-212.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31753. 462 interactions.
    DIPi DIP-5922N.
    IntActi P31385. 7 interactions.
    MINTi MINT-641697.
    STRINGi 4932.YAL013W.

    Proteomic databases

    MaxQBi P31385.
    PaxDbi P31385.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YAL013W ; YAL013W ; YAL013W .
    GeneIDi 851220.
    KEGGi sce:YAL013W.

    Organism-specific databases

    CYGDi YAL013w.
    SGDi S000000011. DEP1.

    Phylogenomic databases

    eggNOGi NOG44093.
    OrthoDBi EOG7CK3H7.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-28825-MONOMER.

    Miscellaneous databases

    NextBioi 968115.

    Gene expression databases

    Genevestigatori P31385.

    Family and domain databases

    InterProi IPR013907. Sds3.
    [Graphical view ]
    Pfami PF08598. Sds3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Sequencing of chromosome I from Saccharomyces cerevisiae: analysis of a 32 kb region between the LTE1 and SPO7 genes."
      Ouellette B.F.F., Clark M.W., Keng T., Storms R.K., Zhong W.-W., Zeng B., Fortin N., Delaney S., Barton A.B., Kaback D.B., Bussey H.
      Genome 36:32-42(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204511 / S288c / AB972.
    2. "Molecular cloning of chromosome I DNA from Saccharomyces cerevisiae: analysis of the genes in the FUN38-MAK16-SPO7 region."
      Barton A.B., Kaback D.B.
      J. Bacteriol. 176:1872-1880(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. Sethuraman A., Cherry J.M.
      Submitted (DEC-2003) to the EMBL/GenBank/DDBJ databases
      Cited for: SEQUENCE REVISION TO C-TERMINUS.
    5. Cited for: GENOME REANNOTATION, SEQUENCE REVISION TO 405.
      Strain: ATCC 204508 / S288c.
    6. "Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii."
      Brachat S., Dietrich F.S., Voegeli S., Zhang Z., Stuart L., Lerch A., Gates K., Gaffney T.D., Philippsen P.
      Genome Biol. 4:R45.1-R45.13(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 302-361.
      Strain: ATCC 204511 / S288c / AB972.
    7. "Isolation and characterization of a mutant of Saccharomyces cerevisiae with pleiotropic deficiencies in transcriptional activation and repression."
      Lamping E., Lueckl J., Paltauf F., Henry S.A., Kohlwein S.D.
      Genetics 137:55-65(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    8. "Stable incorporation of sequence specific repressors Ash1 and Ume6 into the Rpd3L complex."
      Carrozza M.J., Florens L., Swanson S.K., Shia W.-J., Anderson S., Yates J., Washburn M.P., Workman J.L.
      Biochim. Biophys. Acta 1731:77-87(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION IN THE RPD3C(L) COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    9. Cited for: IDENTIFICATION IN THE RPD3C(L) COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    10. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
      Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
      Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-120 AND SER-370, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    11. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
      Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
      Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-56 AND SER-120, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiDEP1_YEAST
    AccessioniPrimary (citable) accession number: P31385
    Secondary accession number(s): D6VPK5, Q86ZS5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 1, 1993
    Last sequence update: July 27, 2011
    Last modified: October 1, 2014
    This is version 112 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

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

    External Data

    Dasty 3