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Protein

Transcriptional regulatory protein DEP1

Gene

DEP1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

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 Source: SGD
  13. positive regulation of transcription from RNA polymerase II promoter in response to heat stress Source: SGD
  14. regulation of DNA-dependent DNA replication initiation Source: SGD
  15. regulation of transcription from RNA polymerase II promoter Source: SGD
  16. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

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 Componenti: Chromosome I

Organism-specific databases

CYGDiYAL013w.
SGDiS000000011. DEP1.

Subcellular locationi

GO - Cellular componenti

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

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. 465 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.
InParanoidiP31385.
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

        10         20         30         40         50
MSQQTPQESE QTTAKEQDLD QESVLSNIDF NTDLNHNLNL SEYCISSDAG
60 70 80 90 100
TEKMDSDEEK SLANLPELKY APKLSSLVKQ ETLTESLKRP HEDEKEAIDE
110 120 130 140 150
AKKMKVPGEN EDESKEEEKS QELEEAIDSK EKSTDARDEQ GDEGDNEEEN
160 170 180 190 200
NEEDNENENE HTAPPALVMP SPIEMEEQRM TALKEITDIE YKFAQLRQKL
210 220 230 240 250
YDNQLVRLQT ELQMCLEGSH PELQVYYSKI AAIRDYKLHR AYQRQKYELS
260 270 280 290 300
CINTETIATR TFIHQDFHKK VTDLRARLLN RTTQTWYDIN KERRDMDIVI
310 320 330 340 350
PDVNYHVPIK LDNKTLSCIT GYASAAQLCY PGEPVAEDLA CESIEYRYRA
360 370 380 390 400
NPVDKLEVIV DRMRLNNEIS DLEGLRKYFH SFPGAPELNP LRDSEINDDF

HQWAQ
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. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

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

Protein-protein interaction databases

BioGridi31753. 465 interactions.
DIPiDIP-5922N.
IntActiP31385. 7 interactions.
MINTiMINT-641697.
STRINGi4932.YAL013W.

Proteomic databases

MaxQBiP31385.
PaxDbiP31385.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CYGDiYAL013w.
SGDiS000000011. DEP1.

Phylogenomic databases

eggNOGiNOG44093.
InParanoidiP31385.
OrthoDBiEOG7CK3H7.

Enzyme and pathway databases

BioCyciYEAST:G3O-28825-MONOMER.

Miscellaneous databases

NextBioi968115.

Gene expression databases

GenevestigatoriP31385.

Family and domain databases

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

Publicationsi

« Hide 'large scale' publications
  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(1992) [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(1993) [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 (NOV-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(2002) [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(1993) [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(2004) [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(2007) [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(2008) [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: February 4, 2015
This is version 115 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.