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Protein

Transcriptional regulatory protein TOD6

Gene

TOD6

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Component of the RPD3 histone deacetylase complex RPD3C(L) 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. TOD6 binds to sequences containing the core CGATG, which resembles the PAC (Polymerase A and C) motif.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi97 – 12024H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • chromatin binding Source: InterPro
  • sequence-specific DNA binding Source: SGD

GO - Biological processi

  • regulation of transcription from RNA polymerase II promoter Source: SGD
Complete GO annotation...

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-28952-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Transcriptional regulatory protein TOD6
Alternative name(s):
PAC-binding factor 1
Twin of DOT6
Gene namesi
Name:TOD6
Synonyms:PBF1
Ordered Locus Names:YBL054W
ORF Names:YBL0509, YBL0513
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome II

Organism-specific databases

CYGDiYBL054w.
EuPathDBiFungiDB:YBL054W.
SGDiS000000150. TOD6.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 525525Transcriptional regulatory protein TOD6PRO_0000197146Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei280 – 2801Phosphoserine1 Publication
Modified residuei333 – 3331Phosphoserine1 Publication
Modified residuei341 – 3411Phosphoserine1 Publication
Modified residuei366 – 3661Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP34219.
PaxDbiP34219.
PeptideAtlasiP34219.

Interactioni

Subunit structurei

Component of the RPD3C(L) complex composed of at least ASH1, CTI6, DEP1, DOT6, PHO23, RPD3, RXT2, RXT3, SAP30, SDS3, SIN3, TOD6; UME1 and UME6.1 Publication

Protein-protein interaction databases

BioGridi32645. 35 interactions.
DIPiDIP-2636N.
IntActiP34219. 3 interactions.
MINTiMINT-427067.
STRINGi4932.YBL054W.

Structurei

3D structure databases

ProteinModelPortaliP34219.
SMRiP34219. Positions 76-123, 392-439.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini67 – 12458HTH myb-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the DOT6 family.Curated
Contains 1 HTH myb-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG244012.
GeneTreeiENSGT00530000068139.
InParanoidiP34219.
OrthoDBiEOG7Q8CX9.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR017930. Myb_dom.
IPR001005. SANT/Myb.
[Graphical view]
PfamiPF00249. Myb_DNA-binding. 1 hit.
[Graphical view]
SMARTiSM00717. SANT. 2 hits.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS51294. HTH_MYB. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P34219-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTLPKLSSVS VSSGHVSANS HGFSILSKHP HPNNLVHSHS LSHTNAKSHL
60 70 80 90 100
PISSTSTKEN STNKEEAESL KKNNPSSWDP SDDIKLRHLK EIKNLGWKEI
110 120 130 140 150
AHHFPNRTPN ACQFRWRRLK SGNLKSNKTA VIDINKLFGV YATGDATPSA
160 170 180 190 200
GTPSAEEAVK EEAVEDEDIT AGSSAIEDSP PDFKPLVKPK YMDRKLITQR
210 220 230 240 250
STSTFSDHEP QHTKPRKLFV KPRSFSHSIT TNTPNVKTAQ QTNLSLYNTT
260 270 280 290 300
SAKTNKAVNS NDYENIGLVP KIIIRSRRNS FIPSTQIPHS TTKTRKNSHS
310 320 330 340 350
VISSRRSSFN MMHSRRSSFN SHAPTEPISR RASLVVSPYM SPRRLSTSQS
360 370 380 390 400
VHYHPQHQYY LNPIASPNCK TDHANDKITH TRTFLDMQKF ANKHPWSRED
410 420 430 440 450
DEVLLNNTKD KQNHLSPLEI SIVLPNNRSE LEIQQRMDYL KRKGRVSGFH
460 470 480 490 500
TNEGCKDEEE EDDIDPLHKE NGINTPSQQS QNYGMLEAKH DNPKSSELSS
510 520
MTSANDIRNE QDELPGINSI FKNIF
Length:525
Mass (Da):59,226
Last modified:February 1, 1994 - v1
Checksum:i8663DFE2641AA72E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z23261 Genomic DNA. Translation: CAA80793.1.
Z35815 Genomic DNA. Translation: CAA84874.1.
AY692625 Genomic DNA. Translation: AAT92644.1.
BK006936 Genomic DNA. Translation: DAA07066.1.
PIRiS39834.
RefSeqiNP_009499.1. NM_001178294.1.

Genome annotation databases

EnsemblFungiiYBL054W; YBL054W; YBL054W.
GeneIDi852226.
KEGGisce:YBL054W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z23261 Genomic DNA. Translation: CAA80793.1.
Z35815 Genomic DNA. Translation: CAA84874.1.
AY692625 Genomic DNA. Translation: AAT92644.1.
BK006936 Genomic DNA. Translation: DAA07066.1.
PIRiS39834.
RefSeqiNP_009499.1. NM_001178294.1.

3D structure databases

ProteinModelPortaliP34219.
SMRiP34219. Positions 76-123, 392-439.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32645. 35 interactions.
DIPiDIP-2636N.
IntActiP34219. 3 interactions.
MINTiMINT-427067.
STRINGi4932.YBL054W.

Proteomic databases

MaxQBiP34219.
PaxDbiP34219.
PeptideAtlasiP34219.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYBL054W; YBL054W; YBL054W.
GeneIDi852226.
KEGGisce:YBL054W.

Organism-specific databases

CYGDiYBL054w.
EuPathDBiFungiDB:YBL054W.
SGDiS000000150. TOD6.

Phylogenomic databases

eggNOGiNOG244012.
GeneTreeiENSGT00530000068139.
InParanoidiP34219.
OrthoDBiEOG7Q8CX9.

Enzyme and pathway databases

BioCyciYEAST:G3O-28952-MONOMER.

Miscellaneous databases

NextBioi970754.
PROiP34219.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR017930. Myb_dom.
IPR001005. SANT/Myb.
[Graphical view]
PfamiPF00249. Myb_DNA-binding. 1 hit.
[Graphical view]
SMARTiSM00717. SANT. 2 hits.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS51294. HTH_MYB. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequencing and functional analysis of a 32,560 bp segment on the left arm of yeast chromosome II. Identification of 26 open reading frames, including the KIP1 and SEC17 genes."
    Scherens B., el Bakkoury M., Vierendeels F., Dubois E., Messenguy F.
    Yeast 9:1355-1371(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. "Complete DNA sequence of yeast chromosome II."
    Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
    , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
    EMBO J. 13:5795-5809(1994) [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. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  7. "The budding yeast rRNA and ribosome biosynthesis (RRB) regulon contains over 200 genes."
    Wade C.H., Umbarger M.A., McAlear M.A.
    Yeast 23:293-306(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  8. "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae."
    Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P.
    J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-366, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: ADR376.
  9. "Chromatin Central: towards the comparative proteome by accurate mapping of the yeast proteomic environment."
    Shevchenko A., Roguev A., Schaft D., Buchanan L., Habermann B., Sakalar C., Thomas H., Krogan N.J., Shevchenko A., Stewart A.F.
    Genome Biol. 9:R167.1-R167.22(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN THE RPD3(L) COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
  10. Cited for: DNA-BINDING.
  11. Cited for: FUNCTION.
  12. "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-280; SER-333 AND SER-341, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiTOD6_YEAST
AccessioniPrimary (citable) accession number: P34219
Secondary accession number(s): D6VPU6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: June 24, 2015
This is version 121 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 830 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome II
    Yeast (Saccharomyces cerevisiae) chromosome II: 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.