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P34219 (TOD6_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 116. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Transcriptional regulatory protein TOD6
Alternative name(s):
PAC-binding factor 1
Twin of DOT6
Gene names
Name:TOD6
Synonyms:PBF1
Ordered Locus Names:YBL054W
ORF Names:YBL0509, YBL0513
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length525 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.7 Ref.11

Subunit structure

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. Ref.9

Subcellular location

Cytoplasm. Nucleus Ref.5.

Miscellaneous

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

Sequence similarities

Belongs to the DOT6 family.

Contains 1 HTH myb-type DNA-binding domain.

Ontologies

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 525525Transcriptional regulatory protein TOD6
PRO_0000197146

Regions

Domain67 – 12458HTH myb-type
DNA binding97 – 12024H-T-H motif By similarity

Amino acid modifications

Modified residue2801Phosphoserine Ref.12
Modified residue3331Phosphoserine Ref.12
Modified residue3411Phosphoserine Ref.12
Modified residue3661Phosphoserine Ref.8

Sequences

Sequence LengthMass (Da)Tools
P34219 [UniParc].

Last modified February 1, 1994. Version 1.
Checksum: 8663DFE2641AA72E

FASTA52559,226
        10         20         30         40         50         60 
MTLPKLSSVS VSSGHVSANS HGFSILSKHP HPNNLVHSHS LSHTNAKSHL PISSTSTKEN 

        70         80         90        100        110        120 
STNKEEAESL KKNNPSSWDP SDDIKLRHLK EIKNLGWKEI AHHFPNRTPN ACQFRWRRLK 

       130        140        150        160        170        180 
SGNLKSNKTA VIDINKLFGV YATGDATPSA GTPSAEEAVK EEAVEDEDIT AGSSAIEDSP 

       190        200        210        220        230        240 
PDFKPLVKPK YMDRKLITQR STSTFSDHEP QHTKPRKLFV KPRSFSHSIT TNTPNVKTAQ 

       250        260        270        280        290        300 
QTNLSLYNTT SAKTNKAVNS NDYENIGLVP KIIIRSRRNS FIPSTQIPHS TTKTRKNSHS 

       310        320        330        340        350        360 
VISSRRSSFN MMHSRRSSFN SHAPTEPISR RASLVVSPYM SPRRLSTSQS VHYHPQHQYY 

       370        380        390        400        410        420 
LNPIASPNCK TDHANDKITH TRTFLDMQKF ANKHPWSRED DEVLLNNTKD KQNHLSPLEI 

       430        440        450        460        470        480 
SIVLPNNRSE LEIQQRMDYL KRKGRVSGFH TNEGCKDEEE EDDIDPLHKE NGINTPSQQS 

       490        500        510        520 
QNYGMLEAKH DNPKSSELSS MTSANDIRNE QDELPGINSI FKNIF 

« Hide

References

« Hide 'large scale' references
[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. expand/collapse author list , 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]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: ATCC 204508 / S288c.
[4]"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae."
Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. expand/collapse author list , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J.
Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[5]"Global analysis of protein localization in budding yeast."
Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K.
Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[6]"Global analysis of protein expression in yeast."
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S.
Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract]
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]"A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters."
Badis G., Chan E.T., van Bakel H., Pena-Castillo L., Tillo D., Tsui K., Carlson C.D., Gossett A.J., Hasinoff M.J., Warren C.L., Gebbia M., Talukder S., Yang A., Mnaimneh S., Terterov D., Coburn D., Li Yeo A., Yeo Z.X. expand/collapse author list , Clarke N.D., Lieb J.D., Ansari A.Z., Nislow C., Hughes T.R.
Mol. Cell 32:878-887(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: DNA-BINDING.
[11]"High-resolution DNA-binding specificity analysis of yeast transcription factors."
Zhu C., Byers K.J., McCord R.P., Shi Z., Berger M.F., Newburger D.E., Saulrieta K., Smith Z., Shah M.V., Radhakrishnan M., Philippakis A.A., Hu Y., De Masi F., Pacek M., Rolfs A., Murthy T.V.S., Labaer J., Bulyk M.L.
Genome Res. 19:556-566(2009) [PubMed] [Europe PMC] [Abstract]
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].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Z23261 Genomic DNA. Translation: CAA80793.1.
Z35815 Genomic DNA. Translation: CAA84874.1.
AY692625 Genomic DNA. Translation: AAT92644.1.
BK006936 Genomic DNA. Translation: DAA07066.1.
PIRS39834.
RefSeqNP_009499.1. NM_001178294.1.

3D structure databases

ProteinModelPortalP34219.
SMRP34219. Positions 76-123, 392-439.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid32645. 34 interactions.
DIPDIP-2636N.
IntActP34219. 3 interactions.
MINTMINT-427067.
STRING4932.YBL054W.

Proteomic databases

MaxQBP34219.
PaxDbP34219.
PeptideAtlasP34219.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYBL054W; YBL054W; YBL054W.
GeneID852226.
KEGGsce:YBL054W.

Organism-specific databases

CYGDYBL054w.
SGDS000000150. TOD6.

Phylogenomic databases

eggNOGNOG244012.
GeneTreeENSGT00530000068139.
OMAANDKITH.
OrthoDBEOG7Q8CX9.

Enzyme and pathway databases

BioCycYEAST:G3O-28952-MONOMER.

Gene expression databases

GenevestigatorP34219.

Family and domain databases

Gene3D1.10.10.60. 1 hit.
InterProIPR009057. Homeodomain-like.
IPR017930. Myb_dom.
IPR001005. SANT/Myb.
[Graphical view]
PfamPF00249. Myb_DNA-binding. 1 hit.
[Graphical view]
SMARTSM00717. SANT. 2 hits.
[Graphical view]
SUPFAMSSF46689. SSF46689. 1 hit.
PROSITEPS51294. HTH_MYB. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio970754.

Entry information

Entry nameTOD6_YEAST
AccessionPrimary (citable) accession number: P34219
Secondary accession number(s): D6VPU6
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: May 14, 2014
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome II

Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

SIMILARITY comments

Index of protein domains and families