P34219 (TOD6_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended 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:	YBL0513, YBL0509

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	525 AA.
Sequence status	Complete.
Protein existence	Evidence 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.12
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.
Subcellular location	Cytoplasm. Nucleus Ref.5.
Miscellaneous	Present with 830 molecules/cell in log phase SD medium. Ref.6
Sequence similarities	Belongs to the DOT6 family. Contains 1 HTH myb-type DNA-binding domain.

Ontologies

Keywords
Cellular component	Cytoplasm Nucleus
Ligand	DNA-binding
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	regulation of transcription from RNA polymerase II promoter Inferred from mutant phenotype Ref.12. Source: SGD
Cellular component	Rpd3L complex Inferred from direct assay Ref.9. Source: SGD Rpd3L-Expanded complex Inferred from direct assay Ref.9. Source: SGD cytoplasm Inferred from direct assay Ref.5. Source: SGD
Molecular function	sequence-specific DNA binding Inferred from direct assay Ref.10Ref.12. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 525	525	Transcriptional regulatory protein TOD6		PRO_0000197146
Regions
	Domain	67 – 124	58	HTH myb-type
	DNA binding	97 – 120	24	H-T-H motif By similarity
Amino acid modifications
	Modified residue	224	1	Phosphoserine Ref.11
	Modified residue	366	1	Phosphoserine Ref.8

Sequences

	Sequence		Length	Mass (Da)
	P34219 [UniParc]. Last modified February 1, 1994. Version 1. Checksum: 8663DFE2641AA72E	FASTA	525	59,226
	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

References

	« Hide 'large scale' referencesShow '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: 8154187] [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: 7813418] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases 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. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed: 17322287] [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: 14562095] [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: 14562106] [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: 16544271] [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: 17330950] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-366, MASS SPECTROMETRY. 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: 19040720] [Abstract] Cited for: IDENTIFICATION IN THE RPD3(L) COMPLEX, 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. , Clarke N.D., Lieb J.D., Ansari A.Z., Nislow C., Hughes T.R. Mol. Cell 32:878-887(2008) [PubMed: 19111667] [Abstract] Cited for: DNA-BINDING.
[11]	"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: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-224, MASS SPECTROMETRY.
[12]	"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: 19158363] [Abstract] Cited for: FUNCTION.
+	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.
PIR	S39834.
RefSeq	NP_009499.1. NM_001178294.1.
3D structure databases
ProteinModelPortal	P34219.
SMR	P34219. Positions 72-123.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-2636N.
MINT	MINT-427067.
STRING	P34219.
Proteomic databases
PeptideAtlas	P34219.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YBL054W; YBL054W; YBL054W.
GeneID	852226.
KEGG	sce:YBL054W.
NMPDR	fig|4932.3.peg.189.
Organism-specific databases
CYGD	YBL054w.
SGD	S000000150. TOD6.
Phylogenomic databases
eggNOG	fuNOG12682.
GeneTree	EFGT00050000002994.
OrthoDB	EOG4B8NP2.
Gene expression databases
ArrayExpress	P34219.
Genevestigator	P34219.
GermOnline	YBL054W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR009057. Homeodomain-like. IPR012287. Homeodomain-rel. IPR014778. Myb_DNA-bd. IPR001005. SANT_DNA-bd. IPR017930. Tscrpt_reg_HTH_Myb-type. [Graphical view]
Gene3D	G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.
Pfam	PF00249. Myb_DNA-binding. 1 hit. [Graphical view]
SMART	SM00717. SANT. 2 hits. [Graphical view]
SUPFAM	SSF46689. Homeodomain_like. 1 hit.
PROSITE	PS51294. HTH_MYB. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	970754.

Entry information

Entry name

TOD6_YEAST

Accession

Primary (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:	December 14, 2011
This is version 99 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program