Transcriptional regulatory protein SDS3 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P40505 (SDS3_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 107. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Transcriptional regulatory protein SDS3

Alternative name(s):
Suppressor of defective silencing protein 3

Gene names

Name:	SDS3
Ordered Locus Names:	YIL084C

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

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

Protein attributes

Sequence length	327 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. SDS3 is required for the HDAC activity of the complex and for the RPD3-SIN3 association. Ref.1 Ref.5 Ref.6 Ref.7
Subunit structure	Component of the RPD3C(L) complex composed of at least ASH1, CTI6, DEP1, PHO23, RPD3, RXT2, RXT3, SAP30, SDS3, SIN3, UME1 and UME6. Ref.5 Ref.6 Ref.8 Ref.11 Ref.12
Subcellular location	Nucleus Ref.9.
Miscellaneous	Present with 105 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the SDS3 family.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Coiled coil
Molecular function	Chromatin regulator Repressor
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	chromatin silencing Inferred from genetic interaction Ref.6. Source: SGD histone deacetylation Inferred from mutant phenotype Ref.11. Source: SGD negative regulation of chromatin silencing at rDNA Inferred from mutant phenotype Ref.12. Source: SGD negative regulation of chromatin silencing at silent mating-type cassette Inferred from mutant phenotype Ref.12. Source: SGD negative regulation of chromatin silencing at telomere Inferred from mutant phenotype Ref.12 PubMed 19372273. Source: SGD positive regulation of transcription from RNA polymerase II promoter in response to heat stress Inferred from mutant phenotype PubMed 20398213. Source: SGD transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	Rpd3L complex Inferred from direct assay PubMed 16286007 Ref.12 Ref.11 PubMed 19040720. Source: SGD Rpd3L-Expanded complex Inferred from direct assay PubMed 19040720. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 327

327

Transcriptional regulatory protein SDS3

PRO_0000097654

Regions

Coiled coil

61 – 135

Potential

Amino acid modifications

Modified residue

168

Phosphoserine Ref.14

Modified residue

179

Phosphoserine Ref.13

Modified residue

181

Phosphothreonine Ref.13

Modified residue

211

Phosphoserine Ref.13

Modified residue

219

Phosphoserine Ref.13

Modified residue

226

Phosphoserine Ref.13

Sequences

Sequence

Length

Mass (Da)

Tools

P40505 [UniParc].

Last modified February 1, 1995. Version 1.
Checksum: 4A6186E68BFE0CC7
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FASTA

327

37,625

        10         20         30         40         50         60 
MAIQKVSNKD LSRKDKRRFN IESKVNKIYQ NFYSERDNQY KDRLTALQTD LTSLHQGDNG 

        70         80         90        100        110        120 
QYARQVRDLE EERDLELVRL RLFEEYRVSR SGIEFQEDIE KAKAEHEKLI KLCKERLYSS 

       130        140        150        160        170        180 
IEQKIKKLQE ERLLMDVANV HSYAMNYSRP QYQKNTRSHT VSGWDSSSNE YGRDTANESA 

       190        200        210        220        230        240 
TDTGAGNDRR TLRRRNASKD TRGNNNNQDE SDFQTGNGSG SNGHGSRQGS QFPHFNNLTY 

       250        260        270        280        290        300 
KSGMNSDSDF LQGINEGTDL YAFLFGEKNP KDNANGNEKK KNRGAQRYST KTAPPLQSLK 

       310        320 
PDEVTEDISL IRELTGQPPA PFRLRSD

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Evidence that the transcriptional regulators SIN3 and RPD3, and a novel gene (SDS3) with similar functions, are involved in transcriptional silencing in S. cerevisiae." Vannier D., Balderes D., Shore D. Genetics 144:1343-1353(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION. Strain: ATCC 200060 / W303.
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome IX." Churcher C.M., Bowman S., Badcock K., Bankier A.T., Brown D., Chillingworth T., Connor R., Devlin K., Gentles S., Hamlin N., Harris D.E., Horsnell T., Hunt S., Jagels K., Jones M., Lye G., Moule S., Odell C. Barrell B.G. Nature 387:84-87(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[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. LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	"Roles for the Saccharomyces cerevisiae SDS3, CBK1 and HYM1 genes in transcriptional repression by SIN3." Dorland S., Deegenaars M.L., Stillman D.J. Genetics 154:573-586(2000) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN THE RPD3 COMPLEX.
[6]	"Sds3 (suppressor of defective silencing 3) is an integral component of the yeast Sin3[middle dot]Rpd3 histone deacetylase complex and is required for histone deacetylase activity." Lechner T., Carrozza M.J., Yu Y., Grant P.A., Eberharter A., Vannier D., Brosch G., Stillman D.J., Shore D., Workman J.L. J. Biol. Chem. 275:40961-40966(2000) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN THE RPD3 COMPLEX.
[7]	"A role for Sds3p, a component of the Rpd3p/Sin3p deacetylase complex, in maintaining cellular integrity in Saccharomyces cerevisiae." Vannier D., Damay P., Shore D. Mol. Genet. Genomics 265:560-568(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[8]	"Opposite role of yeast ING family members in p53-dependent transcriptional activation." Nourani A., Howe L., Pray-Grant M.G., Workman J.L., Grant P.A., Cote J. J. Biol. Chem. 278:19171-19175(2003) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE RPD3 COMPLEX, MASS SPECTROMETRY.
[9]	"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].
[10]	"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].
[11]	"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, MASS SPECTROMETRY.
[12]	"Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex." Keogh M.-C., Kurdistani S.K., Morris S.A., Ahn S.H., Podolny V., Collins S.R., Schuldiner M., Chin K., Punna T., Thompson N.J., Boone C., Emili A., Weissman J.S., Hughes T.R., Strahl B.D., Grunstein M., Greenblatt J.F., Buratowski S., Krogan N.J. Cell 123:593-605(2005) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE RPD3C(L) COMPLEX, MASS SPECTROMETRY.
[13]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-179; THR-181; SER-211; SER-219 AND SER-226, MASS SPECTROMETRY.
[14]	"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-168, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U62525 Genomic DNA. Translation: AAB40993.1. Z46728 Genomic DNA. Translation: CAA86710.1. AY692879 Genomic DNA. Translation: AAT92898.1. BK006942 Genomic DNA. Translation: DAA08468.1.
PIR	S49796.
RefSeq	NP_012182.1. NM_001179432.1.
3D structure databases
ProteinModelPortal	P40505.
SMR	P40505. Positions 13-51.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-2706N.
IntAct	P40505. 19 interactions.
MINT	MINT-556150.
STRING	4932.YIL084C.
Proteomic databases
PaxDb	P40505.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YIL084C; YIL084C; YIL084C.
GeneID	854725.
KEGG	sce:YIL084C.
Organism-specific databases
CYGD	YIL084c.
SGD	S000001346. SDS3.
Phylogenomic databases
eggNOG	NOG299411.
HOGENOM	HOG000141851.
OMA	MIKLCKE.
OrthoDB	EOG4TB7MC.
Gene expression databases
Genevestigator	P40505.
GermOnline	YIL084C. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR013907. Sds3. [Graphical view]
Pfam	PF08598. Sds3. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	977412.

Entry information

Entry name

SDS3_YEAST

Accession

Primary (citable) accession number: P40505
Secondary accession number(s): D6VVK2

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	May 1, 2013
This is version 107 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

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

Yeast chromosome IX

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

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents