Transcriptional regulatory protein UME1 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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Q03010 (UME1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 111. History...

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

Documents (2) |

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 UME1

Alternative name(s):
WD repeat-containing transcriptional modulator 3

Gene names

Name:	UME1
Synonyms:	WTM3
Ordered Locus Names:	YPL139C
ORF Names:	LPI7C

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	460 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Catalytic component of the RPD3 histone deacetylase complexes RPD3C(L) and RPD3C(S) 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. Ref.4 Ref.5 Ref.9
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. Component of the RPD3C(S) complex composed of at least EAF3, RCO1, RPD3, SIN3, and UME1. Interacts with RPD3. Ref.5
Subcellular location	Cytoplasm. Nucleus Ref.4 Ref.6.
Induction	By glucose. Ref.5
Domain	The NEE-box motif is required for the association to RPD3. Ref.5
Miscellaneous	Present with 3040 molecules/cell in log phase SD medium. Ref.7
Sequence similarities	Contains 4 WD repeats.

Ontologies

Keywords
Biological process	Meiosis Transcription Transcription regulation
Cellular component	Cytoplasm Nucleus
Domain	Repeat WD repeat
Molecular function	Chromatin regulator Repressor
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	cellular response to heat Inferred from mutant phenotype. Source: SGD chromatin modification Inferred from electronic annotation. Source: UniProtKB-KW meiosis Inferred from electronic annotation. Source: UniProtKB-KW negative regulation of chromatin silencing at telomere Inferred from mutant phenotype. Source: SGD negative regulation of transcription from RNA polymerase I promoter Inferred from mutant phenotype. Source: SGD positive regulation of transcription from RNA polymerase II promoter Inferred from mutant phenotype. Source: SGD regulation of meiosis Inferred from genetic interaction Ref.4. Source: SGD transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	Rpd3L complex Inferred from direct assay Ref.9 Ref.8. Source: SGD Rpd3L-Expanded complex Inferred from direct assay. Source: SGD Rpd3S complex Inferred from direct assay Ref.9. Source: SGD cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	transcription corepressor activity Inferred from direct assay Ref.4. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 460

460

Transcriptional regulatory protein UME1

PRO_0000051315

Regions

Repeat

233 – 271

WD 1

Repeat

276 – 316

WD 2

Repeat

339 – 379

WD 3

Repeat

411 – 451

WD 4

Motif

14 – 22

NEE-box

Amino acid modifications

Modified residue

177

Phosphoserine Ref.10

Sequences

Sequence

Length

Mass (Da)

Tools

Q03010 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: AA6F60448B7BCBA9
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FASTA

460

51,022

        10         20         30         40         50         60 
MSTLDIAEDN KIKNEEFKIW KKSIPSLYQH ISSLKPIFGS GVDESPSTLR SIVFTNDSSC 

        70         80         90        100        110        120 
NKSKGVLSVP LLYSQGSEIF EVDCIVPLGL HYKKPESISE PLVQPDYTME SQKVEQTVLI 

       130        140        150        160        170        180 
PKWEFKGETI AKMIYVDNSE INVKVIALST NGSLAWFREG VKSPVYTMME PSTSLSSASS 

       190        200        210        220        230        240 
GNQNKPCVDF AISNDSKTLT VTKEKHLDNE NATIKLIDNS GKIGEVLRTI PVPGIKNIQE 

       250        260        270        280        290        300 
IKFLNNQIFA TCSDDGIIRF WGNEIGKKPL WILNDSLDGK TTCFAASPFV DTLFMTGTSG 

       310        320        330        340        350        360 
GALKVWDIRA VIALGDADAE LNINQGHNKV NELFKVHHFY SEQVSKIEFS SISPMEVVTI 

       370        380        390        400        410        420 
GGLGNVYHWN FEPVFAIYNE IHEDFQGIIS DELEAESMAF YHTEGCRREI GENNKVNTVA 

       430        440        450        460 
YHKYIEDLVA TVDSDGLLTV YKPFTGKVLD GSREVGAAKS

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	Mallory M.J., Strich R. Submitted (JAN-1997) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204626 / S288c / A364A.
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI." Bussey H., Storms R.K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B.G., Badcock K., Benes V., Botstein D., Bowman S., Brueckner M., Carpenter J., Cherry J.M., Chung E., Churcher C.M. Hani J. Nature 387:103-105(1997) [PubMed: 9169875] [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]	"Characterization of the Wtm proteins, a novel family of Saccharomyces cerevisiae transcriptional modulators with roles in meiotic regulation and silencing." Pemberton L.F., Blobel G. Mol. Cell. Biol. 17:4830-4841(1997) [PubMed: 9234739] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION.
[5]	"Ume1p represses meiotic gene transcription in Saccharomyces cerevisiae through interaction with the histone deacetylase Rpd3p." Mallory M.J., Strich R. J. Biol. Chem. 278:44727-44734(2003) [PubMed: 12954623] [Abstract] Cited for: FUNCTION, INDUCTION, DOMAINS, INTERACTION WITH RPD3.
[6]	"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].
[7]	"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].
[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(2005) [PubMed: 16314178] [Abstract] Cited for: IDENTIFICATION IN THE RPD3C(L) COMPLEX, MASS SPECTROMETRY.
[9]	"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: 16286008] [Abstract] Cited for: IDENTIFICATION IN THE RPD3C(L) AND RPD3C(S) COMPLEXES, MASS SPECTROMETRY, FUNCTION OF THE RPD3C(S) COMPLEX.
[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(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-177, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U10280 Genomic DNA. Translation: AAB40937.1. U43703 Genomic DNA. Translation: AAB68221.1. BK006949 Genomic DNA. Translation: DAA11295.1.
PIR	S69046.
RefSeq	NP_015186.1. NM_001183953.1.
3D structure databases
ProteinModelPortal	Q03010.
SMR	Q03010. Positions 411-446.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-5290N.
IntAct	Q03010. 24 interactions.
MINT	MINT-549714.
STRING	Q03010.
Proteomic databases
PeptideAtlas	Q03010.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YPL139C; YPL139C; YPL139C.
GeneID	855964.
KEGG	sce:YPL139C.
NMPDR	fig\|4932.3.peg.6316.
Organism-specific databases
CYGD	YPL139c.
SGD	S000006060. UME1.
Phylogenomic databases
eggNOG	fuNOG09199.
GeneTree	EFGT00050000008609.
HOGENOM	HBG203882.
OrthoDB	EOG4F21C9.
Gene expression databases
ArrayExpress	Q03010.
Genevestigator	Q03010.
GermOnline	YPL139C. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR015943. WD40/YVTN_repeat-like_dom. IPR001680. WD40_repeat. IPR011046. WD40_repeat-like_dom. [Graphical view]
Gene3D	G3DSA:2.130.10.10. WD40/YVTN_repeat-like. 1 hit.
Pfam	PF00400. WD40. 1 hit. [Graphical view]
SMART	SM00320. WD40. 4 hits. [Graphical view]
SUPFAM	SSF50978. WD40_like. 1 hit.
PROSITE	PS00678. WD_REPEATS_1. False negative. PS50082. WD_REPEATS_2. False negative. PS50294. WD_REPEATS_REGION. False negative. [Graphical view]
ProtoNet	Search...
Other
NextBio	980768.

Entry information

Entry name

UME1_YEAST

Accession

Primary (citable) accession number: Q03010
Secondary accession number(s): D6W3M9, P87330

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1996
Last modified:	January 25, 2012
This is version 111 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

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