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Protein

Histone deacetylase clr6

Gene

clr6

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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. Histone deacetylases act via the formation of large multiprotein complexes. Has a role in chromatin assembly and chromosome segregation.1 Publication

Catalytic activityi

Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei138 – 1381By similarity

GO - Molecular functioni

  1. histone deacetylase activity Source: PomBase
  2. histone deacetylase activity (H3-K9 specific) Source: PomBase
  3. NAD-dependent histone deacetylase activity (H3-K14 specific) Source: UniProtKB-EC
  4. NAD-dependent histone deacetylase activity (H3-K18 specific) Source: UniProtKB-EC
  5. NAD-dependent histone deacetylase activity (H3-K9 specific) Source: UniProtKB-EC
  6. NAD-dependent histone deacetylase activity (H4-K16 specific) Source: UniProtKB-EC

GO - Biological processi

  1. chromatin remodeling Source: PomBase
  2. chromatin silencing at centromere Source: PomBase
  3. chromatin silencing at silent mating-type cassette Source: PomBase
  4. histone deacetylation Source: PomBase
  5. histone H3-K9 deacetylation Source: GOC
  6. histone H3-K9 modification Source: GOC
  7. mitotic sister chromatid segregation Source: PomBase
  8. negative regulation of transcription from RNA polymerase II promoter Source: PomBase
  9. positive regulation of transcription from RNA polymerase II promoter Source: PomBase
  10. regulation of histone H3-K9 methylation Source: PomBase
  11. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Hydrolase, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Histone deacetylase clr6 (EC:3.5.1.98)
Alternative name(s):
Cryptic loci regulator 6
Gene namesi
Name:clr6
ORF Names:SPBC36.05c
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
ProteomesiUP000002485 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:SPBC36.05c.
PomBaseiSPBC36.05c.

Subcellular locationi

  1. Nucleus 1 Publication

GO - Cellular componenti

  1. Clr6 histone deacetylase complex I'' Source: PomBase
  2. cytosol Source: PomBase
  3. nuclear chromatin Source: PomBase
  4. Rpd3L complex Source: PomBase
  5. Rpd3L-Expanded complex Source: PomBase
  6. Rpd3S complex Source: PomBase
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 405405Histone deacetylase clr6PRO_0000114740Add
BLAST

Proteomic databases

MaxQBiO59702.

Interactioni

Subunit structurei

Heterotetramer of alp13, clr6, prw1 and pst2.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
pst2O139195EBI-904651,EBI-904686

Protein-protein interaction databases

BioGridi276897. 37 interactions.
DIPiDIP-29339N.
IntActiO59702. 4 interactions.
MINTiMINT-4675495.
STRINGi4896.SPBC36.05c-1.

Structurei

3D structure databases

ProteinModelPortaliO59702.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni6 – 318313Histone deacetylaseAdd
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0123.
HOGENOMiHOG000225180.
InParanoidiO59702.
KOiK06067.
OMAiESVFKPV.
OrthoDBiEOG78M0B2.
PhylomeDBiO59702.

Family and domain databases

Gene3Di3.40.800.20. 1 hit.
InterProiIPR000286. His_deacetylse.
IPR003084. His_deacetylse_1.
IPR023801. His_deacetylse_dom.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PIRSFiPIRSF037913. His_deacetylse_1. 1 hit.
PRINTSiPR01270. HDASUPER.
PR01271. HISDACETLASE.

Sequencei

Sequence statusi: Complete.

O59702-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGFGKKKVSY FYDEDVGNYH YGPQHPMKPH RVRMVHNLVV NYNLYEKLNV
60 70 80 90 100
ITPVRATRND MTRCHTDEYI EFLWRVTPDT MEKFQPHQLK FNVGDDCPVF
110 120 130 140 150
DGLYEFCSIS AGGSIGAAQE LNSGNAEIAI NWAGGLHHAK KREASGFCYV
160 170 180 190 200
NDIALAALEL LKYHQRVLYI DIDVHHGDGV EEFFYTTDRV MTCSFHKFGE
210 220 230 240 250
YFPGTGHIKD TGIGTGKNYA VNVPLRDGID DESYESVFKP VISHIMQWFR
260 270 280 290 300
PEAVILQCGT DSLAGDRLGC FNLSMKGHSM CVDFVKSFNL PMICVGGGGY
310 320 330 340 350
TVRNVARVWT YETGLLAGEE LDENLPYNDY LQYYGPDYKL NVLSNNMENH
360 370 380 390 400
NTRQYLDSIT SEIIENLRNL SFAPSVQMHK TPGDFTFENA EKQNIAKEEI

MDERV
Length:405
Mass (Da):46,112
Last modified:August 1, 1998 - v1
Checksum:i8EDEA43D5839E367
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF064206 Genomic DNA. Translation: AAD05211.1.
CU329671 Genomic DNA. Translation: CAA19053.1.
PIRiT40300.
RefSeqiNP_595333.1. NM_001021241.2.

Genome annotation databases

EnsemblFungiiSPBC36.05c.1; SPBC36.05c.1:pep; SPBC36.05c.
GeneIDi2540368.
KEGGispo:SPBC36.05c.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF064206 Genomic DNA. Translation: AAD05211.1.
CU329671 Genomic DNA. Translation: CAA19053.1.
PIRiT40300.
RefSeqiNP_595333.1. NM_001021241.2.

3D structure databases

ProteinModelPortaliO59702.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi276897. 37 interactions.
DIPiDIP-29339N.
IntActiO59702. 4 interactions.
MINTiMINT-4675495.
STRINGi4896.SPBC36.05c-1.

Proteomic databases

MaxQBiO59702.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiSPBC36.05c.1; SPBC36.05c.1:pep; SPBC36.05c.
GeneIDi2540368.
KEGGispo:SPBC36.05c.

Organism-specific databases

EuPathDBiFungiDB:SPBC36.05c.
PomBaseiSPBC36.05c.

Phylogenomic databases

eggNOGiCOG0123.
HOGENOMiHOG000225180.
InParanoidiO59702.
KOiK06067.
OMAiESVFKPV.
OrthoDBiEOG78M0B2.
PhylomeDBiO59702.

Miscellaneous databases

NextBioi20801496.
PROiO59702.

Family and domain databases

Gene3Di3.40.800.20. 1 hit.
InterProiIPR000286. His_deacetylse.
IPR003084. His_deacetylse_1.
IPR023801. His_deacetylse_dom.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PIRSFiPIRSF037913. His_deacetylse_1. 1 hit.
PRINTSiPR01270. HDASUPER.
PR01271. HISDACETLASE.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Histone deacetylase homologs regulate epigenetic inheritance of transcriptional silencing and chromosome segregation in fission yeast."
    Grewal S.I.S., Bonaduce M.J., Klar A.J.S.
    Genetics 150:563-576(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 972 / ATCC 24843.
  2. "The genome sequence of Schizosaccharomyces pombe."
    Wood V., Gwilliam R., Rajandream M.A., Lyne M.H., Lyne R., Stewart A., Sgouros J.G., Peat N., Hayles J., Baker S.G., Basham D., Bowman S., Brooks K., Brown D., Brown S., Chillingworth T., Churcher C.M., Collins M.
    , Connor R., Cronin A., Davis P., Feltwell T., Fraser A., Gentles S., Goble A., Hamlin N., Harris D.E., Hidalgo J., Hodgson G., Holroyd S., Hornsby T., Howarth S., Huckle E.J., Hunt S., Jagels K., James K.D., Jones L., Jones M., Leather S., McDonald S., McLean J., Mooney P., Moule S., Mungall K.L., Murphy L.D., Niblett D., Odell C., Oliver K., O'Neil S., Pearson D., Quail M.A., Rabbinowitsch E., Rutherford K.M., Rutter S., Saunders D., Seeger K., Sharp S., Skelton J., Simmonds M.N., Squares R., Squares S., Stevens K., Taylor K., Taylor R.G., Tivey A., Walsh S.V., Warren T., Whitehead S., Woodward J.R., Volckaert G., Aert R., Robben J., Grymonprez B., Weltjens I., Vanstreels E., Rieger M., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Duesterhoeft A., Fritzc C., Holzer E., Moestl D., Hilbert H., Borzym K., Langer I., Beck A., Lehrach H., Reinhardt R., Pohl T.M., Eger P., Zimmermann W., Wedler H., Wambutt R., Purnelle B., Goffeau A., Cadieu E., Dreano S., Gloux S., Lelaure V., Mottier S., Galibert F., Aves S.J., Xiang Z., Hunt C., Moore K., Hurst S.M., Lucas M., Rochet M., Gaillardin C., Tallada V.A., Garzon A., Thode G., Daga R.R., Cruzado L., Jimenez J., Sanchez M., del Rey F., Benito J., Dominguez A., Revuelta J.L., Moreno S., Armstrong J., Forsburg S.L., Cerutti L., Lowe T., McCombie W.R., Paulsen I., Potashkin J., Shpakovski G.V., Ussery D., Barrell B.G., Nurse P.
    Nature 415:871-880(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 972 / ATCC 24843.
  3. "Alp13, an MRG family protein, is a component of fission yeast Clr6 histone deacetylase required for genomic integrity."
    Nakayama J., Xiao G., Noma K., Malikzay A., Bjerling P., Ekwall K., Kobayashi R., Grewal S.I.S.
    EMBO J. 22:2776-2787(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 340-368 AND 381-404, FUNCTION, SUBUNIT, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiCLR6_SCHPO
AccessioniPrimary (citable) accession number: O59702
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 25, 2003
Last sequence update: August 1, 1998
Last modified: April 29, 2015
This is version 110 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

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.