Histone deacetylase 15 - Arabidopsis thaliana (Mouse-ear cress)

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Q8GXJ1 (HDA15_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 55. History...

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

Documents (2) |

Third-party data

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

Names and origin

Protein names

Recommended name:
Histone deacetylase 15
EC=3.5.1.98

Gene names

Name:	HDA15
Ordered Locus Names:	At3g18520
ORF Names:	MYF24_23

Organism

Arabidopsis thaliana (Mouse-ear cress)

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	552 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	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 By similarity.
Catalytic activity	Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone.
Subcellular location	Nucleus By similarity.
Sequence similarities	Belongs to the histone deacetylase family. HD type 2 subfamily. Contains 1 RanBP2-type zinc finger.
Sequence caution	The sequence BAB01118.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Zinc-finger
Ligand	Metal-binding Zinc
Molecular function	Chromatin regulator Hydrolase Repressor
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA mediated transformation Inferred from mutant phenotype. Source: TAIR regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	NAD-dependent histone deacetylase activity (H3-K14 specific) Inferred from electronic annotation. Source: EC NAD-dependent histone deacetylase activity (H3-K9 specific) Inferred from electronic annotation. Source: EC NAD-dependent histone deacetylase activity (H4-K16 specific) Inferred from electronic annotation. Source: EC histone deacetylase activity (H3-K16 specific) Inferred from electronic annotation. Source: EC zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select] Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q8GXJ1-1) This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 552

552

Histone deacetylase 15

PRO_0000280091

Regions

Zinc finger

86 – 115

RanBP2-type

Region

149 – 462

314

Histone deacetylase

Compositional bias

58 – 77

Asp-rich

Sites

Active site

277

By similarity

Experimental info

Sequence conflict

172

P → T in AAM63340. Ref.4

Sequence conflict

253

A → T in BAC42833. Ref.3

Sequence conflict

342

N → I in BAC42833. Ref.3

Sequences

Sequence

Length

Mass (Da)

Tools

Isoform 1 [UniParc].

Last modified November 16, 2011. Version 2.
Checksum: 08BC902FCC99B886
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FASTA

552

60,020

        10         20         30         40         50         60 
MVVETIERSC EGSKRRHVNG GDIAVPCSGE ECSNGDINVA PGVSAKRARV SREMTFEDIY 

        70         80         90        100        110        120 
GADALLNDDD DEDDDCDWEP VQAPMEFVKW CCVNCTMSNP GDMVHCCICG EHKESGILRH 

       130        140        150        160        170        180 
GYLASPFFKD TGLIEVEEKY GGSSSATSST AVGFDERMLL HSEFEVKAQP HPERPDRLRA 

       190        200        210        220        230        240 
IAASLATAGV FPGRCLPINA REITKQELQM VHTSEHVDAV DTTSQLLYSY FTSDTYANEY 

       250        260        270        280        290        300 
SARAARLAAG LCADLATDIF TGRVKNGFAL VRPPGHHAGV RHAMGFCLHN NAAVAALVAQ 

       310        320        330        340        350        360 
AAGAKKVLIV DWDVHHGNGT QEIFEQNKSV LYISLHRHEG GNFYPGTGAA DEVGSNGGEG 

       370        380        390        400        410        420 
YCVNVPWSCG GVGDKDYIFA FQHVVLPIAS AFSPDFVIIS AGFDAARGDP LGCCDVTPAG 

       430        440        450        460        470        480 
YSRMTQMLGD LCGGKMLVIL EGGYNLRSIS ASATAVIKVL LGENPENELP IATTPSVAGL 

       490        500        510        520        530        540 
QTVLDVLNIQ LEFWPSLAIS YSKLLSELEA RLIENKKNQM KRKVVRVPTW WKWGRKKLLY 

       550 
NFLSARMISR SK

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Structural analysis of Arabidopsis thaliana chromosome 3. I. Sequence features of the regions of 4,504,864 bp covered by sixty P1 and TAC clones." Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Tabata S. DNA Res. 7:131-135(2000) [PubMed: 10819329] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[2]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[3]	"Functional annotation of a full-length Arabidopsis cDNA collection." Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T., Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M., Hayashizaki Y., Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T., Shibata K., Shinagawa A., Shinozaki K. Science 296:141-145(2002) [PubMed: 11910074] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[4]	"Full-length cDNA from Arabidopsis thaliana." Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A. Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[5]	"Analysis of histone acetyltransferase and histone deacetylase families of Arabidopsis thaliana suggests functional diversification of chromatin modification among multicellular eukaryotes." Pandey R., Mueller A., Napoli C.A., Selinger D.A., Pikaard C.S., Richards E.J., Bender J., Mount D.W., Jorgensen R.A. Nucleic Acids Res. 30:5036-5055(2002) [PubMed: 12466527] [Abstract] Cited for: GENE FAMILY, NOMENCLATURE.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AB026658 Genomic DNA. Translation: BAB01118.1. Sequence problems. CP002686 Genomic DNA. Translation: AEE76110.1. AK118211 mRNA. Translation: BAC42833.1. AY086135 mRNA. Translation: AAM63340.1.
IPI	IPI00530107. IPI01020137.
RefSeq	NP_566612.1. NM_112737.2.
UniGene	At.38541.
3D structure databases
HSSP	HSSP built from PDB template 1ZZ0 based on UniProtKB Q70I53.
ProteinModelPortal	Q8GXJ1.
ModBase	Search...
Protein-protein interaction databases
STRING	Q8GXJ1.
Proteomic databases
PRIDE	Q8GXJ1.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	821382.
GenomeReviews	Gene locus AT3G18520 in contig BA000014_GR.
Organism-specific databases
TAIR	At3g18520.
Phylogenomic databases
eggNOG	KOG1343.
GeneTree	EPGT00070000030981.
HOGENOM	HBG746265.
InParanoid	Q8GXJ1.
PhylomeDB	Q8GXJ1.
Gene expression databases
Genevestigator	Q8GXJ1.
Family and domain databases
InterPro	IPR000286. His_deacetylse. IPR023801. His_deacetylse_dom. IPR001876. Znf_RanBP2. [Graphical view]
Gene3D	G3DSA:3.40.800.20. His_deacetylse. 1 hit.
PANTHER	PTHR10625. His_deacetylse. 1 hit.
Pfam	PF00850. Hist_deacetyl. 1 hit. [Graphical view]
PRINTS	PR01270. HDASUPER.
PROSITE	PS01358. ZF_RANBP2_1. 1 hit. PS50199. ZF_RANBP2_2. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

HDA15_ARATH

Accession

Primary (citable) accession number: Q8GXJ1
Secondary accession number(s): F4J8S2

Q9LS38

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 6, 2007
Last sequence update:	November 16, 2011
Last modified:	January 25, 2012
This is version 55 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

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

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Alternative products

Sequence annotation (Features)

Molecule processing

Regions

Sites

Experimental info

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

Entry information

Relevant documents