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Q944K3

- HDA2_ARATH

UniProt

Q944K3 - HDA2_ARATH

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Protein
Histone deacetylase 2
Gene
HDA2, At5g26040, T1N24.9
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at transcript 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 By similarity.

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 sitei201 – 2011 By similarity

GO - Molecular functioni

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

GO - Biological processi

  1. regulation of transcription, DNA-templated Source: UniProtKB-KW
  2. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Hydrolase, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciARA:AT5G26040-MONOMER.
ARA:GQT-646-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Histone deacetylase 2 (EC:3.5.1.98)
Gene namesi
Name:HDA2
Ordered Locus Names:At5g26040
ORF Names:T1N24.9
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 5

Organism-specific databases

TAIRiAT5G26040.

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 387387Histone deacetylase 2
PRO_0000280083Add
BLAST

Proteomic databases

PaxDbiQ944K3.
PRIDEiQ944K3.

Expressioni

Gene expression databases

GenevestigatoriQ944K3.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT5G26040.2-P.

Structurei

3D structure databases

ProteinModelPortaliQ944K3.
SMRiQ944K3. Positions 93-376.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni73 – 382310Histone deacetylase
Add
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0123.
HOGENOMiHOG000280018.
InParanoidiQ944K3.
KOiK11418.
OMAiDIIVYNA.
PhylomeDBiQ944K3.

Family and domain databases

Gene3Di3.40.800.20. 1 hit.
InterProiIPR000286. His_deacetylse.
IPR023801. His_deacetylse_dom.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PRINTSiPR01270. HDASUPER.

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q944K3-1) [UniParc]FASTAAdd to Basket

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.

« Hide

MTHTRVISTW TELTRDLAIY LLFTFFAIKV FKFLFSCNRT SEISSFSMAT    50
HPEALRRERI LNSKLYFDVP LSKVSIIYSS SYDISFMGIE KLHPFDSSKW 100
GRVCKFLVSD GFLEEKAIVE PLEASKIDLL VVHSENYLNS LKSSATVARI 150
TEVAPVAFFP NFLVQQKVLY PFRKQVGGTI LAAKLATERG WAINIGGGFH 200
HCTAERGGGF CAFADISLCI HFAFLRLRIS RVMIIDLDAH QGNGHETDLG 250
DDNRVYILDM YNPEIYPFDY RARRFIDQKV EVMSGTTTDE YLRKLDEALE 300
VASRNFQPEL VIYNAGTDIL DGDPLGLLKI SPDGITSRDE KVFRFAREKN 350
IPLVMLTSGG YMKSSARVIA DSIENLSRQG LIQTRPE 387
Length:387
Mass (Da):43,804
Last modified:March 6, 2007 - v2
Checksum:i4BC4C14D6F0C4808
GO
Isoform 2 (identifier: Q944K3-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     253-261: NRVYILDMY → SMIKTLYIS
     262-387: Missing.

Note: May be due to intron retention. No experimental confirmation available.

Show »
Length:261
Mass (Da):29,407
Checksum:i0452A8B9401EC669
GO
Isoform 3 (identifier: Q944K3-3) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     208-235: Missing.

Note: Derived from EST data. May be due to a competing acceptor splice site. No experimental confirmation available.

Show »
Length:359
Mass (Da):40,651
Checksum:i24993D8597EDD144
GO

Sequence cautioni

The sequence AAD40129.1 differs from that shown. Reason: Erroneous gene model prediction.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei208 – 23528Missing in isoform 3.
VSP_023527Add
BLAST
Alternative sequencei253 – 2619NRVYILDMY → SMIKTLYIS in isoform 2.
VSP_023528
Alternative sequencei262 – 387126Missing in isoform 2.
VSP_023529Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF149413 Genomic DNA. Translation: AAD40129.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED93516.1.
CP002688 Genomic DNA. Translation: AED93517.1.
AF428336 mRNA. Translation: AAL16266.1.
BT002252 mRNA. Translation: AAN72263.1.
AF510671 mRNA. Translation: AAM34784.1.
AF510165 mRNA. No translation available.
RefSeqiNP_568480.2. NM_122505.3. [Q944K3-1]
NP_851078.1. NM_180747.2. [Q944K3-3]
UniGeneiAt.58.
At.70191.

Genome annotation databases

EnsemblPlantsiAT5G26040.2; AT5G26040.2; AT5G26040. [Q944K3-1]
GeneIDi832673.
KEGGiath:AT5G26040.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF149413 Genomic DNA. Translation: AAD40129.1 . Sequence problems.
CP002688 Genomic DNA. Translation: AED93516.1 .
CP002688 Genomic DNA. Translation: AED93517.1 .
AF428336 mRNA. Translation: AAL16266.1 .
BT002252 mRNA. Translation: AAN72263.1 .
AF510671 mRNA. Translation: AAM34784.1 .
AF510165 mRNA. No translation available.
RefSeqi NP_568480.2. NM_122505.3. [Q944K3-1 ]
NP_851078.1. NM_180747.2. [Q944K3-3 ]
UniGenei At.58.
At.70191.

3D structure databases

ProteinModelPortali Q944K3.
SMRi Q944K3. Positions 93-376.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 3702.AT5G26040.2-P.

Proteomic databases

PaxDbi Q944K3.
PRIDEi Q944K3.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT5G26040.2 ; AT5G26040.2 ; AT5G26040 . [Q944K3-1 ]
GeneIDi 832673.
KEGGi ath:AT5G26040.

Organism-specific databases

TAIRi AT5G26040.

Phylogenomic databases

eggNOGi COG0123.
HOGENOMi HOG000280018.
InParanoidi Q944K3.
KOi K11418.
OMAi DIIVYNA.
PhylomeDBi Q944K3.

Enzyme and pathway databases

BioCyci ARA:AT5G26040-MONOMER.
ARA:GQT-646-MONOMER.

Miscellaneous databases

PROi Q944K3.

Gene expression databases

Genevestigatori Q944K3.

Family and domain databases

Gene3Di 3.40.800.20. 1 hit.
InterProi IPR000286. His_deacetylse.
IPR023801. His_deacetylse_dom.
[Graphical view ]
PANTHERi PTHR10625. PTHR10625. 1 hit.
Pfami PF00850. Hist_deacetyl. 1 hit.
[Graphical view ]
PRINTSi PR01270. HDASUPER.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."
    Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.
    , Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.
    Nature 408:823-826(2000) [PubMed] [Europe PMC] [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. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: cv. Columbia.
  4. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 48-387 (ISOFORMS 1 AND 3), GENE FAMILY, NOMENCLATURE.

Entry informationi

Entry nameiHDA2_ARATH
AccessioniPrimary (citable) accession number: Q944K3
Secondary accession number(s): Q3E940, Q8LRK7, Q9XH00
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: March 6, 2007
Last modified: May 14, 2014
This is version 82 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi