Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q944K3 (HDA2_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 81. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Histone deacetylase 2

EC=3.5.1.98
Gene names
Name:HDA2
Ordered Locus Names:At5g26040
ORF Names:T1N24.9
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length387 AA.
Sequence statusComplete.
Protein existenceEvidence 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 3 subfamily.

Sequence caution

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

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q944K3-1)

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.
Isoform 2 (identifier: Q944K3-2)

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.
Isoform 3 (identifier: Q944K3-3)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 387387Histone deacetylase 2
PRO_0000280083

Regions

Region73 – 382310Histone deacetylase

Sites

Active site2011 By similarity

Natural variations

Alternative sequence208 – 23528Missing in isoform 3.
VSP_023527
Alternative sequence253 – 2619NRVYILDMY → SMIKTLYIS in isoform 2.
VSP_023528
Alternative sequence262 – 387126Missing in isoform 2.
VSP_023529

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified March 6, 2007. Version 2.
Checksum: 4BC4C14D6F0C4808

FASTA38743,804
        10         20         30         40         50         60 
MTHTRVISTW TELTRDLAIY LLFTFFAIKV FKFLFSCNRT SEISSFSMAT HPEALRRERI 

        70         80         90        100        110        120 
LNSKLYFDVP LSKVSIIYSS SYDISFMGIE KLHPFDSSKW GRVCKFLVSD GFLEEKAIVE 

       130        140        150        160        170        180 
PLEASKIDLL VVHSENYLNS LKSSATVARI TEVAPVAFFP NFLVQQKVLY PFRKQVGGTI 

       190        200        210        220        230        240 
LAAKLATERG WAINIGGGFH HCTAERGGGF CAFADISLCI HFAFLRLRIS RVMIIDLDAH 

       250        260        270        280        290        300 
QGNGHETDLG DDNRVYILDM YNPEIYPFDY RARRFIDQKV EVMSGTTTDE YLRKLDEALE 

       310        320        330        340        350        360 
VASRNFQPEL VIYNAGTDIL DGDPLGLLKI SPDGITSRDE KVFRFAREKN IPLVMLTSGG 

       370        380 
YMKSSARVIA DSIENLSRQG LIQTRPE 

« Hide

Isoform 2 [UniParc].

Checksum: 0452A8B9401EC669
Show »

FASTA26129,407
Isoform 3 [UniParc].

Checksum: 24993D8597EDD144
Show »

FASTA35940,651

References

« Hide 'large scale' references
[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. expand/collapse author list , 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. expand/collapse author list , 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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
RefSeqNP_568480.2. NM_122505.3.
NP_851078.1. NM_180747.2.
UniGeneAt.58.
At.70191.

3D structure databases

ProteinModelPortalQ944K3.
SMRQ944K3. Positions 93-376.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING3702.AT5G26040.2-P.

Proteomic databases

PaxDbQ944K3.
PRIDEQ944K3.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT5G26040.2; AT5G26040.2; AT5G26040. [Q944K3-1]
GeneID832673.
KEGGath:AT5G26040.

Organism-specific databases

TAIRAT5G26040.

Phylogenomic databases

eggNOGCOG0123.
HOGENOMHOG000280018.
InParanoidQ944K3.
KOK11418.
OMAFCPYADI.
PhylomeDBQ944K3.
ProtClustDBCLSN2680263.

Enzyme and pathway databases

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

Gene expression databases

GenevestigatorQ944K3.

Family and domain databases

Gene3D3.40.800.20. 1 hit.
InterProIPR000286. His_deacetylse.
IPR023801. His_deacetylse_dom.
[Graphical view]
PANTHERPTHR10625. PTHR10625. 1 hit.
PfamPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PRINTSPR01270. HDASUPER.
ProtoNetSearch...

Other

PROQ944K3.

Entry information

Entry nameHDA2_ARATH
AccessionPrimary (citable) accession number: Q944K3
Secondary accession number(s): Q3E940, Q8LRK7, Q9XH00
Entry history
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: March 6, 2007
Last modified: April 16, 2014
This is version 81 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names