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Q944K3

- HDA2_ARATH

UniProt

Q944K3 - HDA2_ARATH

Protein

Histone deacetylase 2

Gene

HDA2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 83 (01 Oct 2014)
      Sequence version 2 (06 Mar 2007)
      Previous versions | rss
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    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.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 – 2011By 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

    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

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 387387Histone deacetylase 2PRO_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.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni73 – 382310Histone deacetylaseAdd
    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. 1 PublicationVSP_023527Add
    BLAST
    Alternative sequencei253 – 2619NRVYILDMY → SMIKTLYIS in isoform 2. 1 PublicationVSP_023528
    Alternative sequencei262 – 387126Missing in isoform 2. 1 PublicationVSP_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

    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: October 1, 2014
    This is version 83 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