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Q8LRK8

- HDA18_ARATH

UniProt

Q8LRK8 - HDA18_ARATH

Protein

Histone deacetylase 18

Gene

HDA18

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 70 (01 Oct 2014)
      Sequence version 1 (01 Oct 2002)
      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. Required for appropriate cellular patterning in the root epidermis. 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 sitei191 – 1911By similarity

    GO - Molecular functioni

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

    GO - Biological processi

    1. chromatin remodeling Source: TAIR
    2. histone deacetylation Source: GOC
    3. regulation of epidermal cell differentiation Source: TAIR
    4. regulation of transcription, DNA-templated Source: UniProtKB-KW
    5. root epidermal cell differentiation Source: TAIR
    6. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Hydrolase, Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation

    Enzyme and pathway databases

    BioCyciARA:AT5G61070-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone deacetylase 18 (EC:3.5.1.98)
    Gene namesi
    Name:HDA18
    Ordered Locus Names:At5g61070
    ORF Names:MAF19.8
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 5

    Organism-specific databases

    TAIRiAT5G61070.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. cytoplasm Source: TAIR
    2. nucleus Source: TAIR

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 682682Histone deacetylase 18PRO_0000280093Add
    BLAST

    Proteomic databases

    PRIDEiQ8LRK8.

    Expressioni

    Gene expression databases

    GenevestigatoriQ8LRK8.

    Interactioni

    Protein-protein interaction databases

    BioGridi21472. 1 interaction.
    STRINGi3702.AT5G61070.1-P.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8LRK8.
    SMRiQ8LRK8. Positions 61-413.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni59 – 382324Histone deacetylaseAdd
    BLAST

    Coiled coil

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Coiled coili430 – 608179Sequence AnalysisAdd
    BLAST

    Sequence similaritiesi

    Keywords - Domaini

    Coiled coil

    Phylogenomic databases

    eggNOGiCOG0123.
    InParanoidiQ8LRK8.
    KOiK11407.
    OMAiLVYDETM.
    PhylomeDBiQ8LRK8.

    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.

    Sequencei

    Sequence statusi: Complete.

    Q8LRK8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLLKFEASSE LRLVDPSVSL TVLRKIRLSH LPDMTMTSES SGKKCGEGDG    50
    KVAGKSQRKV GLVYDETMCK HDTPNGKVDV ECPDRIRVIW EKLQLAGVTQ 100
    RCVVLGGSKA EDKHLKLVHT KKHVNLVKSI STKKKDSRRN KIASQLDSIY 150
    LNGGSSEAAY LAAGSVVKVA EKVAEGELDC GFAIVRPPGH HAESDEAMGF 200
    CLFNNVAVAA SFLLNERPDL DVKKILIVDW DIHHGNGTQK MFWKDSRVLI 250
    FSVHRHDHGS FYPFGDDGDF NMVGEGPGEG FNINVPWEQG GCGDADYLAV 300
    WNHILIPVTK EFKPDIILLS AGFDAAIGDP LGGCCVTPYG YSVMLKKLME 350
    FAHGKIVLAL EGGYNLESLG KSSLACVQVL LEDKQIHGSS ETYPLESTRR 400
    VIQAVRERLC TYWPSLDASM ASNENLKNPS AERNSADALL REVEELKSLM 450
    AARDGELEAR RKELKAKNKE LEANEKELEA GLMLIRARED VICGLHAKIE 500
    SLQQERDEAV AKAERIDKEL QEDRARSQEF KEDTEFCLST LRREKELAIM 550
    AKNKDLEAKE KELEARLMLV HAREDKIHAK IERLQQERDE AVAKAERIDK 600
    ELQEDRSRSR VGNGSFAFSQ EFYEDMDLDE LEPLSPEFNE DMDSEELEPF 650
    QVIKKNMERS HKKFIKDMEC IKFIASERAR VL 682
    Length:682
    Mass (Da):76,634
    Last modified:October 1, 2002 - v1
    Checksum:i67D91533AB998840
    GO

    Sequence cautioni

    The sequence BAB10370.1 differs from that shown. Reason: Erroneous gene model prediction.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF510670 mRNA. Translation: AAM34783.1.
    AB006696 Genomic DNA. Translation: BAB10370.1. Sequence problems.
    CP002688 Genomic DNA. Translation: AED97419.1.
    RefSeqiNP_200915.2. NM_125500.2.
    UniGeneiAt.29127.

    Genome annotation databases

    EnsemblPlantsiAT5G61070.1; AT5G61070.1; AT5G61070.
    GeneIDi836228.
    KEGGiath:AT5G61070.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF510670 mRNA. Translation: AAM34783.1 .
    AB006696 Genomic DNA. Translation: BAB10370.1 . Sequence problems.
    CP002688 Genomic DNA. Translation: AED97419.1 .
    RefSeqi NP_200915.2. NM_125500.2.
    UniGenei At.29127.

    3D structure databases

    ProteinModelPortali Q8LRK8.
    SMRi Q8LRK8. Positions 61-413.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 21472. 1 interaction.
    STRINGi 3702.AT5G61070.1-P.

    Proteomic databases

    PRIDEi Q8LRK8.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT5G61070.1 ; AT5G61070.1 ; AT5G61070 .
    GeneIDi 836228.
    KEGGi ath:AT5G61070.

    Organism-specific databases

    TAIRi AT5G61070.

    Phylogenomic databases

    eggNOGi COG0123.
    InParanoidi Q8LRK8.
    KOi K11407.
    OMAi LVYDETM.
    PhylomeDBi Q8LRK8.

    Enzyme and pathway databases

    BioCyci ARA:AT5G61070-MONOMER.

    Gene expression databases

    Genevestigatori Q8LRK8.

    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. "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], GENE FAMILY, NOMENCLATURE.
    2. "Structural analysis of Arabidopsis thaliana chromosome 5. II. Sequence features of the regions of 1,044,062 bp covered by thirteen physically assigned P1 clones."
      Kotani H., Nakamura Y., Sato S., Kaneko T., Asamizu E., Miyajima N., Tabata S.
      DNA Res. 4:291-300(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Columbia.
    3. The Arabidopsis Information Resource (TAIR)
      Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
      Cited for: GENOME REANNOTATION.
      Strain: cv. Columbia.
    4. "Histone acetylation affects expression of cellular patterning genes in the Arabidopsis root epidermis."
      Xu C.-R., Liu C., Wang Y.-L., Li L.-C., Chen W.-Q., Xu Z.-H., Bai S.-N.
      Proc. Natl. Acad. Sci. U.S.A. 102:14469-14474(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.

    Entry informationi

    Entry nameiHDA18_ARATH
    AccessioniPrimary (citable) accession number: Q8LRK8
    Secondary accession number(s): Q9FNQ7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 6, 2007
    Last sequence update: October 1, 2002
    Last modified: October 1, 2014
    This is version 70 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    HDA5, a tandem duplication of HDA18, is not required for the cellular patterning in the root epidermis.

    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