Reviewed,
UniProtKB/Swiss-Prot O22446 (HDA19_ARATH)
Last modified
November 3, 2009.
Version 80.
History...
Clusters with 100%,
90%,
50% identity |
Documents (2) |
Third-party data |
Customize display | text xml rdf/xml gff fasta |
Names and origin
| Protein names | Recommended name: Histone deacetylase 19 Short name=HD Short name=AtHD1 EC=3.5.1.98 | ||||||||
| Gene names |
| ||||||||
| Organism | Arabidopsis thaliana (Mouse-ear cress) [Complete proteome] | ||||||||
| Taxonomic identifier | 3702 [NCBI] | ||||||||
| Taxonomic lineage | Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis |
Protein attributes
| Sequence length | 501 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is not processed. |
| Protein existence | Evidence at protein 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. HDA19 is involved in jasmonic acid and ethylene signaling of pathogen response. Ref.2 Ref.6 Ref.8 Ref.10 |
| Catalytic activity | Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone. |
| Subunit structure | |
| Subcellular location | Nucleus. Note: excluded from the nucleolus, but associated with the condensing chromatids. Ref.8 Ref.10 |
| Tissue specificity | Highly expressed in leaves, stems, flowers and young siliques. Ref.2 Ref.6 Ref.10 |
| Induction | By jasmonic acid, ethylene, wounding and pathogen infection. Inhibited by sodium butyrate. Ref.8 Ref.10 |
| Miscellaneous | Loss-of-function mutant (antisense inhibition) has an increased level of tetraacetylated histone H4 and shows late flowering, developmental pleiotropy and increased symptoms when infected by a pathogen. |
| Sequence similarities | Belongs to the histone deacetylase family. Type 1 subfamily. |
Ontologies
Binary interactions
With | Entry | #Exp. | IntAct | Notes |
|---|---|---|---|---|
| At2g45640 | O64644 | 1 | EBI-593040,EBI-965964 | |
| SCL1 | Q6DLS1 | 3 | EBI-593040,EBI-593035 | From a different organism. |
| WRKY38 | Q8GWF1 | 2 | EBI-593040,EBI-1993263 | |
| WRKY62 | Q9LZV6 | 4 | EBI-593040,EBI-1993243 |
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: O22446-1) 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 – 501 | 501 | Histone deacetylase 19 | PRO_0000114721 | |||||
Regions | |||||||||
| Region | 17 – 329 | 313 | Histone deacetylase | ||||||
Sites | |||||||||
| Active site | 149 | 1 | By similarity | ||||||
Amino acid modifications | |||||||||
| Modified residue | 416 | 1 | Phosphoserine Ref.12 | ||||||
Experimental info | |||||||||
| Sequence conflict | 69 | 1 | D → E Ref.1 | ||||||
| Sequence conflict | 69 | 1 | D → E Ref.2 | ||||||
Sequences
| ||||||||||||||||||
References
| « Hide 'large scale' references | |
| [1] | "Characterization of a histone deacetylase (EST G11C3T7) in Arabidopsis thaliana." Tomihama T., Shoji K., Hanyu H., Okano T. Submitted (AUG-1997) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Strain: cv. Columbia. |
| [2] | "Functional analysis of a RPD3 histone deacetylase homologue in Arabidopsis thaliana." Wu K., Malik K., Tian L., Brown D., Miki B. Plant Mol. Biol. 44:167-176(2000) [PubMed: 11117260] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY. Strain: cv. Columbia. |
| [3] | "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana." Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B. McCombie W.R.Nature 402:769-777(1999) [PubMed: 10617198] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia. |
| [4] | "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. Ecker J.R.Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia. |
| [5] | "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs." Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K. Shinozaki K.Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia. |
| [6] | "Blocking histone deacetylation in Arabidopsis induces pleiotropic effects on plant gene regulation and development." Tian L., Chen Z.J. Proc. Natl. Acad. Sci. U.S.A. 98:200-205(2001) [PubMed: 11134508] [Abstract] Cited for: FUNCTION, TISSUE SPECIFICITY. |
| [7] | "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. |
| [8] | "HISTONE DEACETYLASE19 is involved in jasmonic acid and ethylene signaling of pathogen response in Arabidopsis." Zhou C., Zhang L., Duan J., Miki B., Wu K. Plant Cell 17:1196-1204(2005) [PubMed: 15749761] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, INDUCTION. |
| [9] | "Role of an Arabidopsis AP2/EREBP-type transcriptional repressor in abscisic acid and drought stress responses." Song C.-P., Agarwal M., Ohta M., Guo Y., Halfter U., Wang P., Zhu J.-K. Plant Cell 17:2384-2396(2005) [PubMed: 15994908] [Abstract] Cited for: INTERACTION WITH SIN3. |
| [10] | "Arabidopsis thaliana histone deacetylase 1 (AtHD1) is localized in euchromatic regions and demonstrates histone deacetylase activity in vitro." Fong P.M., Tian L., Chen Z.J. Cell Res. 16:479-488(2006) [PubMed: 16699543] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, INDUCTION. |
| [11] | "AtSAP18, an orthologue of human SAP18, is involved in the regulation of salt stress and mediates transcriptional repression in Arabidopsis." Song C.-P., Galbraith D.W. Plant Mol. Biol. 60:241-257(2006) [PubMed: 16429262] [Abstract] Cited for: INTERACTION WITH SAP18. |
| [12] | "Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks." Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A., Grossmann J., Gruissem W., Baginsky S. Plant Physiol. 150:889-903(2009) [PubMed: 19376835] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-416, MASS SPECTROMETRY. Tissue: Seedling. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| AF014824 mRNA. Translation: AAB66486.1. AF195547 mRNA. Translation: AAG28474.1. AL035538 Genomic DNA. Translation: CAB37553.1. AL161593 Genomic DNA. Translation: CAB80478.1. AY093153 mRNA. Translation: AAM13152.1. BT008873 mRNA. Translation: AAP68312.1. AK226389 mRNA. Translation: BAE98535.1. | |
| IPI | IPI00522349. |
| PIR | T05640. |
| RefSeq | NP_195526.1. |
| UniGene | At.25069 |
3D structure databases | |
| HSSP | HSSP built from PDB template 1C3P based on UniProtKB O67135. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | O22446. 5 interactions. |
| STRING | O22446. |
Proteomic databases | |
| PRIDE | O22446. |
Genome annotation databases | |
| GeneID | 829969. |
| GenomeReviews | Gene locus AT4G38130 in contig CT486007_GR. |
| NMPDR | fig|3702.1.peg.21927. |
Organism-specific databases | |
| TAIR | At4g38130. |
Phylogenomic databases | |
| OMA | DASIPNE. |
Gene expression databases | |
| ArrayExpress | O22446. |
| Genevestigator | O22446. |
| GermOnline | AT4G38130. Arabidopsis thaliana. |
Family and domain databases | |
| InterPro | IPR000286. His_deacetylse. IPR003084. His_deacetylse_1. [Graphical view] |
| Gene3D | G3DSA:3.40.800.20. His_deacetylse. 1 hit. |
| PANTHER | PTHR10625. His_deacetylse. 1 hit. PTHR10625:SF28. His_deacetylse_1. 1 hit. |
| Pfam | PF00850. Hist_deacetyl. 1 hit. [Graphical view] |
| PIRSF | PIRSF037913. His_deacetylse_1. 1 hit. |
| PRINTS | PR01270. HDASUPER. PR01271. HISDACETLASE. |
| ProtoNet | Search... |
Entry information
| Entry name | HDA19_ARATH | ||||||||
| Accession | Primary (citable) accession number: O22446 Secondary accession number(s): Q0WWG3, Q9SZL3 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | PPAP (Plant Proteome Annotation Project) | ||||||||
Relevant documents
| Arabidopsis thaliana Arabidopsis thaliana: entries and gene names |
| SIMILARITY comments Index of protein domains and families |

Clusters with


