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Histone deacetylase 1 (OsHDAC1) (EC 3 5 1 98)

 HDAC1_ORYSJ             Reviewed;         518 AA.
Q7Y0Y8; Q5VP94;
07-JUN-2017, integrated into UniProtKB/Swiss-Prot.
01-OCT-2003, sequence version 1.
23-MAY-2018, entry version 121.
RecName: Full=Histone deacetylase 1 {ECO:0000303|PubMed:12581311};
Short=OsHDAC1 {ECO:0000303|PubMed:12581311};
EC=3.5.1.98 {ECO:0000250|UniProtKB:O22446};
Name=HDAC1 {ECO:0000303|PubMed:12581311};
Synonyms=HDA702 {ECO:0000303|PubMed:19664599};
OrderedLocusNames=Os06g0583400 {ECO:0000312|EMBL:BAF19857.1},
LOC_Os06g38470 {ECO:0000305};
ORFNames=P0498C03.28-1 {ECO:0000312|EMBL:BAD68730.1};
Oryza sativa subsp. japonica (Rice).
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BOP clade;
Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
NCBI_TaxID=39947;
[1]
NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, AND TISSUE SPECIFICITY.
PubMed=12581311;
Jang I.C., Pahk Y.M., Song S.I., Kwon H.J., Nahm B.H., Kim J.K.;
"Structure and expression of the rice class-I type histone deacetylase
genes OsHDAC1-3: OsHDAC1 overexpression in transgenic plants leads to
increased growth rate and altered architecture.";
Plant J. 33:531-541(2003).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=cv. Nipponbare;
PubMed=16100779; DOI=10.1038/nature03895;
International rice genome sequencing project (IRGSP);
"The map-based sequence of the rice genome.";
Nature 436:793-800(2005).
[3]
GENOME REANNOTATION.
STRAIN=cv. Nipponbare;
PubMed=18089549; DOI=10.1093/nar/gkm978;
The rice annotation project (RAP);
"The rice annotation project database (RAP-DB): 2008 update.";
Nucleic Acids Res. 36:D1028-D1033(2008).
[4]
GENOME REANNOTATION.
STRAIN=cv. Nipponbare;
PubMed=24280374; DOI=10.1186/1939-8433-6-4;
Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H.,
McCombie W.R., Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S.,
Childs K.L., Davidson R.M., Lin H., Quesada-Ocampo L.,
Vaillancourt B., Sakai H., Lee S.S., Kim J., Numa H., Itoh T.,
Buell C.R., Matsumoto T.;
"Improvement of the Oryza sativa Nipponbare reference genome using
next generation sequence and optical map data.";
Rice 6:4-4(2013).
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
STRAIN=cv. Nipponbare;
PubMed=12869764; DOI=10.1126/science.1081288;
The rice full-length cDNA consortium;
"Collection, mapping, and annotation of over 28,000 cDNA clones from
japonica rice.";
Science 301:376-379(2003).
[6]
INDUCTION.
PubMed=19664599; DOI=10.1016/j.bbrc.2009.07.162;
Hu Y., Qin F., Huang L., Sun Q., Li C., Zhao Y., Zhou D.X.;
"Rice histone deacetylase genes display specific expression patterns
and developmental functions.";
Biochem. Biophys. Res. Commun. 388:266-271(2009).
[7]
FUNCTION.
PubMed=19453457; DOI=10.1111/j.1365-313X.2009.03908.x;
Chung P.J., Kim Y.S., Jeong J.S., Park S.H., Nahm B.H., Kim J.K.;
"The histone deacetylase OsHDAC1 epigenetically regulates the OsNAC6
gene that controls seedling root growth in rice.";
Plant J. 59:764-776(2009).
[8]
FUNCTION, AND INTERACTION WITH TPR3.
PubMed=27468891; DOI=10.1105/tpc.16.00171;
Tang N., Ma S., Zong W., Yang N., Lv Y., Yan C., Guo Z., Li J., Li X.,
Xiang Y., Song H., Xiao J., Li X., Xiong L.;
"MODD mediates deactivation and degradation of OsbZIP46 to negatively
regulate ABA signaling and drought resistance in rice.";
Plant Cell 0:0-0(2016).
-!- 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 (Probable).
Regulates negatively the expression of the NAC48/NAC6 gene that
controls root growth in seedlings. Epigenetically represses the
expression of NAC48/NAC6 by deacetylating "Lys-9" (H3K9ac), "Lys-
14" (H3K14ac) and "Lys-18" (H3K18ac) of histone H3, and "Lys-5"
(H4K5ac), "Lys-12" (H4K12ac) and "Lys-16" (H4K16ac) of histone H4
(PubMed:19453457). Functions in the regulation of gene expression
in the whole genome (PubMed:12581311). Acts as chromatin
remodeling regulator to promote the formation of a repressive
chromatin state. Functions with MODD via its interaction with
TPR3, to down-regulates the histone acetylation level at BZIP46
target genes. BZIP46 is a positive regulator of abscisic acid
(ABA) signaling and drought stress tolerance (PubMed:27468891).
{ECO:0000269|PubMed:12581311, ECO:0000269|PubMed:19453457,
ECO:0000269|PubMed:27468891, ECO:0000305|PubMed:19453457}.
-!- CATALYTIC ACTIVITY: Hydrolysis of an N(6)-acetyl-lysine residue of
a histone to yield a deacetylated histone.
{ECO:0000250|UniProtKB:O22446}.
-!- SUBUNIT: Interacts with TPR3. {ECO:0000269|PubMed:27468891}.
-!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250|UniProtKB:O22446}.
-!- ALTERNATIVE PRODUCTS:
Event=Alternative splicing; Named isoforms=2;
Name=1;
IsoId=Q7Y0Y8-1; Sequence=Displayed;
Name=2;
IsoId=Q7Y0Y8-2; Sequence=VSP_058970, VSP_058971;
Note=No experimental confirmation available. {ECO:0000305};
-!- TISSUE SPECIFICITY: Expressed in roots and leaves.
{ECO:0000269|PubMed:12581311}.
-!- INDUCTION: Down-regulated by drought and salt stresses.
{ECO:0000269|PubMed:19664599}.
-!- MISCELLANEOUS: Plants over-expressing HDAC1 exhibit increased
growth rate and altered plant architecture (PubMed:12581311).
Plants silencing HDAC1 exhibit narrow leaves, reduced diameter of
stems and reduced plant height (PubMed:19664599).
{ECO:0000269|PubMed:12581311, ECO:0000269|PubMed:19664599}.
-!- SIMILARITY: Belongs to the histone deacetylase family. HD Type 1
subfamily. {ECO:0000305}.
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EMBL; AF513382; AAP47171.1; -; mRNA.
EMBL; AP003724; BAD68730.1; -; Genomic_DNA.
EMBL; AP003724; BAD68731.1; -; Genomic_DNA.
EMBL; AP008212; BAF19857.1; -; Genomic_DNA.
EMBL; AP014962; BAS98377.1; -; Genomic_DNA.
EMBL; AP014962; BAS98378.1; -; Genomic_DNA.
EMBL; AK068051; BAG90733.1; -; mRNA.
EMBL; AK068682; BAG91027.1; -; mRNA.
RefSeq; XP_015643781.1; XM_015788295.1. [Q7Y0Y8-1]
UniGene; Os.10708; -.
SMR; Q7Y0Y8; -.
STRING; 39947.LOC_Os06g38470.1; -.
iPTMnet; Q7Y0Y8; -.
PaxDb; Q7Y0Y8; -.
EnsemblPlants; Os06t0583400-01; Os06t0583400-01; Os06g0583400. [Q7Y0Y8-1]
EnsemblPlants; Os06t0583400-02; Os06t0583400-02; Os06g0583400. [Q7Y0Y8-2]
GeneID; 4341387; -.
Gramene; Os06t0583400-01; Os06t0583400-01; Os06g0583400. [Q7Y0Y8-1]
Gramene; Os06t0583400-02; Os06t0583400-02; Os06g0583400. [Q7Y0Y8-2]
KEGG; osa:4341387; -.
eggNOG; KOG1342; Eukaryota.
eggNOG; COG0123; LUCA.
HOGENOM; HOG000225180; -.
KO; K06067; -.
OMA; KRVCYFF; -.
OrthoDB; EOG093609CH; -.
Reactome; R-OSA-1538133; G0 and Early G1.
Reactome; R-OSA-4551638; SUMOylation of chromatin organization proteins.
Proteomes; UP000059680; Chromosome 6.
ExpressionAtlas; Q7Y0Y8; differential.
GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
GO; GO:0032041; F:NAD-dependent histone deacetylase activity (H3-K14 specific); IEA:UniProtKB-EC.
GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:UniProtKB-KW.
GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-KW.
Gene3D; 3.40.800.20; -; 1.
InterPro; IPR000286; His_deacetylse.
InterPro; IPR003084; His_deacetylse_1.
InterPro; IPR023801; His_deacetylse_dom.
InterPro; IPR037138; His_deacetylse_dom_sf.
InterPro; IPR023696; Ureohydrolase_dom_sf.
PANTHER; PTHR10625; PTHR10625; 1.
Pfam; PF00850; Hist_deacetyl; 1.
PIRSF; PIRSF037913; His_deacetylse_1; 1.
PRINTS; PR01270; HDASUPER.
PRINTS; PR01271; HISDACETLASE.
SUPFAM; SSF52768; SSF52768; 1.
1: Evidence at protein level;
Alternative splicing; Chromatin regulator; Complete proteome;
Hydrolase; Nucleus; Reference proteome; Repressor; Transcription;
Transcription regulation.
CHAIN 1 518 Histone deacetylase 1.
/FTId=PRO_0000440560.
REGION 22 333 Histone deacetylase. {ECO:0000305}.
ACT_SITE 153 153 {ECO:0000250}.
VAR_SEQ 457 460 DGNR -> VFFY (in isoform 2).
/FTId=VSP_058970.
VAR_SEQ 461 518 Missing (in isoform 2).
/FTId=VSP_058971.
SEQUENCE 518 AA; 57506 MW; 2179EA9ED8D09EA4 CRC64;
MDASAGGGGN SLPTAGADGA KRRVCYFYDA EVGNYYYGQG HPMKPHRIRM THALLAHYGL
LDQMQVLKPH PARDRDLCRF HADDYVAFLR SVTPETQQDQ IRALKRFNVG EDCPVFDGLY
SFCQTYAGGS VGGAVKLNHG HDIAINWAGG LHHAKKCEAS GFCYVNDIVL AILELLKYHQ
RVLYVDIDIH HGDGVEEAFY TTDRVMTVSF HKFGDYFPGT GDIRDIGHSK GKYYSLNVPL
DDGIDDESYQ SLFKPIMGKV MEVFRPGAVV LQCGADSLSG DRLGCFNLSI RGHAECVRFM
RSFNVPLLLL GGGGYTIRNV ARCWCYETGV ALGHELTDKM PPNEYFEYFG PDYTLHVAPS
NMENKNTRQQ LDDIRSRLLD NLSKLRHAPS VQFQERPPEA ELPEQDEDQE DPDERHHADS
DVEMDDVKPL DDSGRRSSIQ NVRVKRESAE TDAADQDGNR VAAENTKGTE PAADGVGSSK
QTVPTDASAM AIDEPGSLKV EPDNSNKLQD QPSVHQKT


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