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Q8LRK8 (HDA18_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 69. 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·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Histone deacetylase 18

EC=3.5.1.98
Gene names
Name:HDA18
Ordered Locus Names:At5g61070
ORF Names:MAF19.8
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length682 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. Required for appropriate cellular patterning in the root epidermis. Histone deacetylases act via the formation of large multiprotein complexes By similarity. Ref.4

Catalytic activity

Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone.

Subcellular location

Nucleus By similarity.

Miscellaneous

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

Sequence similarities

Belongs to the histone deacetylase family. HD type 2 subfamily.

Sequence caution

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

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   DomainCoiled coil
   Molecular functionChromatin regulator
Hydrolase
Repressor
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processchromatin remodeling

Inferred from sequence or structural similarity Ref.1. Source: TAIR

histone deacetylation

Inferred from direct assay PubMed 23362208. Source: GOC

regulation of epidermal cell differentiation

Inferred from mutant phenotype Ref.4. Source: TAIR

regulation of transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

root epidermal cell differentiation

Inferred from mutant phenotype PubMed 23362208. Source: TAIR

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentcytoplasm

Inferred from direct assay PubMed 23362208. Source: TAIR

nucleus

Inferred from direct assay PubMed 23362208. Source: TAIR

   Molecular_functionNAD-dependent histone deacetylase activity (H3-K14 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

NAD-dependent histone deacetylase activity (H3-K18 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

NAD-dependent histone deacetylase activity (H3-K9 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

NAD-dependent histone deacetylase activity (H4-K16 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

histone deacetylase activity

Inferred from direct assay PubMed 23362208. Source: TAIR

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 682682Histone deacetylase 18
PRO_0000280093

Regions

Region59 – 382324Histone deacetylase
Coiled coil430 – 608179 Potential

Sites

Active site1911 By similarity

Sequences

Sequence LengthMass (Da)Tools
Q8LRK8 [UniParc].

Last modified October 1, 2002. Version 1.
Checksum: 67D91533AB998840

FASTA68276,634
        10         20         30         40         50         60 
MLLKFEASSE LRLVDPSVSL TVLRKIRLSH LPDMTMTSES SGKKCGEGDG KVAGKSQRKV 

        70         80         90        100        110        120 
GLVYDETMCK HDTPNGKVDV ECPDRIRVIW EKLQLAGVTQ RCVVLGGSKA EDKHLKLVHT 

       130        140        150        160        170        180 
KKHVNLVKSI STKKKDSRRN KIASQLDSIY LNGGSSEAAY LAAGSVVKVA EKVAEGELDC 

       190        200        210        220        230        240 
GFAIVRPPGH HAESDEAMGF CLFNNVAVAA SFLLNERPDL DVKKILIVDW DIHHGNGTQK 

       250        260        270        280        290        300 
MFWKDSRVLI FSVHRHDHGS FYPFGDDGDF NMVGEGPGEG FNINVPWEQG GCGDADYLAV 

       310        320        330        340        350        360 
WNHILIPVTK EFKPDIILLS AGFDAAIGDP LGGCCVTPYG YSVMLKKLME FAHGKIVLAL 

       370        380        390        400        410        420 
EGGYNLESLG KSSLACVQVL LEDKQIHGSS ETYPLESTRR VIQAVRERLC TYWPSLDASM 

       430        440        450        460        470        480 
ASNENLKNPS AERNSADALL REVEELKSLM AARDGELEAR RKELKAKNKE LEANEKELEA 

       490        500        510        520        530        540 
GLMLIRARED VICGLHAKIE SLQQERDEAV AKAERIDKEL QEDRARSQEF KEDTEFCLST 

       550        560        570        580        590        600 
LRREKELAIM AKNKDLEAKE KELEARLMLV HAREDKIHAK IERLQQERDE AVAKAERIDK 

       610        620        630        640        650        660 
ELQEDRSRSR VGNGSFAFSQ EFYEDMDLDE LEPLSPEFNE DMDSEELEPF QVIKKNMERS 

       670        680 
HKKFIKDMEC IKFIASERAR VL 

« Hide

References

« Hide 'large scale' references
[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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF510670 mRNA. Translation: AAM34783.1.
AB006696 Genomic DNA. Translation: BAB10370.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED97419.1.
RefSeqNP_200915.2. NM_125500.2.
UniGeneAt.29127.

3D structure databases

ProteinModelPortalQ8LRK8.
SMRQ8LRK8. Positions 61-413.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid21472. 1 interaction.
STRING3702.AT5G61070.1-P.

Proteomic databases

PRIDEQ8LRK8.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT5G61070.1; AT5G61070.1; AT5G61070.
GeneID836228.
KEGGath:AT5G61070.

Organism-specific databases

TAIRAT5G61070.

Phylogenomic databases

eggNOGCOG0123.
InParanoidQ8LRK8.
KOK11407.
OMALVYDETM.
PhylomeDBQ8LRK8.

Enzyme and pathway databases

BioCycARA:AT5G61070-MONOMER.

Gene expression databases

GenevestigatorQ8LRK8.

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...

Entry information

Entry nameHDA18_ARATH
AccessionPrimary (citable) accession number: Q8LRK8
Secondary accession number(s): Q9FNQ7
Entry history
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: October 1, 2002
Last modified: May 14, 2014
This is version 69 of the entry and version 1 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