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Protein

Histone deacetylase 5

Gene

HDA5

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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 similarity1 Publication

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei158By similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Hydrolase, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-ATH-3371511. HSF1 activation.

Names & Taxonomyi

Protein namesi
Recommended name:
Histone deacetylase 5 (EC:3.5.1.98)
Gene namesi
Name:HDA5
Ordered Locus Names:At5g61060
ORF Names:MAF19.7
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G61060.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002800842 – 660Histone deacetylase 5Add BLAST659

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiQ8RX28.

PTM databases

iPTMnetiQ8RX28.

Expressioni

Gene expression databases

ExpressionAtlasiQ8RX28. baseline and differential.
GenevisibleiQ8RX28. AT.

Interactioni

Protein-protein interaction databases

BioGridi21471. 4 interactors.
STRINGi3702.AT5G61060.2.

Structurei

3D structure databases

ProteinModelPortaliQ8RX28.
SMRiQ8RX28.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni26 – 349Histone deacetylaseAdd BLAST324

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1343. Eukaryota.
COG0123. LUCA.
HOGENOMiHOG000225183.
InParanoidiQ8RX28.
KOiK11407.
PhylomeDBiQ8RX28.

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.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: Q8RX28-1) [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

        10         20         30         40         50
MAMAGESSGK KIGDCDGKVA GNRQRKVGLI YDETMCKHDT PDGEDHPECP
60 70 80 90 100
DRIRVIWEKL QLAGVSQRCV VLGSSKAEDK HLQLVHTKDH VNLVKSISTK
110 120 130 140 150
QKDYRRNRIA SQLNSIYLNG GSSEAAYLAA GSVVKLAEKV AEGELDCGFA
160 170 180 190 200
IVRPPGHHAE ADEAMGFCLF NNVAVAASFL LNERPDLGVK KILIVDWDVH
210 220 230 240 250
HGNGTQKMFW KDPRVLFFSV HRHEYGGFYP AGDDGDYNMV GEGPGEGFNI
260 270 280 290 300
NVPWDQGRCG DADYLAAWDH ILIPVAREFN PDVIFLSAGF DAAINDPLGG
310 320 330 340 350
CCVTPYGYSV MLKKLMEFAQ GKIVLALEGG YNLDSIAKSS LACVQVLLED
360 370 380 390 400
KQIQGPPEAY PFESTWRVIQ AVRKRLCTYW PSLADELSWK LINQKTPTPI
410 420 430 440 450
ILISSSDSET EDNAQGLLDQ MSKLSIENPQ GTLLENHQVE PASTSWRADL
460 470 480 490 500
AKVDVWYASF GSNMWKPRFL CYIQGGQVDG LKKVCVGSMD KSPPKETVWE
510 520 530 540 550
TFPHRLFFGR ESSVGWGVGG VAFTNPLANL IDQTHMCLYR ITLEQFNDVL
560 570 580 590 600
SQENGLNVDS DSPVFDLAAL QLVDNKGSIL EAPLNSWYGN VVCLGKERDI
610 620 630 640 650
PILTMTCTLS AVEKFKSGEI PIRPPAKAYA NTLIRGLVEG GRLSKEEAEA
660
YIDKAVSKPL
Length:660
Mass (Da):72,723
Last modified:June 1, 2002 - v1
Checksum:iA40906BF82B397DE
GO

Sequence cautioni

The sequence BAB10369 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence BAB10370 differs from that shown. Reason: Erroneous gene model prediction.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB006696 Genomic DNA. Translation: BAB10369.1. Sequence problems.
AB006696 Genomic DNA. Translation: BAB10370.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED97417.1.
AY090936 mRNA. Translation: AAM13986.1.
AY120784 mRNA. Translation: AAM53342.1.
BT000073 mRNA. Translation: AAN15392.1.
RefSeqiNP_200914.2. NM_125499.5. [Q8RX28-1]
UniGeneiAt.44759.
At.75645.

Genome annotation databases

EnsemblPlantsiAT5G61060.1; AT5G61060.1; AT5G61060. [Q8RX28-1]
GeneIDi836227.
GrameneiAT5G61060.1; AT5G61060.1; AT5G61060.
KEGGiath:AT5G61060.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB006696 Genomic DNA. Translation: BAB10369.1. Sequence problems.
AB006696 Genomic DNA. Translation: BAB10370.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED97417.1.
AY090936 mRNA. Translation: AAM13986.1.
AY120784 mRNA. Translation: AAM53342.1.
BT000073 mRNA. Translation: AAN15392.1.
RefSeqiNP_200914.2. NM_125499.5. [Q8RX28-1]
UniGeneiAt.44759.
At.75645.

3D structure databases

ProteinModelPortaliQ8RX28.
SMRiQ8RX28.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi21471. 4 interactors.
STRINGi3702.AT5G61060.2.

PTM databases

iPTMnetiQ8RX28.

Proteomic databases

PaxDbiQ8RX28.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G61060.1; AT5G61060.1; AT5G61060. [Q8RX28-1]
GeneIDi836227.
GrameneiAT5G61060.1; AT5G61060.1; AT5G61060.
KEGGiath:AT5G61060.

Organism-specific databases

TAIRiAT5G61060.

Phylogenomic databases

eggNOGiKOG1343. Eukaryota.
COG0123. LUCA.
HOGENOMiHOG000225183.
InParanoidiQ8RX28.
KOiK11407.
PhylomeDBiQ8RX28.

Enzyme and pathway databases

ReactomeiR-ATH-3371511. HSF1 activation.

Miscellaneous databases

PROiQ8RX28.

Gene expression databases

ExpressionAtlasiQ8RX28. baseline and differential.
GenevisibleiQ8RX28. AT.

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.
ProtoNetiSearch...

Entry informationi

Entry nameiHDA5_ARATH
AccessioniPrimary (citable) accession number: Q8RX28
Secondary accession number(s): Q9FNQ7, Q9FNQ8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: June 1, 2002
Last modified: November 30, 2016
This is version 99 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Unlike its tandem duplication HDA18, HDA5 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.