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GO:0004407

View this GO term in other databases

Overview

Field Value
Namespace Molecular function
Short description Histone deacetylase activity
Full defintion Catalysis of the reaction: histone N6-acetyl-L-lysine + H2O = histone L-lysine + acetate. This reaction represents the removal of an acetyl group from a histone, a class of proteins complexed to DNA in chromatin and chromosomes.
Subterm of

Relationships

The relationship of GO:0004407 with other GO terms.

Relationship type GO terms
Is a
Regulates n.a.
Part of n.a.
Positively regulates n.a.
Negatively regulates n.a.

Ancestor tree

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Additional data

This table contains additional metadata associated with the GO entry's definition field.

Field Value
EC3.5.1.98
PMID
Regulation and regulatory parameters of histone modifications.Davie JR, Chadee DN
J Cell Biochem Suppl. 1998; 30-31 (): 203–13.PMID: 9893272

Histone acetylation and phosphorylation destablizes nucleosome and chromatin structure. Relaxation of the chromatin fiber facilitates transcription. Coactivator complexes with histone acetyltransferase activity are recruited by transcription factors bound to enhancers or promoters. The recruited histone acetyltransferases may acetylate histone or nonhistone chromosomal proteins, resulting in the relaxation of chromatin structure. Alternatively, repressors recruit corepressor complexes with histone deacetylase activity, leading to condensation of chromatin. This review highlights the recent advances made in our understanding of the roles of histone acetyltransferases, histone deacetylases, histone kinases, and protein phosphatases in transcriptional activation and repression. Exciting reports revealing mechanistic connections between histone modifying activities and the RNA polymerase II machinery, the coupling of histone deacetylation and DNA methylation, the possible involvement of histone deacetylases in the organization of nuclear DNA, and the role of chromatin modulators in oncogenesis are discussed.

Associated Lotus transcripts 28

GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .

Transcript Name Description GO terms GO count
Lj0g3v0137449.1
– Histone deacetylase 6 isoform 2 [Theobroma cacao] gi|508773583|gb|EOY20839.1|
GO terms
2
Lj0g3v0201999.1
– PREDICTED: histone deacetylase 19-like [Glycine max] gi|356551138|ref|XP_003543935.1|
GO terms
2
Lj0g3v0201999.2
– PREDICTED: histone deacetylase 19-like [Glycine max] gi|356551138|ref|XP_003543935.1|
GO terms
2
Lj0g3v0332349.1
– Histone deacetylase 6 isoform 2 [Theobroma cacao] gi|508773583|gb|EOY20839.1|
GO terms
2
Lj1g3v0318630.1
– Histone deacetylase [Medicago truncatula] gi|357461841|ref|XP_003601202.1|
GO terms
2
Lj3g3v2996000.1
– Histone deacetylase 9 isoform 11 [Theobroma cacao] gi|508786277|gb|EOY33533.1|
GO terms
2
Lj3g3v2996000.2
– PREDICTED: histone deacetylase 9-like [Cicer arietinum] gi|502145712|ref|XP_004506146.1|
GO terms
2
Lj4g3v1440790.1
– PREDICTED: histone deacetylase 6-like [Glycine max] gi|356513715|ref|XP_003525556.1|
GO terms
2
Lj4g3v1440870.1
– PREDICTED: histone deacetylase 6-like [Glycine max] gi|356513715|ref|XP_003525556.1|
GO terms
2
LotjaGi1g1v0146200.1
– Histone deacetylase; TAIR: AT4G38130.1 histone deacetylase 1; Swiss-Prot: sp|O22446|HDA19_ARATH Histone deacetylase 19; TrEMBL-Plants: tr|I1LWR2|I1LWR2_SOYBN Histone deacetylase; Found in the gene: LotjaGi1g1v0146200
GO terms
2
LotjaGi1g1v0146200.2
– Histone deacetylase; TAIR: AT4G38130.1 histone deacetylase 1; Swiss-Prot: sp|O22446|HDA19_ARATH Histone deacetylase 19; TrEMBL-Plants: tr|I1LWR2|I1LWR2_SOYBN Histone deacetylase; Found in the gene: LotjaGi1g1v0146200
GO terms
2
LotjaGi1g1v0146200.3
– Histone deacetylase; TAIR: AT4G38130.1 histone deacetylase 1; Swiss-Prot: sp|O22446|HDA19_ARATH Histone deacetylase 19; TrEMBL-Plants: tr|I1LWR2|I1LWR2_SOYBN Histone deacetylase; Found in the gene: LotjaGi1g1v0146200
GO terms
2
LotjaGi1g1v0146200.4
– Histone deacetylase; TAIR: AT4G38130.1 histone deacetylase 1; Swiss-Prot: sp|O22446|HDA19_ARATH Histone deacetylase 19; TrEMBL-Plants: tr|I1LWR2|I1LWR2_SOYBN Histone deacetylase; Found in the gene: LotjaGi1g1v0146200
GO terms
2
LotjaGi1g1v0146200.5
– Histone deacetylase; TAIR: AT4G38130.1 histone deacetylase 1; Swiss-Prot: sp|O22446|HDA19_ARATH Histone deacetylase 19; TrEMBL-Plants: tr|I1LWR2|I1LWR2_SOYBN Histone deacetylase; Found in the gene: LotjaGi1g1v0146200
GO terms
2
LotjaGi1g1v0146200.6
– Histone deacetylase; TAIR: AT4G38130.1 histone deacetylase 1; Swiss-Prot: sp|O22446|HDA19_ARATH Histone deacetylase 19; TrEMBL-Plants: tr|A0A151RPJ3|A0A151RPJ3_CAJCA Histone deacetylase; Found in the gene: LotjaGi1g1v0146200
GO terms
2
LotjaGi1g1v0176200.1
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|Q9FML2|HDA6_ARATH Histone deacetylase 6; TrEMBL-Plants: tr|G7J4T5|G7J4T5_MEDTR Histone deacetylase; Found in the gene: LotjaGi1g1v0176200
GO terms
2
LotjaGi1g1v0176200.2
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|Q9FML2|HDA6_ARATH Histone deacetylase 6; TrEMBL-Plants: tr|G7J4T5|G7J4T5_MEDTR Histone deacetylase; Found in the gene: LotjaGi1g1v0176200
GO terms
2
LotjaGi3g1v0479900.1
– Histone deacetylase; TAIR: AT3G44680.1 histone deacetylase 9; Swiss-Prot: sp|Q8H0W2|HDA9_ARATH Histone deacetylase 9; TrEMBL-Plants: tr|A0A151TNQ1|A0A151TNQ1_CAJCA Histone deacetylase; Found in the gene: LotjaGi3g1v0479900
GO terms
2
LotjaGi3g1v0479900.2
– Histone deacetylase; TAIR: AT3G44680.1 histone deacetylase 9; Swiss-Prot: sp|Q8H0W2|HDA9_ARATH Histone deacetylase 9; TrEMBL-Plants: tr|A0A151TNQ1|A0A151TNQ1_CAJCA Histone deacetylase; Found in the gene: LotjaGi3g1v0479900
GO terms
2
LotjaGi3g1v0479900.3
– Histone deacetylase; TAIR: AT3G44680.1 histone deacetylase 9; Swiss-Prot: sp|Q8H0W2|HDA9_ARATH Histone deacetylase 9; TrEMBL-Plants: tr|A0A151TNQ1|A0A151TNQ1_CAJCA Histone deacetylase; Found in the gene: LotjaGi3g1v0479900
GO terms
2
LotjaGi3g1v0479900.4
– Histone deacetylase; TAIR: AT3G44680.1 histone deacetylase 9; Swiss-Prot: sp|Q8H0W2|HDA9_ARATH Histone deacetylase 9; TrEMBL-Plants: tr|A0A151TNQ1|A0A151TNQ1_CAJCA Histone deacetylase; Found in the gene: LotjaGi3g1v0479900
GO terms
2
LotjaGi3g1v0479900.5
– Histone deacetylase; TAIR: AT3G44680.1 histone deacetylase 9; Swiss-Prot: sp|Q8H0W2|HDA9_ARATH Histone deacetylase 9; TrEMBL-Plants: tr|A0A151TNQ1|A0A151TNQ1_CAJCA Histone deacetylase; Found in the gene: LotjaGi3g1v0479900
GO terms
2
LotjaGi4g1v0229800.1
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|Q9FML2|HDA6_ARATH Histone deacetylase 6; TrEMBL-Plants: tr|A0A0S3R6F7|A0A0S3R6F7_PHAAN Histone deacetylase; Found in the gene: LotjaGi4g1v0229800
GO terms
2
LotjaGi4g1v0229800.2
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|Q9FML2|HDA6_ARATH Histone deacetylase 6; TrEMBL-Plants: tr|A0A0S3R6F7|A0A0S3R6F7_PHAAN Histone deacetylase; Found in the gene: LotjaGi4g1v0229800
GO terms
2
LotjaGi4g1v0229800.3
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|Q9FML2|HDA6_ARATH Histone deacetylase 6; TrEMBL-Plants: tr|A0A0S3R6F7|A0A0S3R6F7_PHAAN Histone deacetylase; Found in the gene: LotjaGi4g1v0229800
GO terms
2
LotjaGi4g1v0230000.1
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|Q9FML2|HDA6_ARATH Histone deacetylase 6; TrEMBL-Plants: tr|A0A0L9TQL1|A0A0L9TQL1_PHAAN Histone deacetylase; Found in the gene: LotjaGi4g1v0230000
GO terms
2
LotjaGi4g1v0230000.2
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|Q9FML2|HDA6_ARATH Histone deacetylase 6; TrEMBL-Plants: tr|A0A0L9TQL1|A0A0L9TQL1_PHAAN Histone deacetylase; Found in the gene: LotjaGi4g1v0230000
GO terms
2
LotjaGi4g1v0230000.3
– Histone deacetylase; TAIR: AT5G63110.1 histone deacetylase 6; Swiss-Prot: sp|P56519|HDAC2_CHICK Histone deacetylase 2; TrEMBL-Plants: tr|A0A0L9TQL1|A0A0L9TQL1_PHAAN Histone deacetylase; Found in the gene: LotjaGi4g1v0230000
GO terms
2

Co-occuring GO terms 1

A list of co-occurring GO terms within the L. japonicus gene space:

GO term Namespace Name Observations Saturation (%)
GO:0016575
Biological process Histone deacetylation 1 3.57