Tclin HDAC2 Histone deacetylase 2

Protein Classes

PANTHER Classes

Protein / Oxidoreductase / Reductase / Histone Deacetylase 2

Protein / Nucleic Acid Binding / Histone Deacetylase 2

Protein / Hydrolase / Deacetylase / Histone Deacetylase 2

DTO Classes

Protein / Epigenetic Regulator / Eraser / Histone Deacetylase / Hdac Class I / Histone Deacetylase 2

Protein Summary

Description

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. Forms transcriptional repressor complexes by associating with MAD, SIN3, YY1 and N-COR. Interacts in the late S-phase of DNA-replication with DNMT1 in the other transcriptional repressor complex composed of DNMT1, DMAP1, PCNA, CAF1. Deacetylates TSHZ3 and regulates its transcriptional repressor activity. Component of a RCOR/GFI/KDM1A/HDAC complex that suppresses, via histone deacetylase (HDAC) recruitment, a number of genes implicated in multilineage blood cell development. May be involved in the transcriptional repression of circadian target genes, such as PER1, mediated by CRY1 through histone deacetylation. Involved in MTA1-mediated transcriptional corepression of TFF1 and CDKN1A. This gene product belongs to the histone deacetylase family. Histone deacetylases act via the formation of large multiprotein complexes, and are responsible for the deacetylation of lysine residues at the N-terminal regions of core histones (H2A, H2B, H3 and H4). This protein forms transcriptional repressor complexes by associating with many different proteins, including YY1, a mammalian zinc-finger transcription factor. Thus, it plays an important role in transcriptional regulation, cell cycle progression and developmental events. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2010]

Uniprot Accession IDs

• Q92769
• B3KRS5
• B4DL58
• E1P561
• Q5SRI8
• Q5SZ86
• Q8NEH4
• HD2

Gene Name

• HDAC2

Ensembl ID

• ENST00000368632
• ENSP00000357621
• ENSG00000196591
• ENST00000519065
• ENSP00000430432
• ENST00000519108
• ENSP00000430008

Symbol

• HD2
• RPD3
• YAF1
• KDAC2

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
biological process	1
co-expressed gene	1
hub protein	1
interacting protein	1
molecular function	1

Related Tools

GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

Go To Tool

GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

Go To Tool

ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

Go To Tool

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 902.01   (req: < 5)

Gene RIFs: 199   (req: <= 3)

Antibodies: 892   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 902.01   (req: >= 5)

Gene RIFs: 199   (req: > 3)

Antibodies: 892   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 62

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligands: 687

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drugs: 5

Approved Drugs (5)

Explore Approved Drugs

1 – 5 of 5

romidepsin

HDAC2Tclin Epigenetic

INHIBITOR Ki : 5.96

vorinostat

HDAC2Tclin Epigenetic

INHIBITOR Ki : 8.8

belinostat

HDAC2Tclin Epigenetic

INHIBITOR Ki : 9.07

panobinostat

HDAC2Tclin Epigenetic

INHIBITOR Ki : 9.19

chidamide

HDAC2Tclin Epigenetic

INHIBITOR IC50 : 6.79587984

Active Ligands (687)

Explore Active Ligands

1 – 10 of 687

CHEMBL3622533

HDAC2Tclin Epigenetic

IC50 : 8.30000019

CHEMBL99

HDAC2Tclin Epigenetic

Ki : 9.18999958

CHEMBL598797

HDAC2Tclin Epigenetic

IC50 : 7.9000001

CHEMBL1631916

HDAC2Tclin Epigenetic

IC50 : 6.1

CHEMBL1631918

HDAC2Tclin Epigenetic

IC50 : 6.37

CHEMBL1631915

HDAC2Tclin Epigenetic

IC50 : 6.42

CHEMBL3670668

HDAC2Tclin Epigenetic

IC50 : 6.5

CHEMBL408513

HDAC2Tclin Epigenetic

Ki : 9.06999969

CHEMBL251011

HDAC2Tclin Epigenetic

IC50 : 6.59

CHEMBL1631917

HDAC2Tclin Epigenetic

IC50 : 6.57

Orthologs (11)

1 – 5 of 11

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	histone deacetylase 2	VGNC:11094	462950
Mouse	histone deacetylase 2	MGI:1097691	15182
Rat	histone deacetylase 2	RGD:619976	84577
Dog	histone deacetylase 2	VGNC:49101	475035
Horse	histone deacetylase 2	VGNC:51036	100072578

Species	Name	OMA	EggNOG	Inparanoid
Chimp	histone deacetylase 2
Mouse	histone deacetylase 2
Rat	histone deacetylase 2
Dog	histone deacetylase 2
Horse	histone deacetylase 2

Protein Structure (6 Structures, 1 AlphaFold Model)

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q92769-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 6

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (81)

Reactome (48)

KEGG (13)

PathwayCommons (11)

WikiPathways (9)

Chromatin modifying enzymes (R-HSA-3247509)

Click on a row in the table to change the structure displayed.

Find Similar Targets

Items per page:

5

1 – 5 of 48

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Chromatin modifying enzymes	238 targets	R-HSA-3247509
Reactome	Chromatin organization	238 targets	R-HSA-4839726
Reactome	Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants	58 targets	R-HSA-2894862
Reactome	Constitutive Signaling by NOTCH1 PEST Domain Mutants	58 targets	R-HSA-2644606
Reactome	Death Receptor Signalling	141 targets	R-HSA-73887

Name	Explore in Pharos	Explore in Source
Chromatin modifying enzymes	238 targets	R-HSA-3247509
Chromatin organization	238 targets	R-HSA-4839726
Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants	58 targets	R-HSA-2894862
Constitutive Signaling by NOTCH1 PEST Domain Mutants	58 targets	R-HSA-2644606
Death Receptor Signalling	141 targets	R-HSA-73887

Gene Ontology Terms (72)

Functions (14)

Components (10)

Processes (48)

Find Similar Targets

Items per page:

10

1 – 10 of 14

GO Term	Evidence	Assigned by
histone deacetylase activity	Inferred from Direct Assay (IDA)	BHF-UCL
sequence-specific DNA binding	Inferred from Direct Assay (IDA)	BHF-UCL
enzyme binding	Inferred from Physical Interaction (IPI)	UniProtKB
histone deacetylase binding	Inferred from Physical Interaction (IPI)	UniProtKB
NF-kappaB binding	Inferred from Physical Interaction (IPI)	UniProtKB
RNA polymerase II repressing transcription factor binding	Inferred from Physical Interaction (IPI)	BHF-UCL
transcription factor binding	Inferred from Physical Interaction (IPI)	BHF-UCL
protein deacetylase activity	Inferred from Mutant Phenotype (IMP)	BHF-UCL
RNA binding	Inferred from High Throughput Direct Assay (HDA)	UniProtKB
chromatin binding	Inferred from Sequence or structural Similarity (ISS)	UniProtKB

Protein-Protein Interactions (581)

Explore Interacting Targets

1 – 10 of 581

• See Interactions on String-DB

MIER2

Tbio

Novelty: 0.85226416

p_int: 0.99955284

p_ni: 0.00044716

Score: 0.619

Data Source: BioPlex,STRINGDB

HDAC1

Tclin

Family: Epigenetic

Novelty: 0.00065244

p_int: 0.999396926

p_ni: 0.000603074

Score: 0.985

Data Source: BioPlex,Reactome,STRINGDB

ZNF219

Tbio

Family: TF

Novelty: 0.17515242

p_int: 0.99884662

p_ni: 0.00115338

Score: 0.74

Data Source: BioPlex,STRINGDB

MBD3L1

Tbio

Novelty: 0.11297566

p_int: 0.998698444

p_ni: 0.001301556

Score: 0.801

Data Source: BioPlex,STRINGDB

SINHCAF

Tdark

Novelty: 0.18692832

p_int: 0.997875698

p_ni: 0.002124302

Score: 0.94

Data Source: BioPlex,STRINGDB

RBBP7

Tbio

Novelty: 0.01795364

p_int: 0.997508278

p_ni: 0.002491722

Score: 0.998

Data Source: BioPlex,STRINGDB

H2AFZ

Tbio

Novelty: 0.00222512

p_int: 0.982759922

p_ni: 0.017240078

Score: 0.972

Data Source: BioPlex,STRINGDB

CDK2AP1

Tbio

Family: Enzyme

Novelty: 0.01584718

p_int: 0.976836291

p_ni: 0.023163709

Score: 0.544

Data Source: BioPlex,STRINGDB

HMG20A

Tbio

Family: TF

Novelty: 0.11994252

p_int: 0.970044567

p_ni: 0.029955433

Score: 0.581

Data Source: BioPlex,STRINGDB

HMG20B

Tbio

Family: TF

Novelty: 0.05983143

p_int: 0.960757064

p_ni: 0.039242936

Score: 0.986

Data Source: BioPlex,STRINGDB

Publication Statistics

PubMed Score  902.01

PubMed score by year

Reset Zoom

PubTator Score  589.8

PubTator score by year

Reset Zoom

Amino Acid Sequence

Residue Counts

Protein Sequence

Show Full Sequence

ProtVista Viewer

Find similar targets by:

UniProt Keyword Find Similar Targets

3D-structure
Acetylation
Alternative splicing
Biological rhythms
Chromatin regulator
Complete proteome
Cytoplasm
Hydrolase
Isopeptide bond
Nucleus

MGI Phenotype Find Similar Targets

behavior/neurological phenotype
cardiovascular system phenotype
cellular phenotype
digestive/alimentary phenotype
endocrine/exocrine gland phenotype
growth/size/body region phenotype
homeostasis/metabolism phenotype
mortality/aging
muscle phenotype
nervous system phenotype