Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
9759
Gene name Gene Name - the full gene name approved by the HGNC.
Histone deacetylase 4
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.
HDAC4
Synonyms (NCBI Gene) Gene synonyms aliases
AHO3, BDMR, HA6116, HD4, HDAC-4, HDAC-A, HDACA, NEDCHF, NEDCHID
Disease Acronyms (UniProt) Disease acronyms from UniProt database
NEDCHF
Chromosome Chromosome number
2
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
2q37.3
Summary Summary of gene provided in NCBI Entrez Gene.
Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events. Histone acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The protein encoded by this gene b
SNPs SNP information provided by dbSNP.
SNP ID Visualize variation Clinical significance Consequence
rs115552422 C>G,T Conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant
rs138137158 C>T Conflicting-interpretations-of-pathogenicity Synonymous variant, coding sequence variant
rs139841625 G>A Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant
rs142279745 G>A Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant
rs148880349 G>A Conflicting-interpretations-of-pathogenicity Genic upstream transcript variant, upstream transcript variant, coding sequence variant, synonymous variant
miRNA miRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT001053 hsa-miR-1-3p Western blot 18818206
MIRT000693 hsa-miR-140-5p qRT-PCR, Western blot 19734943
MIRT001053 hsa-miR-1-3p Luciferase reporter assay 18818206
MIRT000693 hsa-miR-140-5p Luciferase reporter assay 19734943
MIRT001053 hsa-miR-1-3p Review 19815577
Transcription factors
Transcription factor Regulation Reference
SP1 Activation 16280357
SP3 Activation 16280357
Gene ontology (GO) Gene ontology information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0000118 Component Histone deacetylase complex IDA 11804585
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IDA 10869435, 16236793
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IGI 15743821
GO:0000122 Process Negative regulation of transcription by RNA polymerase II IMP 18850004, 19276356
GO:0000976 Function Transcription regulatory region sequence-specific DNA binding IDA 18850004
Other IDs Other ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM HGNC e!Ensembl
605314 14063 ENSG00000068024
Protein
UniProt ID P56524
Protein name Histone deacetylase 4 (HD4) (EC 3.5.1.98)
Protein 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 c
PDB 2H8N , 2O94 , 2VQJ , 2VQM , 2VQO , 2VQQ , 2VQV , 2VQW , 3UXG , 3UZD , 3V31 , 4CBT , 4CBY , 5A2S , 5ZOO , 5ZOP , 6FYZ , 7XUZ , 8PDE
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF12203 HDAC4_Gln 62 152 Glutamine rich N terminal domain of histone deacetylase 4 Family
PF00850 Hist_deacetyl 675 992 Histone deacetylase domain Domain
Tissue specificity TISSUE SPECIFICITY: Ubiquitous.
Sequence
MSSQSHPDGLSGRDQPVELLNPARVNHMPSTVDVATALPLQVAPSAVPMDLRLDHQFSLP
VAEPALREQQLQQELLALKQKQQIQRQILIAEFQRQHEQLSRQHEAQLHEHIKQQQEMLA
MKHQQELLEHQRKLERHRQEQELEKQHREQKL
QQLKNKEKGKESAVASTEVKMKLQEFVL
NKKKALAHRNLNHCISSDPRYWYGKTQHSSLDQSSPPQSGVSTSYNHPVLGMYDAKDDFP
LRKTASEPNLKLRSRLKQKVAERRSSPLLRRKDGPVVTALKKRPLDVTDSACSSAPGSGP
SSPNNSSGSVSAENGIAPAVPSIPAETSLAHRLVAREGSAAPLPLYTSPSLPNITLGLPA
TGPSAGTAGQQDAERLTLPALQQRLSLFPGTHLTPYLSTSPLERDGGAAHSPLLQHMVLL
EQPPAQAPLVTGLGALPLHAQSLVGADRVSPSIHKLRQHRPLGRTQSAPLPQNAQALQHL
VIQQQHQQFLEKHKQQFQQQQLQMNKIIPKPSEPARQPESHPEETEEELREHQALLDEPY
LDRLPGQKEAHAQAGVQVKQEPIESDEEEAEPPREVEPGQRQPSEQELLFRQQALLLEQQ
RIHQLRNYQASMEAAGIPVSFGGHRPLSRAQSSPASATFPVSVQEPPTKPRFTTGLVYDT
LMLKHQCTCGSSSSHPEHAGRIQSIWSRLQETGLRGKCECIRGRKATLEELQTVHSEAHT
LLYGTNPLNRQKLDSKKLLGSLASVFVRLPCGGVGVDSDTIWNEVHSAGAARLAVGCVVE
LVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAVAAKLLQQRLSVSKILIVDWD
VHHGNGTQQAFYSDPSVLYMSLHRYDDGNFFPGSGAPDEVGTGPGVGFNVNMAFTGGLDP
PMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSARCFGYLTKQL
MGLAGGRIVLALEGGHDLTAICDASEACVSAL
LGNELDPLPEKVLQQRPNANAVRSMEKV
MEIHSKYWRCLQRTTSTAGRSLIEAQTCENEEAETVTAMASLSVGVKPAEKRPDEEPMEE
EPPL
Sequence length 1084
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG   Reactome
  Apelin signaling pathway
Neutrophil extracellular trap formation
Alcoholism
Viral carcinogenesis
MicroRNAs in cancer
  Constitutive Signaling by NOTCH1 PEST Domain Mutants
Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
Notch-HLH transcription pathway
SUMOylation of intracellular receptors
SUMOylation of chromatin organization proteins
RUNX3 regulates p14-ARF
Associated diseases Disease information provided by ClinVar, GenCC, and GWAS databases.
Causal
Disease term Disease name dbSNP ID References
2q37 deletion syndrome Chromosome 2q37 deletion syndrome, 2q37 microdeletion syndrome rs748900140, rs1064797002 20691407, 25402011, 19365831, 23188045
Attention deficit hyperactivity disorder Attention deficit hyperactivity disorder rs786205019
Autism Autistic Disorder rs121964908, rs62643608, rs181327458, rs797046134, rs869312704, rs1555013332, rs876657679, rs1057518999, rs1057518658, rs771827120, rs1555187899, rs773080572, rs753871454, rs1684130791, rs1684180699
View all (8 more)
Brachydactyly Brachydactyly rs121908949, rs28937580, rs121909082, rs104894122, rs863223289, rs863223290, rs104894121, rs1587657302, rs863223292, rs74315386, rs74315387, rs28936397, rs753691079, rs121909348, rs121917852
View all (22 more)
20691407
Unknown
Disease term Disease name Evidence References Source
Malignant melanoma of skin Malignant melanoma of skin of lower limb, Malignant melanoma of skin of upper limb 30429480 ClinVar
Mental depression Mental Depression 19767015 ClinVar
2q37 Deletion Syndrome 2q37 microdeletion syndrome GenCC
Neuroticism Neuroticism GWAS
Associations from Text Mining
Disease Name Relationship Type References
Abnormalities Drug Induced Associate 23188045
Adenocarcinoma of Lung Associate 24830600
Adrenocortical Carcinoma Associate 36039643
Amyotrophic Lateral Sclerosis Stimulate 28842714
Anorexia Nervosa Associate 29256967
Atherosclerosis Associate 29685964, 33845782
Atrial Fibrillation Inhibit 35756425
Attention Deficit Disorder with Hyperactivity Associate 30287865
Autistic Disorder Associate 24768552
Bloom Syndrome Associate 31817742