ENSG00000068024


Homo sapiens

Features
Gene ID: ENSG00000068024
  
Biological name :HDAC4
  
Synonyms : HDAC4 / histone deacetylase 4 / P56524
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 2
Strand: -1
Band: q37.3
Gene start: 239048168
Gene end: 239401654
  
Corresponding Affymetrix probe sets: 1554322_a_at (Human Genome U133 Plus 2.0 Array)   204225_at (Human Genome U133 Plus 2.0 Array)   228813_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000410551
Ensembl peptide - ENSP00000405226
Ensembl peptide - ENSP00000438111
Ensembl peptide - ENSP00000440481
Ensembl peptide - ENSP00000264606
Ensembl peptide - ENSP00000391226
Ensembl peptide - ENSP00000392912
NCBI entrez gene - 9759     See in Manteia.
OMIM - 605314
RefSeq - XM_017005395
RefSeq - XM_011512223
RefSeq - XM_011512224
RefSeq - XM_011512225
RefSeq - XM_011512226
RefSeq - XM_011512227
RefSeq - XM_011512230
RefSeq - XM_017005394
RefSeq - NM_006037
RefSeq - XM_006712877
RefSeq - XM_006712878
RefSeq - XM_006712879
RefSeq - XM_006712880
RefSeq - XM_011512217
RefSeq - XM_011512218
RefSeq - XM_011512219
RefSeq - XM_011512220
RefSeq - XM_011512221
RefSeq - XM_011512222
RefSeq Peptide - NP_006028
swissprot - F5H0B1
swissprot - H7BZT3
swissprot - C9J481
swissprot - C9J0X4
swissprot - P56524
swissprot - H7C397
Ensembl - ENSG00000068024
  
See expression report in BioGPS
See gene description in Wikigenes
See gene description in GeneCards
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 hdac4ENSDARG00000098349Danio rerio
 HDAC4ENSGALG00000004288Gallus gallus
 Hdac4ENSMUSG00000026313Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
HDAC5 / Q9UQL6 / histone deacetylase 5ENSG0000010884061
HDAC9 / Q9UKV0 / histone deacetylase 9ENSG0000004805258
HDAC7 / Q8WUI4 / histone deacetylase 7ENSG0000006127347
HDAC6 / Q9UBN7 / histone deacetylase 6ENSG0000009463125
HDAC10 / Q969S8 / histone deacetylase 10ENSG0000010042911


Protein motifs (from Interpro)
Interpro ID Name
 IPR000286  Histone deacetylase family
 IPR011989  Armadillo-like helical
 IPR017320  Histone deacetylase class II, eukaryotic
 IPR023696  Ureohydrolase domain superfamily
 IPR023801  Histone deacetylase domain
 IPR024643  Histone deacetylase, glutamine rich N-terminal domain
 IPR033660  Histone deacetylase 4
 IPR037138  Histone deacetylase domain superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0000122 negative regulation of transcription by RNA polymerase II IGI
 biological_processGO:0001501 skeletal system development IEA
 biological_processGO:0002076 osteoblast development IEA
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006338 chromatin remodeling IDA
 biological_processGO:0006351 transcription, DNA-templated IEA
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0006476 protein deacetylation IDA
 biological_processGO:0006954 inflammatory response TAS
 biological_processGO:0007399 nervous system development TAS
 biological_processGO:0008284 positive regulation of cell proliferation IMP
 biological_processGO:0008285 negative regulation of cell proliferation IEA
 biological_processGO:0010592 positive regulation of lamellipodium assembly IEA
 biological_processGO:0010832 negative regulation of myotube differentiation IMP
 biological_processGO:0010882 regulation of cardiac muscle contraction by calcium ion signaling IEA
 biological_processGO:0014894 response to denervation involved in regulation of muscle adaptation ISS
 biological_processGO:0014898 cardiac muscle hypertrophy in response to stress TAS
 biological_processGO:0014911 positive regulation of smooth muscle cell migration IEA
 biological_processGO:0016575 histone deacetylation IMP
 biological_processGO:0030183 B cell differentiation TAS
 biological_processGO:0033235 positive regulation of protein sumoylation IDA
 biological_processGO:0034983 peptidyl-lysine deacetylation IDA
 biological_processGO:0040029 regulation of gene expression, epigenetic IMP
 biological_processGO:0042113 B cell activation TAS
 biological_processGO:0042493 response to drug IEA
 biological_processGO:0043393 regulation of protein binding IMP
 biological_processGO:0043433 negative regulation of DNA-binding transcription factor activity IMP
 biological_processGO:0043525 positive regulation of neuron apoptotic process IEA
 biological_processGO:0045668 negative regulation of osteoblast differentiation IEA
 biological_processGO:0045820 negative regulation of glycolytic process ISS
 biological_processGO:0045892 negative regulation of transcription, DNA-templated IMP
 biological_processGO:0045893 positive regulation of transcription, DNA-templated ISS
 biological_processGO:0045944 positive regulation of transcription by RNA polymerase II ISS
 biological_processGO:0048661 positive regulation of smooth muscle cell proliferation IEA
 biological_processGO:0048742 regulation of skeletal muscle fiber development IEA
 biological_processGO:0051091 positive regulation of DNA-binding transcription factor activity IMP
 biological_processGO:0051153 regulation of striated muscle cell differentiation IEA
 biological_processGO:0070555 response to interleukin-1 IMP
 biological_processGO:0070932 histone H3 deacetylation IDA
 biological_processGO:0070933 histone H4 deacetylation IDA
 biological_processGO:0071260 cellular response to mechanical stimulus IEA
 biological_processGO:0071356 cellular response to tumor necrosis factor IEA
 biological_processGO:0071374 cellular response to parathyroid hormone stimulus IEA
 biological_processGO:1902894 negative regulation of pri-miRNA transcription by RNA polymerase II IEA
 biological_processGO:1903428 positive regulation of reactive oxygen species biosynthetic process IEA
 cellular_componentGO:0000118 histone deacetylase complex IDA
 cellular_componentGO:0005634 nucleus IEA
 cellular_componentGO:0005654 nucleoplasm TAS
 cellular_componentGO:0005737 cytoplasm IDA
 cellular_componentGO:0005829 cytosol IDA
 cellular_componentGO:0017053 transcriptional repressor complex IDA
 cellular_componentGO:0030017 sarcomere IEA
 cellular_componentGO:0030018 Z disc IEA
 cellular_componentGO:0031594 neuromuscular junction IEA
 cellular_componentGO:0031672 A band IEA
 cellular_componentGO:0042641 actomyosin IEA
 molecular_functionGO:0001047 core promoter binding IDA
 molecular_functionGO:0001085 RNA polymerase II transcription factor binding IPI
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0003682 chromatin binding IEA
 molecular_functionGO:0003714 transcription corepressor activity IEA
 molecular_functionGO:0004407 histone deacetylase activity IDA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0008134 transcription factor binding IPI
 molecular_functionGO:0008270 zinc ion binding IDA
 molecular_functionGO:0016787 hydrolase activity IEA
 molecular_functionGO:0019901 protein kinase binding IEA
 molecular_functionGO:0030955 potassium ion binding IDA
 molecular_functionGO:0032041 NAD-dependent histone deacetylase activity (H3-K14 specific) IEA
 molecular_functionGO:0033558 protein deacetylase activity TAS
 molecular_functionGO:0033613 activating transcription factor binding IPI
 molecular_functionGO:0042802 identical protein binding IPI
 molecular_functionGO:0042826 histone deacetylase binding IPI
 molecular_functionGO:0043565 sequence-specific DNA binding IDA
 molecular_functionGO:0044212 transcription regulatory region DNA binding IDA
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0070491 repressing transcription factor binding IPI
 molecular_functionGO:1990841 promoter-specific chromatin binding IEA


Pathways (from Reactome)
Pathway description
NOTCH1 Intracellular Domain Regulates Transcription
Constitutive Signaling by NOTCH1 PEST Domain Mutants
Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
SUMOylation of intracellular receptors
SUMOylation of chromatin organization proteins
RUNX2 regulates chondrocyte maturation
RUNX3 regulates p14-ARF


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000003 Multicystic kidney "Multicystic dysplasia of the kidney is characterized by multiple cysts of varying size in the kidney and the absence of a normal pelvocaliceal system. The condition is associated with ureteral or ureteropelvic atresia, and the affected kidney is nonfunctional." [HPO:curators]
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 HP:0000233 Thin vermillion border 
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 HP:0000252 Microcephaly "Microcephaly is a neurodevelopmental disorder in which the circumference of the head is more than two standard deviations smaller than the age- and gender-dependent norm." [HPO:curators]
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 HP:0000256 Macrocephaly "The presence of an abnormally large `skull` (FMA:46565)." [HPO:probinson]
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 HP:0000311 Round face "An unusually round appearance of the face." [HPO:curators]
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 HP:0000405 Hearing loss, conductive 
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 HP:0000430 Hypoplastic nasal alae "Thinned, deficient, or excessively arched `ala nasi` (FMA:59519)." [pmid:19152422]
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 HP:0000463 Nares, anteverted "Anteriorly-facing nostrils viewed with the head in the Frankfurt horizontal and the eyes of the observer level with the eyes of the subject." [pmid:19152422]
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 HP:0000470 Short neck 
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 HP:0000490 Deep set eyes 
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 HP:0000535 Sparse eyebrows 
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 HP:0000582 Upslanting palpebral fissures 
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 HP:0000717 Autism 
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 HP:0000722 Obsessive-compulsive disorder 
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 HP:0000733 Stereotyped, repetitive behaviour 
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 HP:0000776 Diaphragmatic hernia "Diaphragmatic hernia is the result of a developmental defect causing an abnormal opening in the diaphragm, through which abdominal organs (stomach, spleen, liver, and intestines) can protrude into the thoracic cavity. This usually causes respiratory distress in the newborn period." [HPO:curators]
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 HP:0000964 Eczema "Eczema is a form of dermatitis. The term eczema is broadly applied to a range of persistent skin conditions and can be related to a number of underlying conditions. Manifestations of eczema can include dryness and recurring skin rashes with redness, skin edema, itching and dryness, crusting, flaking, blistering, cracking, oozing, or bleeding." [HPO:curators]
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 HP:0001156 Brachydactyly 
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 HP:0001249 Mental retardation 
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 HP:0001250 Seizures "Seizures are an intermittent `abnormality of the central nervous system` (FMA:HP:0002011) due to a sudden, excessive, disorderly discharge of cerebral neurons and characterized clinically by some combination of disturbance of sensation, loss of consciousness, impairment of psychic function, or convulsive movements." [HPO:probinson]
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 HP:0001252 Muscular hypotonia "Muscular hypotonia is an abnormally low muscle tone (the amount of tension or resistance to movement in a muscle), often involving reduced muscle strength. Hypotonia is characterized by a diminished resistance to passive stretching." [HPO:curators]
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 HP:0001263 Developmental retardation "A delay in the achievement of motor or mental milestones manifested prior to age 18 and generally associated with lifelong mental and/or physical impairments." [HPO:curators]
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 HP:0001513 Obesity "A status with BODY WEIGHT that is grossly above the acceptable or desirable weight, usually due to accumulation of excess FATS in the body. The standards may vary with age, sex, genetic or cultural background. In the BODY MASS INDEX, a BMI greater than 30.0 kg/m2 is considered obese, and a BMI greater than 40.0 kg/m2 is considered morbidly obese (MORBID OBESITY)." [MeSH:D009765]
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 HP:0001537 Umbilical hernia "Protrusion of abdominal contents through a defect in the abdominal wall musculature around the umbilicus. Skin and subcutaneous tissue overlie the defect." [HPO:curators]
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 HP:0001601 Laryngomalacia 
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 HP:0001679 Abnormalities of the aorta 
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 HP:0001770 Toe syndactyly "Webbing or fusion of the toes, involving soft parts only or including bone structure. Bony fusions are revered to as "bony" Syndactyly if the fusion occurs in a radio-ulnar axis. Fusions of bones of the toes in a proximo-distal axis are refered to as "Symphalangism"." [HPO:curators]
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 HP:0001773 Short, broad feet "Abnormally short and wide feet." [HPO:curators]
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 HP:0002007 Frontal bossing "The presence of an unusually prominent forehead." [HPO:curators]
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 HP:0002021 Pyloric stenosis 
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 HP:0002209 Sparse scalp hair "Sparseness of the `head hair` (FMA:54241)." [HPO:probinson]
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 HP:0002360 Sleep disturbances "An abnormality of sleep including such phenomena as 1) insomnia/hypersomnia, 2) non-restorative sleep, 3) sleep schedule disorder, 4) excessive daytime somnolence, 5) sleep apnea, and 6) restlessness." [HPO:curators]
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 HP:0002553 Arched eyebrows 
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 HP:0002558 Supernumerary nipples 
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 HP:0002667 Nephroblastoma (Wilms tumor) "A kind of renal tumor primarily affecting children. It is characterized by an abnormal proliferation of the metanephric blastema cells, which are believed to be primitive embryologic cells of the kidney. Clinically, nephroblatoma usually presents as an abdominal mass, and in some cases with abdominal pain, hypertension, hematuria, and fever." [HPO:curators]
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 HP:0002714 Downturned corners of mouth "A morphological `abnormality of the mouth` (HP:0000153) in which the `angle of the mouth` (FMA:77269) is downturned." [HPO:probinson]
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 HP:0002779 Tracheomalacia 
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 HP:0004209 Clinodactyly of the 5th finger "Clinodactyly refers to a bending or curvature of the `fifth finger` (FMA:24949) in the radial direction (i.e., towards the 4th finger)." [HPO:curators]
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 HP:0004279 Hypoplastic hand 
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 HP:0004322 Decreased body height "A height below that which is expected according to age and gender norms. Although there is no universally accepted definition of short stature, many refer to "short stature" as height more than 2 standard deviations below the mean for age and gender (or below the 3rd percentile for age and gender dependent norms)." [HPO:curators]
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 HP:0005280 Depressed nasal root and bridge 
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 HP:0005692 Joint hyperflexibility 
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 HP:0006101 Finger syndactyly "Webbing or fusion of the fingers, involving soft parts only or including bone structure. Bony fusions are revered to as "bony" Syndactyly if the fusion occurs in a radio-ulnar axis. Fusions of bones of the fingers in a proximo-distal axis are refered to as "Symphalangism"." [HPO:curators]
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 HP:0006610 Wide intermamillary distance 
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 HP:0007018 Attention deficit hyperactivity disorder "Attention deficit hyperactivity disorder (ADHD) manifests at age 2-3 years or by first grade at the latest. The main symptoms are distractibility, impulsivity, hyperactivity, and often trouble organizing tasks and projects, difficulty going to sleep, and social problems from being aggressive, loud, or impatient." [HPO:curators]
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 HP:0007598 Bilateral single palmar creases 
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 HP:0010049 Hypoplastic/short metacarpal bones 
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 HP:0010761 Columella, broad "Increased width of the columella." [pmid:19152422]
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 HP:0011800 Midface retrusion "Posterior positions and/or vertical shortening of the infraorbital and perialar regions, or increased concavity of the face and/or reduced nasolabial angle." [DDD:jclayton-smith]
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 HP:0200055 Small hands 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSG00000110092 CCND1 / P24385 / cyclin D1  / complex / reaction
 ENSG00000067955 CBFB / Q13951 / core-binding factor beta subunit  / reaction / complex
 ENSG00000020633 RUNX3 / Q13761 / runt related transcription factor 3  / reaction / complex
 ENSG00000184900 SUMO3 / P55854 / small ubiquitin-like modifier 3  / reaction
 ENSG00000103275 UBE2I / P63279 / ubiquitin conjugating enzyme E2 I  / reaction
 ENSG00000188612 SUMO2 / P61956 / small ubiquitin-like modifier 2  / reaction
 ENSG00000124813 RUNX2 / Q13950 / runt related transcription factor 2  / complex / reaction
 ENSG00000204256 BRD2 / P25440 / bromodomain containing 2  / reaction / complex
 ENSG00000116030 SUMO1 / P63165 / small ubiquitin-like modifier 1  / reaction / complex






 

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