ENSG00000111642


Homo sapiens

Features
Gene ID: ENSG00000111642
  
Biological name :CHD4
  
Synonyms : CHD4 / chromodomain helicase DNA binding protein 4 / Q14839
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 12
Strand: -1
Band: p13.31
Gene start: 6570082
Gene end: 6614524
  
Corresponding Affymetrix probe sets: 201182_s_at (Human Genome U133 Plus 2.0 Array)   201183_s_at (Human Genome U133 Plus 2.0 Array)   201184_s_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000494456
Ensembl peptide - ENSP00000440542
Ensembl peptide - ENSP00000444614
Ensembl peptide - ENSP00000493471
Ensembl peptide - ENSP00000493619
Ensembl peptide - ENSP00000493829
Ensembl peptide - ENSP00000494126
Ensembl peptide - ENSP00000494247
Ensembl peptide - ENSP00000494441
Ensembl peptide - ENSP00000494498
Ensembl peptide - ENSP00000494571
Ensembl peptide - ENSP00000494574
Ensembl peptide - ENSP00000494981
Ensembl peptide - ENSP00000495023
Ensembl peptide - ENSP00000495160
Ensembl peptide - ENSP00000495233
Ensembl peptide - ENSP00000495539
Ensembl peptide - ENSP00000495816
Ensembl peptide - ENSP00000495834
Ensembl peptide - ENSP00000496163
Ensembl peptide - ENSP00000496233
Ensembl peptide - ENSP00000496291
Ensembl peptide - ENSP00000496358
Ensembl peptide - ENSP00000496457
Ensembl peptide - ENSP00000496543
Ensembl peptide - ENSP00000496634
Ensembl peptide - ENSP00000496660
Ensembl peptide - ENSP00000496707
Ensembl peptide - ENSP00000349508
Ensembl peptide - ENSP00000437506
Ensembl peptide - ENSP00000440392
NCBI entrez gene - 1108     See in Manteia.
OMIM - 603277
RefSeq - XM_017018729
RefSeq - XM_017018730
RefSeq - XM_017018731
RefSeq - XM_017018732
RefSeq - XM_017018733
RefSeq - XM_017018734
RefSeq - XM_006718960
RefSeq - XM_006718961
RefSeq - XM_006718962
RefSeq - XM_017018725
RefSeq - XM_017018726
RefSeq - XM_017018727
RefSeq - XM_017018728
RefSeq - NM_001273
RefSeq - NM_001297553
RefSeq - XM_005253668
RefSeq - XM_006718958
RefSeq - XM_006718959
RefSeq Peptide - NP_001284482
RefSeq Peptide - NP_001264
swissprot - F5H6N4
swissprot - F5GWX5
swissprot - Q14839
swissprot - A0A0C4DGG9
swissprot - F5H596
Ensembl - ENSG00000111642
  
Related genetic diseases (OMIM): 617159 - Sifrim-Hitz-Weiss syndrome, 617159
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
 chd4aENSDARG00000063535Danio rerio
 chd4bENSDARG00000025789Danio rerio
 CHD4ENSGALG00000013565Gallus gallus
 Chd4ENSMUSG00000063870Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
CHD5 / Q8TDI0 / chromodomain helicase DNA binding protein 5ENSG0000011625472
CHD3 / Q12873 / chromodomain helicase DNA binding protein 3ENSG0000017000470
CHD2 / O14647 / chromodomain helicase DNA binding protein 2ENSG0000017357527
CHD7 / Q9P2D1 / chromodomain helicase DNA binding protein 7ENSG0000017131626
CHD6 / Q8TD26 / chromodomain helicase DNA binding protein 6ENSG0000012417725
CHD9 / Q3L8U1 / chromodomain helicase DNA binding protein 9ENSG0000017720025
CHD1 / O14646 / chromodomain helicase DNA binding protein 1ENSG0000015392225
CHD8 / Q9HCK8 / chromodomain helicase DNA binding protein 8ENSG0000010088824
AC013394.1ENSG000002797651


Protein motifs (from Interpro)
Interpro ID Name
 IPR000330  SNF2-related, N-terminal domain
 IPR000953  Chromo/chromo shadow domain
 IPR001650  Helicase, C-terminal
 IPR001965  Zinc finger, PHD-type
 IPR002464  DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site
 IPR009462  Domain of unknown function DUF1086
 IPR009463  Domain of unknown function DUF1087
 IPR011011  Zinc finger, FYVE/PHD-type
 IPR012957  CHD, C-terminal 2
 IPR012958  CHD, N-terminal
 IPR013083  Zinc finger, RING/FYVE/PHD-type
 IPR014001  Helicase superfamily 1/2, ATP-binding domain
 IPR016197  Chromo-like domain superfamily
 IPR019786  Zinc finger, PHD-type, conserved site
 IPR019787  Zinc finger, PHD-finger
 IPR023780  Chromo domain
 IPR027417  P-loop containing nucleoside triphosphate hydrolase
 IPR036910  High mobility group box domain superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0000122 negative regulation of transcription by RNA polymerase II IEA
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006351 transcription, DNA-templated IEA
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0006357 regulation of transcription by RNA polymerase II TAS
 biological_processGO:0016575 histone deacetylation IEA
 biological_processGO:0032508 DNA duplex unwinding IEA
 biological_processGO:0043044 ATP-dependent chromatin remodeling HDA
 biological_processGO:0072553 terminal button organization IEA
 biological_processGO:1901796 regulation of signal transduction by p53 class mediator TAS
 cellular_componentGO:0000790 nuclear chromatin HDA
 cellular_componentGO:0005634 nucleus IDA
 cellular_componentGO:0005654 nucleoplasm TAS
 cellular_componentGO:0005737 cytoplasm IEA
 cellular_componentGO:0005813 centrosome IDA
 cellular_componentGO:0005815 microtubule organizing center IEA
 cellular_componentGO:0005856 cytoskeleton IEA
 cellular_componentGO:0016020 membrane HDA
 cellular_componentGO:0016581 NuRD complex IEA
 cellular_componentGO:0032991 protein-containing complex HDA
 cellular_componentGO:0032993 protein-DNA complex IEA
 molecular_functionGO:0000166 nucleotide binding IEA
 molecular_functionGO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding HDA
 molecular_functionGO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding HDA
 molecular_functionGO:0001103 RNA polymerase II repressing transcription factor binding IPI
 molecular_functionGO:0003677 DNA binding TAS
 molecular_functionGO:0004003 ATP-dependent DNA helicase activity TAS
 molecular_functionGO:0004386 helicase activity IEA
 molecular_functionGO:0004407 histone deacetylase activity TAS
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0005524 ATP binding IEA
 molecular_functionGO:0008134 transcription factor binding IEA
 molecular_functionGO:0008270 zinc ion binding TAS
 molecular_functionGO:0016787 hydrolase activity IEA
 molecular_functionGO:0031492 nucleosomal DNA binding HDA
 molecular_functionGO:0042826 histone deacetylase binding IPI
 molecular_functionGO:0046872 metal ion binding IEA


Pathways (from Reactome)
Pathway description
HDACs deacetylate histones
ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression
Regulation of TP53 Activity through Acetylation
RNA Polymerase I Transcription Initiation
Regulation of PTEN gene transcription


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000006 Autosomal dominant inheritance "A mode of inheritance that is observed for traits related to a gene encoded on one of the autosomes (i.e., the human chromosomes 1-22) in which a trait manifests in heterozygotes. In the context of medical genetics, an autosomal dominant disorder is caused when a single copy of the mutant allele is present. Males and females are affected equally, and can both transmit the disorder with a risk of 50% for each child of inheriting the mutant allele." [HPO:curators]
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 HP:0000028 Cryptorchidism "Absence of one or both testes from the scrotum owing to failure of the testis or testes to descend through the inguinal canal to the testis." [HPO:curators]
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 HP:0000054 Micropenis 
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 HP:0000062 Ambiguous genitalia 
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 HP:0000076 Vesicoureteral reflux "Abnormal (retrograde) movement of urine from the bladder into ureters or kidneys related to inadequacy of the valvular mechanism at the ureterovesicular junction or other causes." [HPO:curators]
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 HP:0000083 Renal failure 
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 HP:0000243 Trigonocephaly 
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 HP:0000256 Macrocephaly "The presence of an abnormally large `skull` (FMA:46565)." [HPO:probinson]
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 HP:0000280 Coarse facial features 
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 HP:0000286 Epicanthus "An epicanthal fold is a semilunar fold of skin that extends from the upper eyelid across the medial canthal area to the lower eyelid." [HPO:curators]
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 HP:0000316 Hypertelorism 
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 HP:0000365 Hearing loss 
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 HP:0000369 Low-set ears "Low-set ears are defined to be set below an arbitrary line drawn between the lateral canthus of the eye and the occipital protruberance." [HPO:curators]
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 HP:0000378 Cup-shaped ears "Small auricles that grow forward over the meatus (ear canal)." [HPO:curators]
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 HP:0000483 Astigmatism 
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 HP:0000508 Ptosis "Drooping of the eyelid." [HPO:curators]
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 HP:0000582 Upslanting palpebral fissures 
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 HP:0000894 Short clavicles 
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 HP:0001182 Tapered fingers 
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 HP:0001249 Mental retardation 
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 HP:0001290 Generalized hypotonia "Generalized muscular hypotonia (abnormally low muscle tone)." [HPO:curators]
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 HP:0001545 Anteriorly placed anus "Anterior malposition of the anus." [HPO:curators]
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 HP:0001629 Ventricular septal defect "A hole between the two bottom chambers (ventricles) of the heart. The defect is centered around the most superior aspect of the ventricular septum." [HPO:curators]
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 HP:0001631 Atrial septal defect "Atrial septal defect (ASD) is a congenital heart defect that enables blood flow between the left and right atria via the interatrial septum. The three common types of ASD are sinus venosus defects, ostium secundum defects, and ostium primum defects." [HPO:curators]
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 HP:0001636 Tetralogy of Fallot "A congenital cardiac malformation comprising pulmonary stenosis, overriding aorta, ventricular septum defect, and right ventricular hypertrophy. The diagnosis of TOF is made if at least three of the four above mentioned features are present." [HPO:curators]
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 HP:0001680 Coarctation of aorta "Coarctation of the aorta is a narrowing or constriction of the aorta just distal to the origin of the left subclavian artery." [HPO:curators]
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 HP:0002119 Ventriculomegaly 
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 HP:0002141 Gait imbalance 
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 HP:0002308 Arnold-Chiari malformation "Arnold-Chiari malformation consists of a downward displacement of the cerebellar tonsils and the medulla through the foramen magnum, sometimes causing hydrocephalus as a result of obstruction of CSF outflow." [HPO:curators]
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 HP:0002645 Wormian bones 
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 HP:0003180 Flat acetabular roofs 
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 HP:0003812 Phenotypic variability 
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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:0012745 Short palpebral fissure "Distance between the medial and lateral canthi is more than 2 SD below the mean for age (objective); or, apparently reduced length of the palpebral fissures." [pmid:19125427]
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 HP:0100864 Hypoplasia of the femoral neck 
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
No match






 

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