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Aliases for CHD4 Gene

Aliases for CHD4 Gene

  • Chromodomain Helicase DNA Binding Protein 4 2 3
  • Mi-2 Autoantigen 218 KDa Protein 3 4
  • ATP-Dependent Helicase CHD4 3 4
  • Mi2-BETA 3 4
  • CHD-4 3 4
  • EC 3.6.4.12 4
  • EC 3.6.1 63
  • Mi-2b 3

External Ids for CHD4 Gene

Previous GeneCards Identifiers for CHD4 Gene

  • GC12M006534
  • GC12M006653
  • GC12M006558
  • GC12M006549
  • GC12M006679
  • GC12M006533

Summaries for CHD4 Gene

Entrez Gene Summary for CHD4 Gene

  • The product of this gene belongs to the SNF2/RAD54 helicase family. It represents the main component of the nucleosome remodeling and deacetylase complex and plays an important role in epigenetic transcriptional repression. Patients with dermatomyositis develop antibodies against this protein. Somatic mutations in this gene are associated with serous endometrial tumors. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2014]

GeneCards Summary for CHD4 Gene

CHD4 (Chromodomain Helicase DNA Binding Protein 4) is a Protein Coding gene. Diseases associated with CHD4 include dermatomyositis and ehlers-danlos syndrome, type vi. Among its related pathways are RNA Polymerase I Promoter Opening and Development NOTCH1-mediated pathway for NF-KB activity modulation. GO annotations related to this gene include hydrolase activity and RNA polymerase II core promoter proximal region sequence-specific DNA binding. An important paralog of this gene is CHD1.

UniProtKB/Swiss-Prot for CHD4 Gene

  • Component of the histone deacetylase NuRD complex which participates in the remodeling of chromatin by deacetylating histones.

Gene Wiki entry for CHD4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHD4 Gene

Genomics for CHD4 Gene

Regulatory Elements for CHD4 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CHD4 Gene

Chromosome:
12
Start:
6,570,082 bp from pter
End:
6,607,476 bp from pter
Size:
37,395 bases
Orientation:
Minus strand

Genomic View for CHD4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CHD4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHD4 Gene

Proteins for CHD4 Gene

  • Protein details for CHD4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14839-CHD4_HUMAN
    Recommended name:
    Chromodomain-helicase-DNA-binding protein 4
    Protein Accession:
    Q14839
    Secondary Accessions:
    • Q8IXZ5

    Protein attributes for CHD4 Gene

    Size:
    1912 amino acids
    Molecular mass:
    218005 Da
    Quaternary structure:
    • Interacts with KLF1; the interaction depends on sumoylation of KLF1, and leads to its transcriptional repression (By similarity). Interacts directly with IKFZ1 in the NuRD complex. Central component of the nucleosome remodeling and histone deacetylase (NuRD) repressor complex (PubMed:9804427, PubMed:10204490, PubMed:15454082). Part of a complex containing ATR and HDAC2 (PubMed:10545197). Interacts with TRIM27 (PubMed:14530259). Interacts with ZGPAT; the interaction is direct (PubMed:19644445). Interacts with BCL6 (PubMed:15454082). Interacts with BRD4 (PubMed:21555454). Interacts with PCNT (PubMed:17626165). Interacts with SETX (PubMed:23149945).
    Miscellaneous:
    • One of the main antigens reacting with anti-MI-2 positive sera of dermatomyositis

    Three dimensional structures from OCA and Proteopedia for CHD4 Gene

    Alternative splice isoforms for CHD4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CHD4 Gene

Proteomics data for CHD4 Gene at MOPED

Post-translational modifications for CHD4 Gene

  • Ubiquitination at Lys 504, Lys 1057, Lys 1092, Lys 1837, Lys 1852, Lys 1855, and Lys 1865
  • Modification sites at PhosphoSitePlus

Other Protein References for CHD4 Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for CHD4 (CHD-4)

Domains & Families for CHD4 Gene

Gene Families for CHD4 Gene

Suggested Antigen Peptide Sequences for CHD4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q14839

UniProtKB/Swiss-Prot:

CHD4_HUMAN :
  • Contains 2 chromo domains.
  • Belongs to the SNF2/RAD54 helicase family.
  • Contains 2 PHD-type zinc fingers.
Domain:
  • Contains 2 chromo domains.
  • Contains 1 helicase ATP-binding domain.
  • Contains 1 helicase C-terminal domain.
Family:
  • Belongs to the SNF2/RAD54 helicase family.
Similarity:
  • Contains 2 PHD-type zinc fingers.
genes like me logo Genes that share domains with CHD4: view

Function for CHD4 Gene

Molecular function for CHD4 Gene

GENATLAS Biochemistry:
DNA binding protein with two chromatin organization (chromo) domains,and a helicase domain,4,component of the chromatin remodeling complex
UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate
UniProtKB/Swiss-Prot Function:
Component of the histone deacetylase NuRD complex which participates in the remodeling of chromatin by deacetylating histones.

Enzyme Numbers (IUBMB) for CHD4 Gene

Gene Ontology (GO) - Molecular Function for CHD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 contributes_to RNA polymerase II core promoter proximal region sequence-specific DNA binding IDA 16217013
GO:0000980 contributes_to RNA polymerase II distal enhancer sequence-specific DNA binding IDA 16217013
GO:0001103 RNA polymerase II repressing transcription factor binding IPI 22926524
GO:0003676 nucleic acid binding --
GO:0003677 DNA binding TAS 9326634
genes like me logo Genes that share ontologies with CHD4: view
genes like me logo Genes that share phenotypes with CHD4: view

Animal Models for CHD4 Gene

MGI Knock Outs for CHD4:

Animal Model Products

miRNA for CHD4 Gene

miRTarBase miRNAs that target CHD4

No data available for Transcription Factor Targets and HOMER Transcription for CHD4 Gene

Localization for CHD4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHD4 Gene

Nucleus. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome. Note=Associates with centrosomes in interphase. {ECO:0000250 UniProtKB:Q6PDQ2}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CHD4 Gene COMPARTMENTS Subcellular localization image for CHD4 gene
Compartment Confidence
cytoskeleton 5
nucleus 5

Gene Ontology (GO) - Cellular Components for CHD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin IDA 16217013
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA 17626165
GO:0005813 centrosome IDA 17626165
genes like me logo Genes that share ontologies with CHD4: view

Pathways & Interactions for CHD4 Gene

genes like me logo Genes that share pathways with CHD4: view

Pathways by source for CHD4 Gene

1 Qiagen pathway for CHD4 Gene
1 Cell Signaling Technology pathway for CHD4 Gene
1 BioSystems pathway for CHD4 Gene

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Gene Ontology (GO) - Biological Process for CHD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA --
GO:0006325 chromatin organization TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated --
GO:0006357 regulation of transcription from RNA polymerase II promoter TAS 9326634
genes like me logo Genes that share ontologies with CHD4: view

No data available for SIGNOR curated interactions for CHD4 Gene

Drugs & Compounds for CHD4 Gene

(1) Drugs for CHD4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine triphosphate Approved Nutra 0

(3) Additional Compounds for CHD4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Antagonist, Gating inhibitor 58-64-0
phosphoric acid
  • Acide phosphorique (FRENCH)
  • Acido fosforico [Italian]
  • Acidum phosphoricum
  • Diphosphate tetrasodium
  • Fosforzuuroplossingen [Dutch]
7664-38-2
Water
  • Dihydrogen oxide
  • Steam
7732-18-5
genes like me logo Genes that share compounds with CHD4: view

Transcripts for CHD4 Gene

Unigene Clusters for CHD4 Gene

Chromodomain helicase DNA binding protein 4:
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CHD4

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CHD4 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b · 11c ^ 12a · 12b · 12c · 12d ^ 13a · 13b ^ 14a ·
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SP19: - - - - - - - - - - - - - - - - - - - - - -
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SP29: - -
SP30: - - -
SP31: -
SP32: -
SP33:

ExUns: 14b · 14c ^ 15 ^ 16 ^ 17a · 17b · 17c ^ 18 ^ 19a · 19b ^ 20a · 20b ^ 21a · 21b ^ 22 ^ 23a · 23b ^ 24a · 24b ^ 25 ^ 26a · 26b · 26c · 26d ^ 27 ^ 28a ·
SP1:
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SP7: -
SP8: -
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SP19: - - - - - - - - - - - - - - - - - - - - - - - - - -
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SP22: -
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SP33:

ExUns: 28b ^ 29a · 29b · 29c ^ 30a · 30b · 30c ^ 31a · 31b ^ 32a · 32b · 32c ^ 33a · 33b · 33c · 33d ^ 34a · 34b ^ 35a · 35b ^ 36a · 36b ^ 37 ^ 38a · 38b · 38c ^
SP1:
SP2: -
SP3:
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SP7:
SP8:
SP9: -
SP10: -
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SP18:
SP19: - - - -
SP20:
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SP22:
SP23: -
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SP30:
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SP33:

ExUns: 39a · 39b ^ 40 ^ 41 ^ 42a · 42b ^ 43 ^ 44a ·
SP1:
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SP4:
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SP7:
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SP25: -
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SP33:

Relevant External Links for CHD4 Gene

GeneLoc Exon Structure for
CHD4
ECgene alternative splicing isoforms for
CHD4

Expression for CHD4 Gene

mRNA expression in normal human tissues for CHD4 Gene

Protein differential expression in normal tissues from HIPED for CHD4 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (10.5) and Lymph node (10.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for CHD4 Gene



SOURCE GeneReport for Unigene cluster for CHD4 Gene Hs.162233

genes like me logo Genes that share expression patterns with CHD4: view

Protein tissue co-expression partners for CHD4 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for CHD4 Gene

Orthologs for CHD4 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CHD4 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia CHD4 35
  • 92.14 (n)
  • 98.74 (a)
CHD4 36
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CHD4 35
  • 94.07 (n)
  • 99.32 (a)
CHD4 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Chd4 35
  • 91.27 (n)
  • 98.69 (a)
Chd4 16
Chd4 36
  • 98 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Chd4 35
  • 91.41 (n)
  • 98.38 (a)
oppossum
(Monodelphis domestica)
Mammalia CHD4 36
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CHD4 36
  • 83 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia CHD4 36
  • 100 (a)
OneToOne
chicken
(Gallus gallus)
Aves CHD4 35
  • 78.84 (n)
  • 91.25 (a)
CHD4 36
  • 91 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CHD4 36
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia chd4 35
  • 75.12 (n)
  • 85.96 (a)
Str.16957 35
African clawed frog
(Xenopus laevis)
Amphibia b230399n07-prov 35
zebrafish
(Danio rerio)
Actinopterygii chd4a 35
  • 73.18 (n)
  • 81.77 (a)
Dr.27188 35
chd4a 36
  • 77 (a)
OneToMany
chd4b 36
  • 76 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Chd3 37
  • 54 (a)
Mi-2 37
  • 62 (a)
Chd3 36
  • 58 (a)
ManyToMany
Mi-2 36
  • 54 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea let-418 35
  • 59.33 (n)
  • 61 (a)
chd-3 36
  • 50 (a)
ManyToMany
let-418 36
  • 49 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CHD1 36
  • 25 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons PKR2 35
  • 53.18 (n)
  • 46.49 (a)
rice
(Oryza sativa)
Liliopsida Os.10905 35
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2842 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8509 36
  • 57 (a)
OneToMany
Species with no ortholog for CHD4:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CHD4 Gene

ENSEMBL:
Gene Tree for CHD4 (if available)
TreeFam:
Gene Tree for CHD4 (if available)

Paralogs for CHD4 Gene

Paralogs for CHD4 Gene

genes like me logo Genes that share paralogs with CHD4: view

Variants for CHD4 Gene

Sequence variations from dbSNP and Humsavar for CHD4 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs1057510 -- 6,574,121(+) CTAAT(A/G)TAGTA intron-variant
rs1639122 - 6,601,981(+) TCATC(A/C/G)TCCTC missense, reference
rs1734114 -- 6,604,284(+) TAAAA(A/G)AGAAA intron-variant
rs2267971 -- 6,600,150(+) GGCCC(C/T)GAAGA intron-variant
rs2284324 -- 6,579,230(+) GGATC(A/T)CCTGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CHD4 Gene

Variant ID Type Subtype PubMed ID
nsv826210 CNV Gain 20364138
nsv509452 CNV Insertion 20534489
esv1065323 CNV Deletion 17803354
nsv832322 CNV Loss 17160897
nsv826211 CNV Gain 20364138
esv2027881 CNV Deletion 18987734
esv2675369 CNV Deletion 23128226

Variation tolerance for CHD4 Gene

Residual Variation Intolerance Score: .52% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.09; 50.94% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CHD4 Gene

HapMap Linkage Disequilibrium report
CHD4
Human Gene Mutation Database (HGMD)
CHD4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHD4 Gene

Disorders for CHD4 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CHD4 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
dermatomyositis
  • polymyositis with skin involvement
ehlers-danlos syndrome, type vi
  • type vi ehlers-danlos syndrome
- elite association
Search CHD4 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CHD4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CHD4
genes like me logo Genes that share disorders with CHD4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CHD4 Gene

Publications for CHD4 Gene

  1. Binding of the CHD4 PHD2 finger to histone H3 is modulated by covalent modifications. (PMID: 19624289) Musselman C.A. … Kutateladze T.G. (Biochem. J. 2009) 23 67
  2. Epigenetic silencers are enriched in dormant desert frog muscle. (PMID: 18369641) Hudson N.J. … Lehnert S.A. (J. Comp. Physiol. B, Biochem. Syst. Environ. Physiol. 2008) 23 67
  3. Active gene repression by the Egr2.NAB complex during peripheral nerve myelination. (PMID: 18456662) Mager G.M. … Svaren J. (J. Biol. Chem. 2008) 23 67
  4. CHD4/Mi-2beta activity is required for the positioning of the mesoderm/neuroectoderm boundary in Xenopus. (PMID: 17438000) Linder B. … Rupp R.A. (Genes Dev. 2007) 23 67
  5. NAB2 represses transcription by interacting with the CHD4 subunit of the nucleosome remodeling and deacetylase (NuRD) complex. (PMID: 16574654) Srinivasan R. … Svaren J. (J. Biol. Chem. 2006) 23 67

Products for CHD4 Gene

Sources for CHD4 Gene

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