Chd1 chromodomain helicase DNA binding protein 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Chd1provided by MGI
Official Full Name: chromodomain helicase DNA binding protein 1provided by MGI
Primary source: MGI:MGI:88393
See related: Ensembl:ENSMUSG00000023852 AllianceGenome:MGI:88393
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 4930525N21Rik
Summary: Predicted to enable several functions, including ATP hydrolysis activity; ATP-dependent chromatin remodeler activity; and methylated histone binding activity. Acts upstream of or within chromatin remodeling. Predicted to be located in chromatin and cytoplasm. Predicted to be active in nucleus. Is expressed in early conceptus and primary oocyte. Human ortholog(s) of this gene implicated in castration-resistant prostate carcinoma and prostate cancer. Orthologous to human CHD1 (chromodomain helicase DNA binding protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 7.3), thymus adult (RPKM 6.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 17 A2; 17 8.95 cM

Exon count:: 37

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	17	NC_000083.7 (15925229..15992874)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	17	NC_000083.6 (15704967..15772612)

Chromosome 17 - NC_000083.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Chromatin Regulator CHD1 Remodels the Immunosuppressive Tumor Microenvironment in PTEN-Deficient Prostate Cancer.
Title: Chromatin Regulator CHD1 Remodels the Immunosuppressive Tumor Microenvironment in PTEN-Deficient Prostate Cancer.
Chd1 protects genome integrity at promoters to sustain hypertranscription in embryonic stem cells.
Title: Chd1 protects genome integrity at promoters to sustain hypertranscription in embryonic stem cells.
CHD1 and SPOP synergistically protect prostate epithelial cells from DNA damage.
Title: CHD1 and SPOP synergistically protect prostate epithelial cells from DNA damage.
Organ-specific regulation of CHD1 by acute PTEN and p53 loss in mice.
Title: Organ-specific regulation of CHD1 by acute PTEN and p53 loss in mice.
CHD1 loss is associated with an increased sensitivity to PARP inhibition and anti-cancer drugs that induce DNA intercross-strand links in prostate tumors.
Title: CHD1 loss sensitizes prostate cancer to DNA damaging therapy by promoting error-prone double-strand break repair.
These results underscore the importance of Chd1 for the regulation of pluripotency in ESCs and provide evidence for a hitherto unrecognized critical role of the phosphorylated N-terminal SRR for full functionality of Chd1.
Title: Embryonic stem cell differentiation requires full length Chd1.
find that Chd1 evicts nucleosomes downstream of the promoter in order to overcome the nucleosomal barrier and enable PolII promoter escape, thus providing mechanistic insight into the role of Chd1 in transcription and pluripotency
Title: The nucleosomal barrier to promoter escape by RNA polymerase II is overcome by the chromatin remodeler Chd1.
These findings indicate that CHD1 plays important roles in mouse early embryogenesis via activation of Hmgpi at zygotic gene activation.
Title: CHD1 acts via the Hmgpi pathway to regulate mouse early embryogenesis.
Chd1-driven elevation in transcriptional output is essential for the developmental transition from endothelium to definitive hematopoiesis in the mouse embryo.
Title: Emergence of hematopoietic stem and progenitor cells involves a Chd1-dependent increase in total nascent transcription.
Chd1 promotes a globally elevated transcriptional output required to sustain the distinctly rapid growth of the mouse epiblast.
Title: Chd1 is essential for the high transcriptional output and rapid growth of the mouse epiblast.

Submit: New GeneRIF Correction See all GeneRIFs (12)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (4)
Gene trapped (1)
Targeted (7) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

MARC_15733-15734:1013528717:1 (e-PCR)
- UniSTS:267886

MARC_15733-15734:1032189390:3 (e-PCR)
- UniSTS:267886

AI851787 (e-PCR)
- UniSTS:166029

D17Jcs21 (e-PCR), detects polymorphism
- UniSTS:259269

AW555109 (e-PCR)
- UniSTS:186087

RH141493 (e-PCR)
- UniSTS:223487

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IBA Inferred from Biological aspect of Ancestor more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent H2AZ histone chaperone activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent H3-H4 histone complex chaperone activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent chromatin remodeler activity	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA clamp loader activity	IEA Inferred from Electronic Annotation more info
enables chromatin binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	NAS Non-traceable Author Statement more info	PubMed
enables chromatin extrusion motor activity	IEA Inferred from Electronic Annotation more info
enables cohesin loader activity	IEA Inferred from Electronic Annotation more info
enables double-stranded DNA helicase activity	IEA Inferred from Electronic Annotation more info
enables forked DNA-dependent helicase activity	IEA Inferred from Electronic Annotation more info
enables four-way junction helicase activity	IEA Inferred from Electronic Annotation more info
enables helicase activity	NAS Non-traceable Author Statement more info	PubMed
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables methylated histone binding	IEA Inferred from Electronic Annotation more info
enables methylated histone binding	ISO Inferred from Sequence Orthology more info
enables single-stranded 3'-5' DNA helicase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA duplex unwinding	IEA Inferred from Electronic Annotation more info
involved_in chromatin looping	IEA Inferred from Electronic Annotation more info
involved_in chromatin organization	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within chromatin remodeling	IGI Inferred from Genetic Interaction more info	PubMed
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in nucleosome organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation by host of viral transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation by host of viral transcription	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in chromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nuclear chromosome	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	NAS Non-traceable Author Statement more info	PubMed

General protein information

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Preferred Names: chromodomain-helicase-DNA-binding protein 1

Names: ATP-dependent helicase CHD1; CHD-1

NP_031716.2

EC 3.6.4.12

XP_036016182.1

EC 3.6.4.12

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_007690.3 → NP_031716.2 chromodomain-helicase-DNA-binding protein 1

See identical proteins and their annotated locations for NP_031716.2

Status: VALIDATED

Source sequence(s)

AC102745, CT033750

Consensus CDS

CCDS28416.1

UniProtKB/Swiss-Prot

P40201, Q14BJ0

Related

ENSMUSP00000024627.8, ENSMUST00000024627.14

Conserved Domains (10) summary

PRK12279
Location:1276 → 1466

PRK12279; 50S ribosomal protein L22/unknown domain fusion protein; Provisional

PHA03420
Location:1591 → 1691

PHA03420; E4 protein; Provisional

cd00024
Location:304 → 353

CHROMO; Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence ...

cd00046
Location:498 → 643

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

pfam00176
Location:482 → 763

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:801 → 900

Helicase_C; Helicase conserved C-terminal domain

pfam00385
Location:388 → 441

Chromo; Chromo (CHRromatin Organization MOdifier) domain

pfam08648
Location:1581 → 1697

DUF1777; Protein of unknown function (DUF1777)

pfam11496
Location:716 → 969

HDA2-3; Class II histone deacetylase complex subunits 2 and 3

pfam13907
Location:1407 → 1498

DUF4208; Domain of unknown function (DUF4208)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000083.7 Reference GRCm39 C57BL/6J

Range

15925229..15992874

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036160289.1 → XP_036016182.1 chromodomain-helicase-DNA-binding protein 1 isoform X1

UniProtKB/TrEMBL

Q8C7Q2

Related

ENSMUSP00000134091.2, ENSMUST00000173311.8

Conserved Domains (3) summary

PLN03142
Location:462 → 998

PLN03142; Probable chromatin-remodeling complex ATPase chain; Provisional

cd18661
Location:385 → 441

CD2_tandem_CHD1-2_like; repeat 2 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 1 and 2, and similar proteins

cd18666
Location:268 → 352

CD1_tandem_CHD1-2_like; repeat 1 of the paired tandem chromodomains of chromodomain helicase DNA-binding protein 1 and 2, and similar proteins