Chd1 Chromodomain-helicase-DNA-binding protein 1 [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Chd1provided by FlyBase
Official Full Name: Chromodomain-helicase-DNA-binding protein 1provided by FlyBase
Primary source: FLYBASE:FBgn0250786
Locus tag: Dmel_CG3733
See related: AllianceGenome:FB:FBgn0250786
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: 2; CG3733; CHD-1; chd1; CHD1; dChd1; dCHD1; DmCHD1; Dmel\CG3733; l(2)23Cd
Summary: Enables chromatin binding activity. Involved in imaginal disc-derived wing morphogenesis; oogenesis; and sperm DNA decondensation. Located in polytene chromosome interband and polytene chromosome puff. Is expressed in spermatozoon. Used to study autism spectrum disorder. Human ortholog(s) of this gene implicated in castration-resistant prostate carcinoma; developmental and epileptic encephalopathy 94; and prostate cancer. Orthologous to several human genes including CHD1 (chromodomain helicase DNA binding protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: 23C4-23C4; 2-8 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	2L	NT_033779.5 (2979562..2987723, complement)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	2L	NT_033779.4 (2979562..2987723, complement)

Chromosome 2L - NT_033779.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

CHD1 controls H3.3 incorporation in adult brain chromatin to maintain metabolic homeostasis and normal lifespan.
Title: CHD1 controls H3.3 incorporation in adult brain chromatin to maintain metabolic homeostasis and normal lifespan.
An effect of Chd1 null mutation can be increased by deficiency of one of the genes, encoding variant histone H3.3, His 3.3 B, suggesting that the role of CHD1 in the control of male X chromosome organization can be mediated by CHD1 activity in H3.3 histone deposition and exchange.
Title: THE INFLUENCE OF THE Chd1 CHROMATIN ASSEMBLY AND REMODELING FACTOR MUTATIONS ON DROSOPHILA POLYTHENE CHROMOSOME ORGANIZATION.
The Drosophila melanogaster CHD1 chromatin remodeling factor modulates global chromosome structure and counteracts HP1a and H3K9me2.
Title: The Drosophila melanogaster CHD1 chromatin remodeling factor modulates global chromosome structure and counteracts HP1a and H3K9me2.
Intestinal resistance against infection by P. aeruginosa is linked to maintaining proper balance of gut-microbe interactions and the chromatin remodeler CHD1 is involved in regulating this aspect.
Title: CHD1 contributes to intestinal resistance against infection by P. aeruginosa in Drosophila melanogaster.
our results emphasize a role for Chd1 in histone replacement in both budding yeast and Drosophila melanogaster, and surprisingly they show that the major effects of Chd1 on turnover occur at the 3' ends of genes.
Title: A key role for Chd1 in histone H3 dynamics at the 3' ends of long genes in yeast.
These results clarify the roles of chromatin remodelers in transcription and provide novel insights into CHD1 function.
Title: Investigations of CHD1 function in transcription and development of Drosophila melanogaster.
findings establish CHD1 as a major factor in replacement histone metabolism in the nucleus and reveal a critical role for CHD1 in the earliest developmental instances of genome-scale, replication-independent nucleosome assembly.
Title: CHD1 motor protein is required for deposition of histone variant H3.3 into chromatin in vivo.
results suggest a role for CHD1 in the assembly of active chromatin and a function of ACF in the assembly of repressive chromatin
Title: Distinct activities of CHD1 and ACF in ATP-dependent chromatin assembly.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

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-dependent chromatin remodeler activity	IBA Inferred from Biological aspect of Ancestor more info
enables ATP-dependent chromatin remodeler activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent chromatin remodeler activity	ISS Inferred from Sequence or Structural Similarity more info
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in imaginal disc-derived wing morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nucleosome organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in oogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sperm DNA decondensation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in chromatin	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in polytene chromosome interband	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome puff	IDA Inferred from Direct Assay more info	PubMed

General protein information

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

Names: CG3733-PA; CG3733-PB; CG3733-PC; Chd1-PA; Chd1-PB; Chd1-PC; Chromodomain-helicase-DNA-binding protein; chromo-ATPase/helicase-DNA-binding domain; chromo-ATPase/helicase-DNA-binding protein 1; lethal (2) 23Cd

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NT_033779.5 Reference assembly

Range

2979562..2987723 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001273046.1 → NP_001259975.1 Chromodomain-helicase-DNA-binding protein 1, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001259975.1

Status: REVIEWED

UniProtKB/TrEMBL

M9PEB2, Q6NP59

Conserved Domains (7) summary

cd00024
Location:357 → 405

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:547 → 692

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:531 → 812

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:835 → 950

Helicase_C; Helicase conserved C-terminal domain

pfam00385
Location:441 → 492

Chromo; Chromo (CHRromatin Organization MOdifier) domain

pfam12868
Location:1805 → 1875

DUF3824; Domain of unknwon function (DUF3824)

pfam13907
Location:1504 → 1593

DUF4208; Domain of unknown function (DUF4208)
NM_057849.5 → NP_477197.1 Chromodomain-helicase-DNA-binding protein 1, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_477197.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q24376, Q7KU24, Q9VQJ9

UniProtKB/TrEMBL

Q6NP59

Related

FBpp0077358

Conserved Domains (7) summary

cd00024
Location:357 → 405

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:547 → 692

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:531 → 812

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:835 → 950

Helicase_C; Helicase conserved C-terminal domain

pfam00385
Location:441 → 492

Chromo; Chromo (CHRromatin Organization MOdifier) domain

pfam12868
Location:1778 → 1877

DUF3824; Domain of unknwon function (DUF3824)

pfam13907
Location:1504 → 1593

DUF4208; Domain of unknown function (DUF4208)
NM_001258922.1 → NP_001245851.1 Chromodomain-helicase-DNA-binding protein 1, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001245851.1

Status: REVIEWED

UniProtKB/TrEMBL

M9ND16, Q6NP59

Conserved Domains (7) summary

cd00024
Location:374 → 422

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:564 → 709

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:548 → 829

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:852 → 967

Helicase_C; Helicase conserved C-terminal domain

pfam00385
Location:458 → 509

Chromo; Chromo (CHRromatin Organization MOdifier) domain

pfam12868
Location:1795 → 1894

DUF3824; Domain of unknwon function (DUF3824)

pfam13907
Location:1521 → 1610

DUF4208; Domain of unknown function (DUF4208)