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    chd1 chromodomain helicase DNA binding protein 1 [ Danio rerio (zebrafish) ]

    Gene ID: 563236, updated on 9-Dec-2024

    Summary

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    Official Symbol
    chd1provided by ZNC
    Official Full Name
    chromodomain helicase DNA binding protein 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-7120
    See related
    Ensembl:ENSDARG00000103787 AllianceGenome:ZFIN:ZDB-GENE-030131-7120
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fc26h11; fk85d05; wu:fc26h11; wu:fk85d05; zgc:173506; si:dkey-106m21.4
    Summary
    Predicted to enable several functions, including ATP hydrolysis activity; ATP-dependent chromatin remodeler activity; and histone binding activity. Predicted to be involved in nucleosome organization. Predicted to be located in chromatin. Predicted to be active in nucleus. 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, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See chd1 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (6521376..6588793, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (6520167..6587586, complement)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene decapping mRNA 2 Neighboring gene receptor accessory protein 5 Neighboring gene uncharacterized LOC103911715 Neighboring gene uncharacterized LOC137496556 Neighboring gene uncharacterized LOC137496555

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Eukaryotic initiation factor 4A3 inhibits Wnt/β-catenin signaling and regulates axis formation in zebrafish embryos. Wang B, et al. Development, 2021 May 1. PMID 33914867
    2. Rescue of neural crest-derived phenotypes in a zebrafish CHARGE model by Sox10 downregulation. Asad Z, et al. Hum Mol Genet, 2016 Aug 15. PMID 27418670, Free PMC Article
    3. Multiple thyrotropin β-subunit and thyrotropin receptor-related genes arose during vertebrate evolution. Maugars G, et al. PLoS One, 2014. PMID 25386660, Free PMC Article
    4. Transcriptomic analyses reveal novel genes with sexually dimorphic expression in the zebrafish gonad and brain. Sreenivasan R, et al. PLoS One, 2008 Mar 12. PMID 18335061, Free PMC Article
    5. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC173506

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent chromatin remodeler activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    chromodomain-helicase-DNA-binding protein 1
    NP_001121770.2
    XP_009303375.1
    XP_009303376.1

    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)

    1. NM_001128298.2 → NP_001121770.2  chromodomain-helicase-DNA-binding protein 1

      Status: VALIDATED

      Source sequence(s)
      BX005434, CU302319
      UniProtKB/TrEMBL
      A0A0R4IC05, A0A8N7UZ13
      Related
      ENSDARP00000130398.2, ENSDART00000171833.2
      Conserved Domains (9) summary
      PHA03118
      Location:1546 → 1648
      PHA03118; multifunctional expression regulator; Provisional
      COG0513
      Location:774 → 889
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd00024
      Location:298 → 340
      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:487 → 632
      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.
      cd00079
      Location:770 → 897
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      pfam00176
      Location:471 → 752
      SNF2_N; SNF2 family N-terminal domain
      pfam00385
      Location:379 → 431
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam08648
      Location:1552 → 1647
      DUF1777; Protein of unknown function (DUF1777)
      pfam13907
      Location:1395 → 1486
      DUF4208; Domain of unknown function (DUF4208)

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007121.7 Reference GRCz11 Primary Assembly

      Range
      6521376..6588793 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009305101.4 → XP_009303376.1  chromodomain-helicase-DNA-binding protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A0R4IAE4, A0A8M3B320
      Related
      ENSDARP00000131003.1, ENSDART00000163788.2
      Conserved Domains (9) summary
      PHA03118
      Location:1630 → 1732
      PHA03118; multifunctional expression regulator; Provisional
      COG0513
      Location:774 → 889
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd00024
      Location:298 → 340
      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:487 → 632
      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.
      cd00079
      Location:770 → 897
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      pfam00176
      Location:471 → 752
      SNF2_N; SNF2 family N-terminal domain
      pfam00385
      Location:379 → 431
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam08648
      Location:1636 → 1731
      DUF1777; Protein of unknown function (DUF1777)
      pfam13907
      Location:1479 → 1570
      DUF4208; Domain of unknown function (DUF4208)

    2. XM_009305100.4 → XP_009303375.1  chromodomain-helicase-DNA-binding protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8M3B604
      Conserved Domains (9) summary
      PHA03118
      Location:1631 → 1733
      PHA03118; multifunctional expression regulator; Provisional
      COG0513
      Location:774 → 889
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd00024
      Location:298 → 340
      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:487 → 632
      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.
      cd00079
      Location:770 → 897
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      pfam00176
      Location:471 → 752
      SNF2_N; SNF2 family N-terminal domain
      pfam00385
      Location:379 → 431
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam08648
      Location:1637 → 1732
      DUF1777; Protein of unknown function (DUF1777)
      pfam13907
      Location:1480 → 1571
      DUF4208; Domain of unknown function (DUF4208)
    Nucleotide Protein
    Heading Accession and Version

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