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    topbp1 DNA topoisomerase II binding protein 1 [ Danio rerio (zebrafish) ]

    Gene ID: 407679, updated on 9-Dec-2024

    Summary

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    Official Symbol
    topbp1provided by ZNC
    Official Full Name
    DNA topoisomerase II binding protein 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060626-1
    See related
    Ensembl:ENSDARG00000059322 AllianceGenome:ZFIN:ZDB-GENE-060626-1
    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
    Summary
    Acts upstream of or within DNA damage response; definitive hemopoiesis; and regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator. Located in nucleus. Is expressed in caudal fin and head. Orthologous to human TOPBP1 (DNA topoisomerase II 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 topbp1 in Genome Data Viewer
    Location:
    chromosome: 24
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 24 NC_007135.7 (9693997..9735131)
    105 previous assembly GRCz10 (GCF_000002035.5) 24 NC_007135.6 (9553617..9594740)

    Chromosome 24 - NC_007135.7Genomic Context describing neighboring genes Neighboring gene nephronophthisis 3 Neighboring gene ubiquitin-like modifier activating enzyme 5 Neighboring gene transmembrane protein 108 Neighboring gene carnitine deficiency-associated gene expressed in ventricle 3

    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. Mammalian eIF4E2-GSK3β maintains basal phosphorylation of p53 to resist senescence under hypoxia. Sun L, et al. Cell Death Dis, 2022 May 14. PMID 35568694, Free PMC Article
    2. TopBP1 Governs Hematopoietic Stem/Progenitor Cells Survival in Zebrafish Definitive Hematopoiesis. Gao L, et al. PLoS Genet, 2015 Jul. PMID 26131719, Free PMC Article
    3. Large-scale generation and phenotypic characterization of zebrafish CRISPR mutants of DNA repair genes. Shin U, et al. DNA Repair (Amst), 2021 Nov. PMID 34390914
    4. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, 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 (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in DNA replication initiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within definitive hemopoiesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mitotic DNA replication checkpoint signaling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mitotic G2 DNA damage checkpoint signaling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA topoisomerase 2-binding protein 1
    Names
    topoisomerase (DNA) II binding protein 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_001199738.1 → NP_001186667.1  DNA topoisomerase 2-binding protein 1

      Status: VALIDATED

      Source sequence(s)
      BX649325
      UniProtKB/TrEMBL
      A0A2R8RVN3, A0A8M1NXE6
      Related
      ENSDARP00000153880.1, ENSDART00000187411.1
      Conserved Domains (4) summary
      smart00292
      Location:1418 → 1479
      BRCT; breast cancer carboxy-terminal domain
      cd00027
      Location:109 → 178
      BRCT; Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo ...
      pfam00533
      Location:359 → 435
      BRCT; BRCA1 C Terminus (BRCT) domain
      pfam12738
      Location:203 → 266
      PTCB-BRCT; twin BRCT domain

    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_007135.7 Reference GRCz11 Primary Assembly

      Range
      9693997..9735131
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005162567.4 → XP_005162624.1  DNA topoisomerase 2-binding protein 1 isoform X1

      See identical proteins and their annotated locations for XP_005162624.1

      UniProtKB/TrEMBL
      A0A8M2B9G2, F1QTB3, F1R135
      Related
      ENSDARP00000076846.5, ENSDART00000082411.7
      Conserved Domains (4) summary
      smart00292
      Location:1412 → 1473
      BRCT; breast cancer carboxy-terminal domain
      cd00027
      Location:109 → 178
      BRCT; Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo ...
      pfam00533
      Location:359 → 435
      BRCT; BRCA1 C Terminus (BRCT) domain
      pfam12738
      Location:203 → 266
      PTCB-BRCT; twin BRCT domain

    2. XM_017353819.3 → XP_017209308.1  DNA topoisomerase 2-binding protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8M6YVL2

    3. XM_009297292.4 → XP_009295567.1  DNA topoisomerase 2-binding protein 1 isoform X1

      See identical proteins and their annotated locations for XP_009295567.1

      UniProtKB/TrEMBL
      A0A8M2B9G2, F1QTB3, F1R135
      Related
      ENSDARP00000116677.1, ENSDART00000140200.2
      Conserved Domains (4) summary
      smart00292
      Location:1412 → 1473
      BRCT; breast cancer carboxy-terminal domain
      cd00027
      Location:109 → 178
      BRCT; Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo ...
      pfam00533
      Location:359 → 435
      BRCT; BRCA1 C Terminus (BRCT) domain
      pfam12738
      Location:203 → 266
      PTCB-BRCT; twin BRCT domain
    Nucleotide Protein
    Heading Accession and Version

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