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    ercc3 excision repair cross-complementation group 3 [ Danio rerio (zebrafish) ]

    Gene ID: 324323, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ercc3provided by ZNC
    Official Full Name
    excision repair cross-complementation group 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-3043
    See related
    Ensembl:ENSDARG00000002402 AllianceGenome:ZFIN:ZDB-GENE-030131-3043
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fc25f08
    Summary
    Predicted to enable 3'-5' DNA helicase activity. Predicted to be involved in DNA metabolic process; apoptotic process; and transcription initiation at RNA polymerase II promoter. Predicted to act upstream of or within nucleotide-excision repair. Predicted to be located in nucleus. Predicted to be part of nucleotide-excision repair factor 3 complex; transcription factor TFIIH holo complex; and transcription preinitiation complex. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma; photosensitive trichothiodystrophy 2; trichothiodystrophy; xeroderma pigmentosum; and xeroderma pigmentosum group B. Orthologous to human ERCC3 (ERCC excision repair 3, TFIIH core complex helicase subunit). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ercc3 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (9595417..9630081, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (9359878..9394542, complement)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene mitogen-activated protein kinase kinase kinase 2 Neighboring gene cytochrome P450, family 27, subfamily C, polypeptide 1 Neighboring gene WD repeat domain 12 Neighboring gene transcription factor 23

    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. Evolutionary conservation of TFIIH subunits: implications for the use of zebrafish as a model to study TFIIH function and regulation. Silva IA, et al. Comp Biochem Physiol B Biochem Mol Biol, 2014 Jun-Jul. PMID 24731924
    2. Selection of reliable biomarkers from PCR array analyses using relative distance computational model: methodology and proof-of-concept study. Liu C, et al. PLoS One, 2013. PMID 24349563, Free PMC Article
    3. Zebrafish reward mutants reveal novel transcripts mediating the behavioral effects of amphetamine. Webb KJ, et al. Genome Biol, 2009. PMID 19646228, Free PMC Article
    4. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
    5. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables 3'-5' DNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 3'-5' DNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 3'-5' DNA helicase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA helicase 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 isomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA topological change ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in apoptotic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within nucleotide-excision repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in transcription initiation at RNA polymerase II promoter IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within transcription initiation at RNA polymerase II promoter IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in transcription-coupled nucleotide-excision repair ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of nucleotide-excision repair factor 3 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription factor TFIIH holo complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription factor TFIIH holo complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of transcription preinitiation complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    general transcription and DNA repair factor IIH helicase/translocase subunit XPB
    Names
    DNA 3'-5' helicase/translocase XPB
    DNA excision repair protein ERCC-3
    TFIIH basal transcription factor complex helicase XPB subunit
    TFIIH subunit XPB
    excision repair cross-complementing rodent repair deficiency, complementation group 3
    general transcription and DNA repair factor IIH helicase subunit XPB
    xpb
    NP_963876.1

    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_201582.1 → NP_963876.1  general transcription and DNA repair factor IIH helicase/translocase subunit XPB

      See identical proteins and their annotated locations for NP_963876.1

      Status: PROVISIONAL

      Source sequence(s)
      BC045400
      UniProtKB/Swiss-Prot
      Q7ZVV1
      UniProtKB/TrEMBL
      B2GSW0
      Related
      ENSDARP00000010637.7, ENSDART00000013066.8
      Conserved Domains (4) summary
      TIGR00603
      Location:58 → 779
      rad25; DNA repair helicase rad25
      pfam04851
      Location:314 → 471
      ResIII; Type III restriction enzyme, res subunit
      pfam13625
      Location:74 → 196
      Helicase_C_3; Helicase conserved C-terminal domain
      pfam16203
      Location:495 → 733
      ERCC3_RAD25_C; ERCC3/RAD25/XPB C-terminal helicase

    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_007117.7 Reference GRCz11 Primary Assembly

      Range
      9595417..9630081 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7ZVV1.1 GenPept UniProtKB/Swiss-Prot:Q7ZVV1

    Gene LinkOut

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