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    ZRANB3 zinc finger RANBP2-type containing 3 [ Homo sapiens (human) ]

    Gene ID: 84083, updated on 5-May-2024

    Summary

    Official Symbol
    ZRANB3provided by HGNC
    Official Full Name
    zinc finger RANBP2-type containing 3provided by HGNC
    Primary source
    HGNC:HGNC:25249
    See related
    Ensembl:ENSG00000121988 MIM:615655; AllianceGenome:HGNC:25249
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    AH2; 4933425L19Rik
    Summary
    Enables ATP-dependent DNA/DNA annealing activity; K63-linked polyubiquitin modification-dependent protein binding activity; and endodeoxyribonuclease activity. Involved in several processes, including DNA metabolic process; DNA rewinding; and negative regulation of DNA recombination. Located in nuclear replication fork and nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in testis (RPKM 1.8), thyroid (RPKM 0.8) and 24 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    Location:
    2q21.3
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (135196969..135531218, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (135637447..135971741, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (135954539..136288788, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U13 Neighboring gene RAB3 GTPase activating protein catalytic subunit 1 Neighboring gene HNF4 motif-containing MPRA enhancer 203 Neighboring gene small nucleolar RNA, H/ACA box 40B Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:135970274-135970798 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:135980911-135981075 Neighboring gene uncharacterized LOC124906077 Neighboring gene MPRA-validated peak3875 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16571 Neighboring gene Sharpr-MPRA regulatory region 5980 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16572 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11981 Neighboring gene G3BP1 pseudogene 1 Neighboring gene R3H domain containing 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16573 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16574 Neighboring gene uncharacterized LOC124907893 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16575 Neighboring gene RNA, U6 small nuclear 512, pseudogene Neighboring gene microRNA 128-1

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC75012, MGC105033

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent DNA/DNA annealing activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ATP-dependent chromatin remodeler activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables DNA endonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT enables DNA helicase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables K63-linked polyubiquitin modification-dependent protein binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in DNA damage response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in DNA repair IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in DNA repair IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in DNA rewinding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of DNA recombination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in replication fork processing IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in replication fork processing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in replication fork reversal IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in response to UV IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in nuclear replication fork IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nuclear replication fork IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    DNA annealing helicase and endonuclease ZRANB3
    Names
    annealing helicase 2
    zinc finger Ran-binding domain-containing protein 3
    zinc finger, RAN-binding domain containing 3

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001286568.2NP_001273497.1  DNA annealing helicase and endonuclease ZRANB3 isoform 2

      See identical proteins and their annotated locations for NP_001273497.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate splice site in the central coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC017031, AI670931, BX647838
      Consensus CDS
      CCDS67963.1
      UniProtKB/Swiss-Prot
      Q5FWF4
      Related
      ENSP00000383979.1, ENST00000401392.5
      Conserved Domains (6) summary
      cd00046
      Location:55190
      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.
      cd00085
      Location:10091047
      HNHc; HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and ...
      sd00029
      Location:625644
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00176
      Location:40316
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:330435
      Helicase_C; Helicase conserved C-terminal domain
      pfam00641
      Location:625647
      zf-RanBP; Zn-finger in Ran binding protein and others
    2. NM_001286569.1NP_001273498.1  DNA annealing helicase and endonuclease ZRANB3 isoform 3

      See identical proteins and their annotated locations for NP_001273498.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR which results in the use of a downstream start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AC016742, AC017031, AC064850, AI670931, AL833322
      Consensus CDS
      CCDS74580.1
      UniProtKB/TrEMBL
      F5GYN7
      Related
      ENSP00000441320.2, ENST00000536680.5
      Conserved Domains (3) summary
      cd00085
      Location:557595
      HNHc; HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and ...
      sd00029
      Location:171190
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:171193
      zf-RanBP; Zn-finger in Ran binding protein and others
    3. NM_032143.4NP_115519.2  DNA annealing helicase and endonuclease ZRANB3 isoform 1

      See identical proteins and their annotated locations for NP_115519.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform 1.
      Source sequence(s)
      AC017031, AI670931, BC089429
      Consensus CDS
      CCDS46419.1
      UniProtKB/Swiss-Prot
      B3KYA1, B4E375, B5MDI3, D3DP76, E9PBP0, Q53SM1, Q5FWF4, Q6P2C4, Q8N1P4, Q9H0E8
      Related
      ENSP00000264159.6, ENST00000264159.11
      Conserved Domains (6) summary
      cd00046
      Location:55190
      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.
      cd00085
      Location:10111049
      HNHc; HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and ...
      sd00029
      Location:625644
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00176
      Location:40316
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:330435
      Helicase_C; Helicase conserved C-terminal domain
      pfam00641
      Location:625647
      zf-RanBP; Zn-finger in Ran binding protein and others

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      135196969..135531218 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      135637447..135971741 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)