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    DNA topoisomerase, type IA, core [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829248, updated on 18-Sep-2024

    Summary

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    Official Full Name
    DNA topoisomerase, type IA, core
    Primary source
    TAIR:AT4G31210
    Locus tag
    AT4G31210
    See related
    Araport:AT4G31210
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    F8F16.30; F8F16_30
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    Genomic context

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    Location:
    chromosome: 4
    Exon count:
    22
    Sequence:
    Chromosome: 4; NC_003075.7 (15165125..15172807)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene oxidoreductase Neighboring gene SWAP (Suppressor-of-White-APricot)/surp RNA-binding domain-containing protein Neighboring gene kinase with adenine nucleotide alpha hydrolases-like domain-containing protein Neighboring gene protein kinase C-like zinc finger protein Neighboring gene Leucine-rich repeat protein kinase family protein Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Proteome-wide screens for small ubiquitin-like modifier (SUMO) substrates identify Arabidopsis proteins implicated in diverse biological processes. Elrouby N, et al. Proc Natl Acad Sci U S A, 2010 Oct 5. PMID 20855607, Free PMC Article
    2. Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method. Bach-Pages M, et al. Biomolecules, 2020 Apr 24. PMID 32344669, Free PMC Article
    3. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer K, et al. Nature, 1999 Dec 16. PMID 10617198

    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

    NM_001342066.1
    NM_119270.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA topoisomerase type I (single strand cut, ATP-independent) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA topological change IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    DNA topoisomerase, type IA, core
    NP_194849.3
    • DNA topoisomerase, type IA, core; FUNCTIONS IN: DNA topoisomerase activity, DNA topoisomerase type I activity, DNA binding, nucleic acid binding; INVOLVED IN: DNA topological change, DNA unwinding involved in replication, DNA metabolic process; LOCATED IN: chromosome; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: DNA topoisomerase, type IA, zn finger (InterPro:IPR013498), DNA topoisomerase, type IA, core (InterPro:IPR000380), DNA topoisomerase, type IA, DNA-binding (InterPro:IPR003602), DNA topoisomerase, type IA, domain 2 (InterPro:IPR003601), DNA topoisomerase, type IA, central (InterPro:IPR013497), DNA topoisomerase, type IA, central region, subdomain 3 (InterPro:IPR013826), DNA topoisomerase I, bacterial-type (InterPro:IPR005733), Toprim domain, subgroup (InterPro:IPR006154), DNA topoisomerase, type IA, central region, subdomain 1 (InterPro:IPR013824), Toprim domain (InterPro:IPR006171); BEST Arabidopsis thaliana protein match is: topoisomerase 3alpha (TAIR:AT5G63920.1); Has 21441 Blast hits to 18441 proteins in 2923 species: Archae - 440; Bacteria - 10015; Metazoa - 1777; Fungi - 750; Plants - 256; Viruses - 35; Other Eukaryotes - 8168 (source: NCBI BLink).

    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

    1. NC_003075.7 Reference assembly

      Range
      15165125..15172807
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001342065.1 → NP_001328734.1  DNA topoisomerase, type IA, core [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UU95, A0A1P8B5I9

    2. NM_119270.5 → NP_194849.3  DNA topoisomerase, type IA, core [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_194849.3

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654FUT1, F4JRX3
      Conserved Domains (5) summary
      cd03363
      Location:474 → 601
      TOPRIM_TopoIA_TopoI; TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the ...
      PRK07561
      Location:473 → 1282
      PRK07561; DNA topoisomerase I subunit omega; Validated
      cd00186
      Location:607 → 1052
      TOP1Ac; DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA ...
      pfam01396
      Location:1085 → 1119
      zf-C4_Topoisom; Topoisomerase DNA binding C4 zinc finger
      pfam13368
      Location:1148 → 1207
      Toprim_C_rpt; Topoisomerase C-terminal repeat

    3. NM_001342066.1 → NP_001328735.1  DNA topoisomerase, type IA, core [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8B5K1, A0A5S9XY88, A0A7G2F8W5
      Conserved Domains (1) summary
      PRK07561
      Location:469 → 1278
      PRK07561; DNA topoisomerase I subunit omega; Validated
    Nucleotide Protein
    Heading Accession and Version

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