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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
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