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    Nucleotide excision repair

    Nucleotide excision repair (NER) is a mechanism to recognize and repair bulky DNA damage caused by compounds, environmental carcinogens, and exposure to UV-light. In humans hereditary defects in the NER pathway are linked to at least three diseases: xeroderma pigmentosum (XP), Cockayne syndrome (CS), and trichothiodystrophy (TTD). The repair of damaged DNA involves at least 30 polypeptides within two different sub-pathways of NER known as transcription-coupled repair (TCR-NER) and global genome repair (GGR-NER). TCR refers to the expedited repair of lesions located in the actively transcribed strand of genes by RNA polymerase II (RNAP II). In GGR-NER the first step of damage recognition involves XPC-hHR23B complex together with XPE complex (in prokaryotes, uvrAB complex). The following steps of GGR-NER and TCR-NER are similar.

    Type
    :
    pathway
    Taxonomic scope
    :
    organism-specific biosystem
    Organism
    :
    Thiomicrospira crunogena XCL-2
    BSID:
    28810
    KEGG
    : tcx03420



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    Proteins PubMed

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      • Sequences
        • Gene (all)
          Genes contained in the BioSystem
        • Proteins
          Proteins involved in biosystems. The association between the proteins and biosystems was made using the method described in the data processing section of the BioSystems help document.
        • Protein Clusters
          Protein Clusters database records that are linked to the proteins involved in the biosystem. The association between the proteins and biosystems was made using the method described in the data processing section of the BioSystems help document. The Protein Clusters database contains both curated and uncurated clusters of proteins (from four major groups: prokaryotes, bacteriophages and the mitochondrial and chloroplast organelles) that are grouped by sequence similarity.
        • Conserved Domains
          Conserved domains that are specific hits to the proteins involved in biosystems, representing high confidence functional annotations. The association between the proteins and biosystems was made using the method described in the data processing section of the BioSystems help document.
      • Literature
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          PubMed articles describing biosystems. These are PubMed records whose PMIDs were explicitly cited in the source database biosystem record.
      • Related BioSystems
        • Conserved BioSystems
          The conserved biosystem, if one is available, that corresponds to an organism specific biosystem. Conserved biosystems are canonical biosystems that are used to group together orthologous, organism specific biosystems.
        • Similar BioSystems
          Biosystems share at least one identical protein sequence from the same source organism. In other words, the shared protein is in the same protein identity group ("PIG," a group of proteins that are identical in sequence) and has the same Taxonomy ID.
        • Linked BioSystems
          Biosystems that the source database has explicitly stated are connected in some way.
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        • Taxonomy
          The source organisms of the biosytems, whose Taxonomy IDs were provided in the biosystem records deposited by the source database. For additional information, see the data processing/taxonomy section of the BioSystems help document.

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