Controller protein of restriction-modification system Kpn2I affects transcription of its gene by acting as a transcription elongation roadblock

Evgeny Klimuk, Ekaterina Bogdanova, Max Nagornykh, Andjela Rodic, Marko Djordjevic, Sofia Medvedeva, Olga Pavlova, Konstantin Severinov

    Research output: Contribution to journalArticlepeer-review

    7 Citations (Scopus)

    Abstract

    C-proteins control restriction-modification (R-M) systems' genes transcription to ensure sufficient levels of restriction endonuclease to allow protection from foreign DNA while avoiding itsmodification by excess methyltransferase. Here, we characterize transcription regulation in C-protein dependent R-M system Kpn2I. The Kpn2I restriction endonuclease gene is transcribed from a constitutive, weak promoter, which, atypically, is C-protein independent. Kpn2I C-protein (C.Kpn2I) binds upstream of the strong methyltransferase gene promoter and inhibits it, likely by preventing the interaction of the RNA polymerase sigma subunit with the-35 consensus element. Diminished transcription from the methyltransferase promoter increases transcription from overlapping divergent C-protein gene promoters. All known C-proteins affect transcription initiation from R-M genes promoters. Uniquely, the C.Kpn2I binding site is located within the coding region of its gene. C.Kpn2I acts as a roadblock stalling elongating RNA polymerase and decreasing production of full-length C.Kpn2I mRNA. Mathematical modeling shows that this unusual mode of regulation leads to the same dynamics of accumulation of R-M gene transcripts as observed in systems where C-proteins act at transcription initiation stage only. Bioinformatics analyses suggest that transcription regulation through binding of C.Kpn2I-like proteins within the coding regions of their genes may be widespread.

    Original languageEnglish
    Pages (from-to)10810-10826
    Number of pages17
    JournalNucleic Acids Research
    Volume46
    Issue number20
    DOIs
    Publication statusPublished - 2018

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