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Issue 12, 2017
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Influence of pH and Mg(II) on the catalytic core domain 5 of a bacterial group II intron

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Abstract

RNA molecules fold into complex structures that allow them to perform specific functions. To compensate the relative lack of diversity of functional groups within nucleotides, metal ions work as crucial co-factors. In addition, shifted pKas are observed in RNA, enabling acid–base reactions at ambient pH. The central catalytic domain 5 (D5) hairpin of the Azotobacter vinelandii group II intron undergoes both metal ion binding and pH dependence, presumably playing an important functional role in the ribozyme's reaction. By NMR spectroscopy we have here characterized the metal ion binding sites and affinities for the hairpin's internal G-A mismatch, bulge, and pentaloop. The influence of Mg(II) and pH on the local conformation of the catalytically crucial region is also explored by fluorescence spectroscopy.

Graphical abstract: Influence of pH and Mg(ii) on the catalytic core domain 5 of a bacterial group II intron

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Publication details

The article was received on 19 Dec 2016, accepted on 25 Feb 2017, published on 27 Feb 2017 and first published online on 27 Feb 2017


Article type: Paper
DOI: 10.1039/C6DT04784J
Citation: Dalton Trans., 2017,46, 3989-3995
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    Influence of pH and Mg(II) on the catalytic core domain 5 of a bacterial group II intron

    M. Pechlaner, A. Dominguez-Martin and R. K. O. Sigel, Dalton Trans., 2017, 46, 3989
    DOI: 10.1039/C6DT04784J

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