Sequence dependence of Pd(II)-mediated base pairing by palladacyclic nucleobase surrogates.

Journal of Inorganic Biochemistry
Madhuri HandeTuomas Lönnberg

Abstract

A C-nucleoside derivative of phenylpyridine or the respective palladacycle was incorporated at either 3'- or 5'-terminus of a short oligodeoxynucleotide. Hybridization properties of these modified oligonucleotides were studied in a fluorescence-based competition assay in addition to conventional UV melting temperature analysis and compared with those of a previously prepared analogue featuring the modified nucleoside in the middle of the sequence. With the unpalladated phenylpyridine oligonucleotides, UV melting temperature qualitatively correlated with the ability to displace a strand from a double helix in the competition assay, decreasing in the order 5' > 3' > middle. Corresponding results on the palladacyclic oligonucleotides were more difficult to interpret but both UV melting and competition experiments revealed a decrease in the duplex stability upon palladation in most cases. On the other hand, dependence of the UV melting temperature on the identity of the canonical nucleobase opposite to the modified nucleobase analogue was much more pronounced with the palladacyclic duplexes than with their unpalladated counterparts. Furthermore, UV melting profiles of the palladacyclic duplexes featured an additional transition at ...Continue Reading

References

Mar 29, 2012·Accounts of Chemical Research·Yusuke Takezawa, Mitsuhiko Shionoya
Apr 27, 2016·Chemistry : a European Journal·Dattatraya UkaleTuomas Lönnberg
Jul 30, 2016·Accounts of Chemical Research·Bernhard Lippert, Pablo J Sanz Miguel
Aug 24, 2017·Chemistry : a European Journal·Biswarup Jash, Jens Müller
Dec 12, 2017·Chemistry : a European Journal·Sajal Kumar Maity, Tuomas Lönnberg
May 31, 2018·International Journal of Molecular Sciences·Madhuri HandeTuomas Lönnberg
Oct 26, 2018·Angewandte Chemie·Dattatraya Uttam Ukale, Tuomas Lönnberg
Mar 29, 2019·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Madhuri HandeTuomas Lönnberg
Jul 2, 2019·Angewandte Chemie·Shuvankar NaskarJens Müller
Apr 2, 2020·Chembiochem : a European Journal of Chemical Biology·Sajal MaityTuomas Lönnberg
Jan 8, 2021·Chembiochem : a European Journal of Chemical Biology·Dattatraya Ukale, Tuomas Lönnberg
Feb 10, 2021·Angewandte Chemie·Antonio Pérez-RomeroMiguel A Galindo

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