Interaction of pyrrolobenzodiazepine (PBD) ligands with parallel intermolecular G-quadruplex complex using spectroscopy and ESI-MS.

PloS One
Gajjela RajuNarayana Nagesh

Abstract

Studies on ligand interaction with quadruplex DNA, and their role in stabilizing the complex at concentration prevailing under physiological condition, has attained high interest. Electrospray ionization mass spectrometry (ESI-MS) and spectroscopic studies in solution were used to evaluate the interaction of PBD and TMPyP4 ligands, stoichiometry and selectivity to G-quadruplex DNA. Two synthetic ligands from PBD family, namely pyrene-linked pyrrolo[2,1-c][1,4]benzodiazepine hybrid (PBD1), mixed imine-amide pyrrolobenzodiazepine dimer (PBD2) and 5,10,15,20-tetrakis(N-methyl-4-pyridyl)porphyrin (TMPyP4) were studied. G-rich single-stranded oligonucleotide d(5'GGGGTTGGGG3') designated as d(T(2)G(8)), from the telomeric region of Tetrahymena Glaucoma, was considered for the interaction with ligands. ESI-MS and spectroscopic methods viz., circular dichroism (CD), UV-Visible, and fluorescence were employed to investigate the G-quadruplex structures formed by d(T(2)G(8)) sequence and its interaction with PBD and TMPyP4 ligands. From ESI-MS spectra, it is evident that the majority of quadruplexes exist as d(T(2)G(8))(2) and d(T(2)G(8))(4) forms possessing two to ten cations in the centre, thereby stabilizing the complex. CD band of PBD...Continue Reading

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Citations

May 16, 2014·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Gajendra GuptaBruno Therrien
Aug 19, 2014·PloS One·Khondaker M RahmanDavid E Thurston
Dec 7, 2019·Journal of Biomolecular Structure & Dynamics·Anju SinghShrikant Kukreti
Oct 1, 2021·Chemical Reviews·Eric LargyValérie Gabelica

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Methods Mentioned

BETA
NMR
circular dichroism
PCR
Circular
fluorescence titrations

Software Mentioned

Xcalibur
Mathamatica

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