Ligand binding to nucleic acids and proteins: Does selectivity increase with strength?

European Journal of Medicinal Chemistry
2008.0

Abstract

The possible relation of strength and selectivity of ligand binding to biomacromolecules and its theoretical limitation is discussed and illustrated with some examples. It is shown that a linear correlation between selectivity and affinity may be expected on the basis of thermodynamic principles, which also imply that multivalency is as important for selectivity as for affinity enhancement. That strictly linear correlations are often not observed is, apart form statistical problems, mostly due to interactions which may remain constant only at some sites but can differ significantly at other sites, which, e.g., dominate the affinity. Nevertheless, some drugs exhibit in line with theory at the same time a peak affinity and selectivity, such as etonitazene with different opioid receptors. Double-stranded nucleic acids feature relative stable and uniform structures and therefore show relatively good correlations with simple polyamines as ligands and RNA or DNA model receptors. Metalloproteins possess strong binding centers with additional discrimination sites, and can exhibit linear correlations, at least with structurally related metalloproteinases and their inhibitors.

Knowledge Graph

Similar Paper

Ligand binding to nucleic acids and proteins: Does selectivity increase with strength?
European Journal of Medicinal Chemistry 2008.0
Enthalpic Forces Correlate with the Selectivity of Transthyretin-Stabilizing Ligands in Human Plasma
Journal of Medicinal Chemistry 2015.0
Effect of methyl substitution in a ligand on the selectivity and binding affinity for a nucleobase: A case study with isoxanthopterin and its derivatives
Bioorganic & Medicinal Chemistry 2009.0
Protein–ligand (un)binding kinetics as a new paradigm for drug discovery at the crossroad between experiments and modelling
MedChemComm 2017.0
DNA Binding, Solubility, and Partitioning Characteristics of Extended Lexitropsins
Journal of Medicinal Chemistry 2000.0
Linker dependent intercalation of bisbenzimidazole-aminosugars in an RNA duplex; selectivity in RNA vs . DNA binding
Bioorganic & Medicinal Chemistry Letters 2016.0
Rational Approaches to Improving Selectivity in Drug Design
Journal of Medicinal Chemistry 2012.0
Structure, DNA minor groove binding, and base pair specificity of alkyl- and aryl-linked bis(amidinobenzimidazoles) and bis(amidinoindoles)
Journal of Medicinal Chemistry 1993.0
Identification of Specific Small Molecule Ligands for Stem Loop 3 Ribonucleic Acid of the Packaging Signal Ψ of Human Immunodeficiency Virus-1
Journal of Medicinal Chemistry 2009.0
Uncoupling the Structure–Activity Relationships of β2 Adrenergic Receptor Ligands from Membrane Binding
Journal of Medicinal Chemistry 2016.0