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      Binding kinetics of ligands acting at GPCRs

      review-article
      a , b , a , b , a , b ,   a , b ,
      Molecular and Cellular Endocrinology
      North Holland Publishing
      GPCR, Binding kinetics, Association, Dissociation, 5HT2B, serotonin receptor 2B, β2AR, β2 adrenoceptor, BRET, bioluminescence resonance energy transfer, GPCR, G protein-coupled receptor, HAC, heavy atom count, Kd, equilibrium dissociation constant, kf, forward rate coefficient, koff, dissociation rate constant, kon, association rate constant, kon(obs), observed rate of drug association, kr, reverse rate coefficient, PD, pharmacodynamics, RET, resonance energy transfer, SKR, structure kinetic relationship, TR-FRET, time resolved fluorescence resonance energy transfer

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          Abstract

          The influence of drug-receptor binding kinetics has often been overlooked during the development of new therapeutics that target G protein-coupled receptors (GPCRs). Over the last decade there has been a growing understanding that an in-depth knowledge of binding kinetics at GPCRs is required to successfully target this class of proteins. Ligand binding to a GPCR is often not a simple single step process with ligand freely diffusing in solution. This review will discuss the experiments and equations that are commonly used to measure binding kinetics and how factors such as allosteric regulation, rebinding and ligand interaction with the plasma membrane may influence these measurements. We will then consider the molecular characteristics of a ligand and if these can be linked to association and dissociation rates.

          Highlights

          • Ligand binding kinetics can be measured using a variety of methods.

          • Kinetics can be influenced by the local environment surrounding the receptor.

          • The molecular determinants of kinetics rates are beginning to be understood.

          • Both k on and k off should be considered during drug discovery.

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          Most cited references90

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          Crystal structure of a lipid G protein-coupled receptor.

          The lyso-phospholipid sphingosine 1-phosphate modulates lymphocyte trafficking, endothelial development and integrity, heart rate, and vascular tone and maturation by activating G protein-coupled sphingosine 1-phosphate receptors. Here, we present the crystal structure of the sphingosine 1-phosphate receptor 1 fused to T4-lysozyme (S1P(1)-T4L) in complex with an antagonist sphingolipid mimic. Extracellular access to the binding pocket is occluded by the amino terminus and extracellular loops of the receptor. Access is gained by ligands entering laterally between helices I and VII within the transmembrane region of the receptor. This structure, along with mutagenesis, agonist structure-activity relationship data, and modeling, provides a detailed view of the molecular recognition and requirement for hydrophobic volume that activates S1P(1), resulting in the modulation of immune and stromal cell responses.
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            Allosteric sodium in class A GPCR signaling.

            Despite their functional and structural diversity, G-protein-coupled receptors (GPCRs) share a common mechanism of signal transduction via conformational changes in the seven-transmembrane (7TM) helical domain. New major insights into this mechanism come from the recent crystallographic discoveries of a partially hydrated sodium ion that is specifically bound in the middle of the 7TM bundle of multiple class A GPCRs. This review discusses the remarkable structural conservation and distinct features of the Na(+) pocket in this most populous GPCR class, as well as the conformational collapse of the pocket upon receptor activation. New insights help to explain allosteric effects of sodium on GPCR agonist binding and activation, and sodium's role as a potential co-factor in class A GPCR function. Copyright © 2014 Elsevier Ltd. All rights reserved.
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              Ligand binding assays at equilibrium: validation and interpretation.

              The focus of this review paper is factors affecting data interpretation in ligand binding assays under equilibrium conditions. Protocols for determining K(d) (the equilibrium dissociation constant) and K(dA) (the equilibrium inhibitor constant) for receptor ligands are discussed. The basic theory describing the interaction of a radiotracer and an unlabelled competitor ligand with a receptor is developed. Inappropriate experimental design may result in ligand depletion and non-attainment of equilibrium, distorting the calculation of K(d) and K(dA) . Strategies, both theoretical and practical, will be given to avoid and correct such errors, thus leading to the determination of reliable values for these constants. In determining K(dA) from competition binding studies, two additional concepts are discussed. First, the necessity to measure an adequate specific binding signal from the bound radiotracer ligand limits the range of affinity constants that can be measured: a particular set of assay conditions may lead to an upper limit on the apparent affinity of unlabelled ligands. Second, an extension of the basic assay methodology can indicate whether the interaction between the tracer and a test ligand is mediated by a competitive or an allosteric mechanism. Finally, the review ends with a discussion of two factors that are often overlooked: buffer composition and the temperature at which the assay is conducted, and the impact these can have on affinity measurements and the understanding of drug interactions. © 2010 The Authors. Journal compilation © 2010 The British Pharmacological Society.
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                Author and article information

                Contributors
                Journal
                Mol Cell Endocrinol
                Mol. Cell. Endocrinol
                Molecular and Cellular Endocrinology
                North Holland Publishing
                0303-7207
                1872-8057
                05 April 2019
                05 April 2019
                : 485
                : 9-19
                Affiliations
                [a ]Cell Signalling and Pharmacology Research Group, Division of Physiology, Pharmacology and Neuroscience, School of Life Sciences, University of Nottingham, Nottingham, UK
                [b ]Centre of Membrane Proteins and Receptors (COMPARE), University of Birmingham and University of Nottingham, Midlands, UK
                Author notes
                []Corresponding author. Centre of Membrane Proteins and Receptors (COMPARE), University of Birmingham and University of Nottingham, Midlands, UK. steve.hill@ 123456nottingham.ac.uk
                Article
                S0303-7207(19)30024-3
                10.1016/j.mce.2019.01.018
                6406023
                30738950
                c31cc961-7748-4dbb-99f5-4d364308e1ec
                © 2019 The Authors

                This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).

                History
                : 15 October 2018
                : 19 January 2019
                : 19 January 2019
                Categories
                Article

                Endocrinology & Diabetes
                gpcr,binding kinetics,association,dissociation,5ht2b, serotonin receptor 2b,β2ar, β2 adrenoceptor,bret, bioluminescence resonance energy transfer,gpcr, g protein-coupled receptor,hac, heavy atom count,kd, equilibrium dissociation constant,kf, forward rate coefficient,koff, dissociation rate constant,kon, association rate constant,kon(obs), observed rate of drug association,kr, reverse rate coefficient,pd, pharmacodynamics,ret, resonance energy transfer,skr, structure kinetic relationship,tr-fret, time resolved fluorescence resonance energy transfer

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