1. Identification of a critical binding site for local anaesthetics in the side pockets of K v 1 channels
- Author
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Carmen Valenzuela, Aytug K. Kiper, Alicia de la Cruz, Wendy González, Susanne Rinné, Mauricio Bedoya, David Ramírez, Teresa González, Stefanie Marzian, Niels Decher, Bárbara A Arévalo Ramos, Sarah Stalke, Alba Vera-Zambrano, José C E Márquez Montesinos, Diego A. Peraza, Ministerio de Ciencia e Innovación (España), Ministerio de Ciencia, Innovación y Universidades (España), Agencia Estatal de Investigación (España), European Commission, Instituto de Salud Carlos III, Consejo Superior de Investigaciones Científicas (España), Fondo Nacional de Desarrollo Científico y Tecnológico (Chile), German Research Foundation, and Agencia Nacional de Investigación y Desarrollo (Chile)
- Subjects
0301 basic medicine ,Pharmacology ,Alanine ,Chemistry ,Mutagenesis ,Stereoselectivity ,Side pockets ,Bupivacaine ,Potassium channel ,In silico docking ,Kv channel ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,Drug Binding Site ,Biophysics ,Ropivacaine ,Kv1 channels ,Binding site ,Local anaesthetics ,030217 neurology & neurosurgery - Abstract
© 2021 The Authors., [Background and Purpose]: Local anaesthetics block sodium and a variety of potassium channels. Although previous studies identified a residue in the pore signature sequence together with three residues in the S6 segment as a putative binding site, the precise molecular basis of inhibition of Kv channels by local anaesthetics remained unknown. Crystal structures of Kv channels predict that some of these residues point away from the central cavity and face into a drug binding site called side pockets. Thus, the question arises whether the binding site of local anaesthetics is exclusively located in the central cavity or also involves the side pockets. [Experimental Approach]: A systematic functional alanine mutagenesis approach, scanning 58 mutants, together with in silico docking experiments and molecular dynamics simulations was utilized to elucidate the binding site of bupivacaine and ropivacaine. [Key Results]: Inhibition of Kv1.5 channels by local anaesthetics requires binding to the central cavity and the side pockets, and the latter requires interactions with residues of the S5 and the back of the S6 segments. Mutations in the side pockets remove stereoselectivity of inhibition of Kv1.5 channels by bupivacaine. Although binding to the side pockets is conserved for different local anaesthetics, the binding mode in the central cavity and the side pockets shows considerable variations. [Conclusion and Implications]: Local anaesthetics bind to the central cavity and the side pockets, which provide a crucial key to the molecular understanding of their Kv channel affinity and stereoselectivity, as well as their spectrum of side effects., The study was supported by the Ministerio de Ciencia e Innovación (MICINN, Spain) Grants SAF2016-75021-R and PID2019-104366RB-C21 (to C.V. and T.G.); the European Regional Development Fund (Fondo Europeo de Desarrollo Regional [FEDER]) and the Instituto de Salud Carlos III CIBERCV programme CB/11/00222 (to C.V. and T.G.); the Consejo Superior de Investigaciones Científicas (CSIC) Grants PIE201820E104 and 2019AEP148 (to C.V.); the Fondo Nacional de Desarrollo Científico y Tecnológico (FONDECYT) 1191133 and the Fondo de Equipamiento Científico y Tecnológico (FONDEQUIP) 160063 grants from ANID (to W.G.); and the Deutsche Forschungsgemeinschaft (DFG) Grant DE1482-4/1 to N.D.
- Published
- 2021
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