title: Dynamical characterization of inactivation path in voltage-gated Na(+) ion channel by non-equilibrium response spectroscopy.
abstract: Inactivation path of voltage gated sodium channel has been studied here under various voltage protocols as it is the main governing factor for the periodic occurrence and shape of the action potential. These voltage protocols actually serve as non-equilibrium response spectroscopic tools to study the ion channel in non-equilibrium environment. In contrast to a lot of effort in finding the crystal structure based molecular mechanism of closed-state(CSI) and open-state inactivation(OSI); here our approach is to understand the dynamical characterization of inactivation. The kinetic flux as well as energetic contribution of the closed and open- state inactivation path is compared here for voltage protocols, namely constant, pulsed and oscillating. The non-equilibrium thermodynamic quantities used in response to these voltage protocols serve as improved characterization tools for theoretical understanding which not only agrees with the previously known kinetic measurements but also predict the energetically optimum processes to sustain the auto-regulatory mechanism of action potential and the consequent inactivation steps needed. The time dependent voltage pattern governs the population of the conformational states which when couple with characteristic rate parameters, the CSI and OSI selectivity arise dynamically to control the inactivation path. Using constant, pulsed and continuous oscillating voltage protocols we have shown that during depolarization the OSI path is more favored path of inactivation however, in the hyper-polarized situation the CSI is favored. It is also shown that the re-factorisation of inactivated sodium channel to resting state occurs via CSI path. Here we have shown how the subtle energetic and entropic cost due to the change in the depolarization magnitude determines the optimum path of inactivation. It is shown that an efficient CSI and OSI dynamical profile in principle can characterize the open-state drug blocking phenomena.
authors.affiliation: a Chemical Biological and Macromolecular Sciences, S.N. Bose National Center for Basic Sciences , Kolkata , India.
authors.forename: Krishnendu
authors.initials: K
authors.lastname: Pal
authors.affiliation: a Chemical Biological and Macromolecular Sciences, S.N. Bose National Center for Basic Sciences , Kolkata , India.
authors.forename: Gautam
authors.initials: G
authors.lastname: Gangopadhyay
mesh_terms: D003198:Computer Simulation; D006801:Humans; D015640:Ion Channel Gating; D007700:Kinetics; D008564:Membrane Potentials; D008801:Mexiletine / Q000494:pharmacology; D015222:Sodium Channels / Q000187:drug effects* / Q000378:metabolism*; D013057:Spectrum Analysis; D013816:Thermodynamics; D061566:Voltage-Gated Sodium Channels / Q000187:drug effects / Q000378:metabolism*
chemical_list: D015222:Sodium Channels; D061566:Voltage-Gated Sodium Channels; D008801:Mexiletine
keywords: characterization of inactivation; closed-state inactivation; inactivation path; non-equilibrium response spectroscopy; open-state inactivation; total entropy contribution