Probing the intermolecular coupled vibrations in a water cluster with inelastic electron tunneling spectroscopy

Energy condensation and dipole alignment in protein dynamics

The possibility that distant biomolecules in a cell interact via electromagnetic (e.m.) radiation was proposed many years ago to explain the high rate of encounters of partners in some enzymatic reactions. The results of two recent experiments designed to test the propensity of protein bovine serum albumin (BSA) to interact via e.m. radiation with other proteins were interpreted in a theoretical framework based on three main assumptions: (i) in order to experience this kind of interaction the protein must be in an out-of-equilibrium state; (ii) in this state there is a condensation of energy in low-frequency vibrational modes; and (iii) the hydration layers of water around the protein sustain the energy condensation. In the present paper we present the results of molecular dynamics simulations of BSA in four states: at equilibrium and out-of-equilibrium in water, and at room and high temperature in vacuum. By comparing physical properties of the system in the four states, our simulations provide a qualitative and quantitative assessment of the three assumptions on which the theoretical framework is based. Our results confirm the assumptions of the theoretical model showing energy condensation at low frequency and electretlike alignment between the protein's and the water's dipoles; they also allow a quantitative estimate of the contribution of the out-of-equilibrium state and of the water to the observed behavior of the protein. In particular, it has been found that in the out-of-equilibrium state the amplitude of the oscillation of the protein's dipole moment greatly increases, thereby enhancing a possible absorption or emission of e.m. radiation. The analysis of BSA's dynamics outlined in the present paper provides a procedure for checking the propensity of a biomolecule to interact via e.m. radiation with its biochemical partners.

Submolecular Insights into Interfacial Water by Hydrogen-Sensitive Scanning Probe Microscopy

ConspectusWater-solid interfaces have attracted extensive attention because of their crucial roles in a wide range of chemical and physical processes, such as ice nucleation and growth, dissolution, corrosion, heterogeneous catalysis, and electrochemistry. To understand these processes, enormous efforts have been made to obtain a molecular-level understanding of the structure and dynamics of water on various solid surfaces. By the use of scanning probe microscopy (SPM), many remarkable structures of H-bonding networks have been directly visualized, significantly advancing our understanding of the delicate competition between water-water and water-solid interactions. Moreover, the detailed dynamics of water molecules, such as diffusion, clustering, dissociation, and intermolecular and intramolecular proton transfer, have been investigated in a well-controlled manner by tip manipulation. However, resolving the submolecular structure of surface water has remained a great challenge for a long time because of the small size and light mass of protons. Discerning the position of hydrogen in water is not only crucial for the accurate determination of the structure of H-bonding networks but also indispensable in probing the proton transfer dynamics and the quantum nature of protons.In this Account, we focus on the recent advances in the H-sensitive SPM technique and its applications in probing the structures, dynamics, and nuclear quantum effects (NQEs) of surface water and ion hydrates at the submolecular level. First, we introduce the development of high-resolution scanning tunneling microscopy/spectroscopy (STM/S) and qPlus-based atomic force microscopy (qPlus-AFM), which allow access to the degrees of freedom of protons in both real and energy space. qPlus-AFM even allows imaging of interfacial water in a weakly perturbative manner by measuring the high-order electrostatic force between the CO-terminated tip and the polar water molecule, which enables the subtle difference of OH directionality to be discerned. Next we showcase the applications of H-sensitive STM/AFM in addressing several key issues related to water-solid interfaces. The surface wetting behavior and the H-bonding structure of low-dimensional ice on various hydrophilic and hydrophobic solid surfaces are characterized at the atomic scale. Then we discuss the quantitative assessment of NQEs of surface water, including proton tunneling and quantum delocalization. Moreover, the weakly perturbative and H-sensitive SPM technique can be also extended to investigations of water-ion interactions on solid surfaces, revealing the effect of hydration structure on the interfacial ion transport. Finally, we provide an outlook on the further directions and challenges for SPM studies of water-solid interfaces.