Explicit versus implicit solvent modeling of Raman optical activity spectra.
نویسندگان
چکیده
Raman and Raman optical activity (ROA) spectra of molecules reflect not only molecular structure and conformation but also the dynamics and interactions with the solvent. For polar, biologically relevant molecules in aqueous environment, this often complicates the band assignment and interpretation of the spectra. In the present study, implicit dielectric and explicit solvent models are compared with respect to the influence of the choice of solvent model on the spectral shape. Lactamide and 2-aminopropanol were selected as model compounds, and the Raman and ROA spectra were measured for both enantiomers. Geometries of explicitly solvated clusters were derived from quantum-mechanical calculations, classical (MD), and Car-Parrinello (CPMD) molecular dynamics. The results indicate that although the dielectric model reasonably well reproduces the main spectral features, more faithful intensity profiles, including the inhomogeneous band broadening, are obtained from the explicit MD and CPMD clusters. Additionally, the CPMD clusters are capable of reproducing most spectral features better than the classical dynamics, provided the simulation time is long enough to allow for a complete sampling of the conformational space. The hydrogen-bonded water molecules of the first hydration shell significantly influence the spectral intensities, whereas the effect of loosely attached or distant solvent molecules is minor. In order to average the signal, however, a relatively large number of MD geometries need to be considered, as was also exemplified by simulations of the ROA spectrum of the achiral molecule glycine. An explicit solvent modeling of sizable systems thus requires extensive computations, which became possible only recently due to the development of efficient analytical computational techniques.
منابع مشابه
Tuning colloidal interactions in subcritical solvents by solvophobicity: explicit versus implicit modeling.
The distance-resolved effective interaction between two colloidal particles in a subcritical solvent is explored both by an explicit and implicit modeling. An implicit solvent approach based on a simple thermodynamic interface model is tested against grand-canonical Monte Carlo computer simulations using explicit Lennard-Jones solvent molecules. Close to liquid-gas coexistence, a joint gas bubb...
متن کاملSimulation of Raman optical activity of multi-component monosaccharide samples.
Determination of the saccharide structure in solution is a laborious process that can be significantly enhanced by optical spectroscopies. Raman optical activity (ROA) spectra are particularly sensitive to the chirality and conformation. However, the interpretation of them is largely dependent on computational tools providing a limited precision only. To understand the limitations and the link ...
متن کاملL-alanyl-L-alanine conformational changes induced by pH as monitored by the Raman optical activity spectra.
Fine effects of the hydration, charge, and conformational structural changes in L-alanyl-L-alanine (Ala-Ala) dipeptide were studied with the aid of Raman and Raman optical activity (ROA) spectra. The spectra were recorded experimentally and analyzed by means of density functional computations. A (15)N and (13)C isotopically labeled analogue was synthesized and used to verify the vibrational mod...
متن کاملRaman Spectra of a PMMA Microstructured Optical Fibre and Direct Measurement of Its Gain Coefficient
A polymethylmethacrylate (PMMA) microstructured polymer optical fiber (mPOF) is fabricated and characterized. Using the cut-back technique the fiber loss is measured which is higher than the step-index silica fibers. Through a novel experimental scheme, the backward Stokes spectrum of the fabricated mPOF is recorded over a range exceeding 3000 cm‑1 during the cut-back method and compared ...
متن کاملMolecular dynamics with restrictions derived from optical spectra
The information about molecular structure coded in the optical spectra must often be deciphered by complicated computational procedures. A combination of spectral modeling with the molecular dynamic simulations makes the process simpler, by implicit accounting for the inhomogeneous band broadening and Boltzmann averaging of many conformations. Ideally, geometries of studied systems can be deduc...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید
ثبت ناماگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید
ورودعنوان ژورنال:
- The journal of physical chemistry. B
دوره 115 14 شماره
صفحات -
تاریخ انتشار 2011