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Matrix Formalism (matrix + formalism)

Distribution by Scientific Domains
Chemistry100%

Selected Abstracts

Matrix formalism for site-specific binding of unstructured proteins to multicomponent lipid membranes,

JOURNAL OF PEPTIDE SCIENCE, Issue 4 2008
Vladimir B. Teif
Abstract We describe a new approach to calculate the binding of flexible peptides and unfolded proteins to multicomponent lipid membranes. The method is based on the transfer matrix formalism of statistical mechanics recently described as a systematic tool to study DNA,protein,drug binding in gene regulation. Using the energies of interaction of the individual polymer segments with different membrane lipid species and the scaling corrections due to polymer looping, we calculate polymer adsorption characteristics and the degree of sequestration of specific membrane lipids. The method is applied to the effector domain of the MARCKS (myristoylated alanine rich C kinase substrate) protein known to be involved in signal transduction through membrane binding. The calculated binding constants of the MARCKS(151,175) peptide and a series of related peptides to mixed PC/PS/PIP2 membranes are in satisfactory agreement with in vitro experiments. Copyright © 2008 European Peptide Society and John Wiley & Sons, Ltd. [source]

Crystal truncation rod X-ray scattering: exact dynamical calculation

JOURNAL OF APPLIED CRYSTALLOGRAPHY, Issue 1 2008
Václav Holý
A new method is presented for a calculation of the reciprocal-space distribution of X-ray diffracted intensity along a crystal truncation rod. In contrast to usual kinematical or dynamical approaches, the method is correct both in the reciprocal-lattice points and between them. In the method, the crystal is divided into a sequence of very thin slabs parallel to the surface; in contrast to the well known Darwin dynamical theory, the electron density in the slabs is constant along the surface normal. The diffracted intensity is calculated by a matrix formalism based on the Fresnel reflection and transmission coefficients. The method is applicable for any polarization of the primary beam and also in a non-coplanar scattering geometry. [source]

Matrix formalism for site-specific binding of unstructured proteins to multicomponent lipid membranes,

JOURNAL OF PEPTIDE SCIENCE, Issue 4 2008
Vladimir B. Teif
Abstract We describe a new approach to calculate the binding of flexible peptides and unfolded proteins to multicomponent lipid membranes. The method is based on the transfer matrix formalism of statistical mechanics recently described as a systematic tool to study DNA,protein,drug binding in gene regulation. Using the energies of interaction of the individual polymer segments with different membrane lipid species and the scaling corrections due to polymer looping, we calculate polymer adsorption characteristics and the degree of sequestration of specific membrane lipids. The method is applied to the effector domain of the MARCKS (myristoylated alanine rich C kinase substrate) protein known to be involved in signal transduction through membrane binding. The calculated binding constants of the MARCKS(151,175) peptide and a series of related peptides to mixed PC/PS/PIP2 membranes are in satisfactory agreement with in vitro experiments. Copyright © 2008 European Peptide Society and John Wiley & Sons, Ltd. [source]

Field-free molecular alignment of CO2 mixtures in presence of collisional relaxation

JOURNAL OF RAMAN SPECTROSCOPY, Issue 6 2008
T. Vieillard
Abstract The present work explores the extension of the concept of short-pulse-induced alignment to dissipative environments within quantum mechanical density matrix formalism (Liouville equation) from the weak to the strong field regime. This is illustrated within the example of the CO2 molecule in mixture with Ar and He, at room temperature, for which a steep decrease of the alignment is observed at moderate pressure because of the collisional relaxation. The field-free alignment is measured by a polarization technique where the degree of alignment is monitored in the time domain by measuring the resulting transient birefringence with a probe pulse Raman induced polarization spectroscopy (RIPS) Copyright © 2008 John Wiley & Sons, Ltd. [source]