Tracking Allosteric Propagation with HX-MS

ExMS: data analysis for HX-MS experiments.

A previous paper considered the problems that presently limit the hydrogen exchange-mass spectrometry (HX-MS) method for studying the biophysical and functional properties of proteins. Many of these problems can be overcome by obtaining and analyzing hundreds of sequentially overlapping peptide fragments that cover the protein many times over (Mayne et al. J. Am. Soc. Mass Spectrom. 2011: 10.10...

Deuteration distribution estimation with improved sequence coverage for HX/MS experiments

MOTIVATION Time-resolved hydrogen exchange (HX) followed by mass spectrometry (MS) is a key technology for studying protein structure, dynamics and interactions. HX experiments deliver a time-dependent distribution of deuteration levels of peptide sequences of the protein of interest. The robust and complete estimation of this distribution for as many peptide fragments as possible is instrument...

Belief Propagation Reveals Allosteric Mechanisms in Proteins

The physical mechanisms involved in allosteric regulation remain unclear. We present a novel and efficient method for investigating the propagation of regulatory signals in protein structures. Our approach utilizes undirected graphical models to efficiently encode the Boltzmann distribution over geometric configurations. Belief Propagation is then invoked to efficiently compute: (a) free energi...

Level Sets of Fuzzy HX Ideal of a HX Ring

In this paper, we introduce the concept of level sets of fuzzy HX left ideal and fuzzy HX right ideal of a HX ring . Also we have discussed the properties of fuzzy HX righ t(left) ideal under homomorphism and anti homomorphism by establishing the relationship among them.

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