title: Geometric Approximation: A New Computational Approach To Characterize Protein Dynamics from NMR Adiabatic Relaxation Dispersion Experiments.
abstract: A new computational strategy is reported that provides a fast approximation of numerical solutions of differential equations in general. The method is demonstrated with the analysis of NMR adiabatic relaxation dispersion experiments to reveal biomolecular dynamics. When an analytical solution to the theoretical equations describing a physical process is not available, the new approach can significantly accelerate the computational speed of the conventional numerical integration up to 10(5) times. NMR adiabatic relaxation dispersion experiments enhanced with optimized proton-decoupled pulse sequences, although extremely powerful, have previously been refractory to quantitative analysis. Both simulations and experimental validation demonstrate detectable "slow" (microsecond to millisecond) conformational exchange rates from 10(2) to 10(5) s(-1). This greatly expanded time-scale range enables the characterization of a wide array of conformational fluctuations for individual residues, which correlate with biomolecular function and were previously inaccessible. Moreover, the new computational method can be potentially generalized for analysis of new types of relaxation dispersion experiments to characterize the various dynamics of biomolecular systems.
authors.affiliation: Structural Biophysics Laboratory, Center for Cancer Research, National Cancer Institute , Frederick, Maryland 21702-1201, United States.
authors.forename: Fa-An
authors.initials: FA
authors.lastname: Chao
authors.affiliation: Structural Biophysics Laboratory, Center for Cancer Research, National Cancer Institute , Frederick, Maryland 21702-1201, United States.
authors.forename: R Andrew
authors.initials: RA
authors.lastname: Byrd
mesh_terms: D019295:Computational Biology / Q000379:methods*; D003198:Computer Simulation; D007700:Kinetics; D008962:Models, Theoretical; D019906:Nuclear Magnetic Resonance, Biomolecular / Q000379:methods*; D011487:Protein Conformation; D011522:Protons; D044763:Ubiquitin-Conjugating Enzymes / Q000737:chemistry*
chemical_list: D011522:Protons; D044763:Ubiquitin-Conjugating Enzymes