Microhydrodynamics simulation of protein crystallization. I. Static calculations.
A computer simulation method is proposed to study the effects of hydrodynamic interactions on protein crystallization. It is a combination of Stokesian dynamics and continuum hydrodynamics and is referred to as "microhydrodynamics." The method is checked against analytical expressions for Stokes drag and diffusion coefficients for unit spheres. For a number of protein molecules the diffusion coefficients have been calculated and compared with experimental values. It is shown that the method works well for stationary calculations. Using dynamical calculations interacting protein molecules will be simulated to study the events in the early stages of protein crystallization.
Tissen
J T
JT
BIOSON Research Institute, University of Groningen, The Netherlands.
Drenth
J
J
Berendsen
H J
HJ
Fraaije
J G
JG
D055592:Biophysical Phenomena; D001703:Biophysics; D003198:Computer Simulation; D003460:Crystallization; D004058:Diffusion; D008956:Models, Chemical; D015394:Molecular Structure; D011506:Proteins / Q000737:chemistry*; D012985:Software Design; D013816:Thermodynamics
D011506:Proteins