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Molecular Dynamics Simulation
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Molecular Dynamics Simulation
45-1 Ramsey Road, Shirley, New York 11967, USA, Shirley
Molecular dynamics (MD) simulation is a computer simulation technique that allows one to predict the time dependent evolution of a system of interacting particles using laws of physics. Studying the dynamic development of a biological system with the consideration of protein flexibility is of vital importance since many biological phenomena involving proteins are very dynamic processes which include transport molecular recognition enzyme catalysis and allosteric regulation. The static models produced by NMR X-ray crystallography and homology modeling offer valuable insights into macromolecular structure while MD simulation can provide atomic-level information about protein conformational changes and binding thermodynamics under predefined physiological... read more
Molecular Dynamics Simulation
45-1 Ramsey Road, Shirley, NY 11967, USA, Shirley
Tel: 6316197922
Profacgen studies molecular dynamics of protein systems using state-of-the-art software tools. The general workflow of our MD simulation service follows these steps: First a model system is selected in which missing segments are fixed and the protonation states determined. Then the system is energy minimized and equilibrated by solving Newton's equations of motion until the properties of the system no longer change with time. After equilibration a production run is performed for an appropriate period of time to output trajectories which are then analyzed for the properties of interest.... read more
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