Applications of the Stochastic Difference Equation in Length

SDEL was also used to study the coil-helix transition of an alanine-rich peptide, the conformational transition of sugar puckering in deoxyadeno-sine, polymerase and the B-Z DNA transition. The coil to helix study exemplified several properties of SDEL trajectories, like the filtering of high-frequency modes and the preservation of thermodynamics properties for slow degrees of freedom when the trajectory resolution is decreased. 

The SDEL algorithm has also been used to study the folding of more complicated systems, such as the wild-type human Cu, Zn superoxide dismu-tase (SOD) dimer. SOD is a 153-residue, homodimeric, antioxidant enzyme that dismutates superoxide ion to hydrogen peroxide and oxygen.It is an eight-strand, flattened, fl-barrel protein with one copper and one zinc ion per monomer.This protein is involved in the familial form of amyotrophic lateral sclerosis (FALS). 

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