Chapter 1 The structural determinants of the immunoglobulin light chain amyloid aggregation -- Chapter 2 Thermodynamics and kinetics of amyloid aggregation from atomistic simulations -- Chapter 3 Determination of the size of the primary and secondary folding nuclei of protofibrils from the concentration dependence of the rate and the lag-time of their formation -- Chapter 4 Modulation of cholera toxin structure/function by Hsp90 -- Chapter 5 Function, structure and stability of human gamma D crystallins: A review -- Chapter 6 Protein motions, dynamic effects and thermal stability in dihydrofolate reductase from the hyperthermophile Thermotoga maritime -- Chapter 7 Ab initio folding of glycophorin A and acetylcholine M2 transmembrane segments via simplified environment molecular simulations -- Chapter 8 Multi-scale approaches to dynamical transmission of protein allostery -- Chapter 9 Dynamics of membrane proteins and lipid bilayers -- Chapter 10 What makes a transcriptional master regulator?A systems biology approach.