CN	Coordination number
dPCA	Dihedral principle component analysis
DCCM	Domain cross-correlation matrix
DSSP	Database of secondary structure assignments for all protein entries in the Protein Data Bank
MD	Molecular dynamics
MMP-2	Matrix metalloproteinase-2
MMPBSA-IE	Molecular mechanics Poisson Boltzman surface area – interaction entropy
NVT	Constant number, volume, and temperature
NPT	Constant number, pressure, and temperature
PDB	Protein databank
PME	Particle mesh Ewald
RMSD	Root mean square deviation
RMSF	Root mean square fluctuation
SASA	Solvent exposed surface area