Aw: Re: [gmx-users] How to calculate enthalpy

2013-07-19 Thread lloyd riggs
I thought about this reguaring solvation energy. If you use a good water model, and make a secoundary index for solvent (ie Solvent2 atoms x-xn), the normal Gromacs energy extraction would allow you to just extract all energy between protein and solvent2. I assume you could do some extreemly

Aw: Re: [gmx-users] How to calculate enthalpy

2013-07-15 Thread lloyd riggs
Whats the energy of each waters hydrogen bonding strength respective of each one...as they vary by a couple kcal/mol according to the new IUPAC standard deffinition of hydrogen bonds (2011)? And the energy of the internal structural hydrogen bonds that were disrupted? Assuming no acidic