[gmx-users] Where are equilibrium values stored?

[j.m.shy+csuohio.edu at sims.csuohio.edu]

Hello everyone,

I'm writing a program to work with Gromacs and, since I'm a relatively new user, perhaps someone can 
tell me what variables equilibrium bond angles, bond lengths, and equilibrium dihedral angles are 
stored in. 

Also, am I correct to assume that these values, once they are read in (from, for example, a .tpr file), are 
modified during an optimization such as that performed by do_lbfgs? If so, where exactly (in do_lbfgs)?

Any and all help is much appreciated.

TIA,
Jacinto