  We present the open source distributed software package Poisson-Boltzmann
Analytical Method (PB-AM), a fully analytical solution to the linearized
Poisson Boltzmann equation, for molecules represented as non-overlapping
spherical cavities. The PB-AM software package includes the generation of
outputs files appropriate for visualization using VMD, a Brownian dynamics
scheme that uses periodic boundary conditions to simulate dynamics, the ability
to specify docking criteria, and offers two different kinetics schemes to
evaluate biomolecular association rate constants. Given that PB-AM defines
mutual polarization completely and accurately, it can be refactored as a
many-body expansion to explore 2- and 3-body polarization. Additionally, the
software has been integrated into the Adaptive Poisson-Boltzmann Solver (APBS)
software package to make it more accessible to a larger group of scientists,
educators and students that are more familiar with the APBS framework.
