Dept. of Chemistry, University of Florence

Welcome to the PrimaDORAC web interface

( J. Chem. Inf. Model., 2017, 57 (6), pp 1240-1245 )

PrimaDORAC is a simple web interface that reads the coordinates of an organic molecule (no more than 60 heavy atoms) and produces the topology and parameters files for molecular dynamics simulations.

PrimaDORAC uses mopac7 for producing AM1-BCC charges and gaff2016 atomic types for topology definition. Prior to uploading, read the README file and mind these few rules:

Coordinate file to upload:

N.B. PrimaDORAC default behaviour [ Do nothing; Molecule is OK as is ] assumes that the end-user strictly followed the interface rules;
In this dropdown menu, the interface allows the end-user to switch, at his/her own risk, to non default behaviour by OpenBabel-checking/adding/removig hydrogen atoms