How can I convert an enzyme pdb file into a topology file for GROMACS use?

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Ranylson Marcello Leal Savedra

Dear Manoj,

use the tool pdb2gmx (GROMACS). I have attached a website to illustrate how to use this tool.

http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/lysozyme/01_pdb2gmx.html

Meenu Sharma

its a wonderful turorial. thanks.

but prodrg server is not working now a days. is there any other option to convert ligand coordinates from pdb to gro format.