How to dock compounds with Si to a protein using Pyrx software?

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Bartosz Trzaskowski

There are simply no parameters for Si (silicon) in Autodock, as this element is quite uncommon. There is nothing you can do about that unless you modify the Autodock force field to include parameters for this element.

Akhilesh Naik

Bartosz Trzaskowski Thank you. Could you please explain how I could modify the Autodock forcefield to include parameters for this element?