Modelling a modified residue in Modeller software

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Martin Klvana

1. Convert the modified amino acid in the template protein to its unmodified equivalent.

2. Build the model with regular amino acids.

3. Modify the amino acid(s) in the model.

Santanu Sasidharan

Is there an alternative to this way? Like modelling it with the template modified residue and getting the same in the modelled structure?

How can i modify the amino acids? are there any open source software available? please suggest the same. @Martin Klvana