Hello Yanan--

> 
> How can I generate an extended structure with phosphorylated THR?
> 

I don't think I have a patch for this modification.

The easiest way to generate it would be to modify the phosphoserine
patch in toppar/protein.top to work with threonine. I took a moment to
do the work- please try the attached file and let me know if you have
problems with it.

best regards--
Charles

Attachment: tp.py
Description: Binary data

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