Dear XPLOR-NIH users

I am new to XPLOR-NIH. After reading Xplor-NIH Documentation, I have one 
question.
I built one pdb structure by homology modelling.
When I checked the model structure by some programs, I found some warnings 
about unusal bond angle, chirality deviations. I want to fix them.

Can I fix those warnings about bond angles, chirality by  XPLOR-NIH refinement ?
I need comment.
Thanks.

Hyun.
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