From: politr_at_huji.ac.il
Date: Mon Oct 12 2009 - 11:11:22 CDT

Dear VMD users and developers,
Does anyone knows how can I get from topology file a list of atoms that
covalently bonded to some predefined atom that always changes. Let say
I'm interested to get all atoms that are covalently bonded to oxygens. I
don't want to do it based on the distance as i need the exact
information. The only way I'm familiar with is to make a list by myself:
to define that if the oxygen 's type is OG then the covalently boded
carbon atom is CB etc. Is there any other way to do it?
Thank you for your help
Regina