Remembering resid

From: Kevin C Chan (cchan2242-c_at_my.cityu.edu.hk)
Date: Thu Jun 18 2015 - 08:42:34 CDT

Dear Users,

I'm struggling with psfgen of a membrane created from duplicating a smaller
piece of membrane. Obviously there will be duplicated resid inside the pdb
and psfgen hates them :(

Then I try to renumber them according to residue choosing ($sel set resid
[$sel get residue]) but fail as maybe there is a user-constructed lipid so
VMD is weak at recognising it. It has been a nightmare as VMD does not read
a topology before load the pdb but only a psf. This is weird as I am
currently encountering problem when making the psf it requires. I thought
sending this to the VMD mailing list but as it originated from psfgen so I
still send it here.

Can anyone share their experience in making psf for membrane made from
duplication?

Thank in advance,
Kevin
City University of Hong Kong

This archive was generated by hypermail 2.1.6 : Tue Dec 27 2016 - 23:21:10 CST