VMD-L Mailing List

From: Alan (alanwilter_at_gmail.com)
Date: Thu Jul 31 2008 - 03:26:33 CDT

Hello List,

Doing:

tleap
source leaprc.ff99SB
water = createunit wat
solvatebox water TIP3PBOX 12.0
saveamberparm water water.parm7 water.rst7
savepdb water water.pdb
quit

then:

vmd water.parm7 water.rst7

and VMD displays my waters as "triangles", i.e., with a extra bond
between H-H. If loading pdb, all fine.

Is there a way of avoiding this issue?

Many thanks in advance.
Alan 

--
Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate
Department of Biochemistry, University of Cambridge.
80 Tennis Court Road, Cambridge CB2 1GA, UK.
>>http://www.bio.cam.ac.uk/~awd28<<