VMD-L Mailing List

From: james Fernandez (fernandezjames89_at_gmail.com)
Date: Fri Mar 30 2012 - 11:37:07 CDT

Hi VMD USERS,
        I am trying to plot some co-ordinates(points) on VMD and I used a
simple format of a PDB file but its giving a wrong figure.
The format of the pdb file that i used is as follows,

8!
REMARK 350 BIOMOLECULE: 1

ATOM 1 28.407 28.897 5.314 1.00 9.00
ATOM 2 28.238 28.590 4.518 1.00 9.00
ATOM 3 28.343 27.156 2.578 1.00 9.00
ATOM 4 24.707 24.752 0.377 1.00 9.00
ATOM 5 24.641 22.884 -1.74 1.00 9.00
ATOM 6 23.405 19.850 -3.63 1.00 9.00
ATOM 7 22.710 16.487 -4.12 1.00 9.00
ATOM 8 22.205 13.628 -5.88 1.00 9.00

I am trying to connect these molecules through bonds i am able to connect
it but the co-ordinates that are getting plotted on VMD are not accurate.

Can someone please help me in getting these co-ordinates plotted since I am
NEW to this software. I will be very thankful to you and your help will be
appreciated.

Regards
James