VMD-L Mailing List
From: Biswa Ranjan Meher (brmeher2013_at_gmail.com)
Date: Thu Nov 14 2013 - 17:15:15 CST
- Next message: Thiau Fu Ang: "Error when opening the VMD.exe (Window 8)"
- Previous message: Upamanyu Ray: "BN nanostructure builder"
- Next in thread: John Stone: "Re: H-atoms placed at the end in PDB file"
- Reply: John Stone: "Re: H-atoms placed at the end in PDB file"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]
Dear VMD developers and Users,
I was trying to save the coordinates from a Desmond trajectory in to PDB
format files using VMD. However, when I checked the VMD generated PDB file,
it surprised me that all the heavy atoms for each residues (except
Hydrogen) are placed together and all the H-atoms for each residues placed
together next.
So, in simple, all the heavy atoms are listed first and then all the
H-atoms are listed next in the PDB file. So, is there anyway to save the
coordinates of all the atoms (heavy + H) of each residue in a sequence
chronology.
Hope to get a solution.
Thanks
Biswa
- Next message: Thiau Fu Ang: "Error when opening the VMD.exe (Window 8)"
- Previous message: Upamanyu Ray: "BN nanostructure builder"
- Next in thread: John Stone: "Re: H-atoms placed at the end in PDB file"
- Reply: John Stone: "Re: H-atoms placed at the end in PDB file"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]