VMD-L Mailing List
From: Vy Phan (phanvy120690_at_gmail.com)
Date: Mon Sep 29 2014 - 08:09:02 CDT
- Next message: Axel Kohlmeyer: "Re: how to make the structures in the movie look better"
- Previous message: Norman Geist: "AW: how to make the structures in the movie look better"
- Next in thread: Ana Celia Vila Verde: "Re: Protein went out of the Box"
- Reply: Ana Celia Vila Verde: "Re: Protein went out of the Box"
- Reply: Josh Vermaas: "Re: Protein went out of the Box"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]
Dear Vmd users,
My systems for MD simulations included 2 protein, but after 50ns of
trajectory, one protein go out side the water box (sometimes comeback). I
knew why this phenomenon happened but when I do not know how to analyze the
result.
I have problem when I calculated hydrogen bonds between two protein.
Because of the boundary condition, the result of hydrogen bonds is not
right. How can I solve this problem?
Thank a lot and best regards,
Phan Vy
- Next message: Axel Kohlmeyer: "Re: how to make the structures in the movie look better"
- Previous message: Norman Geist: "AW: how to make the structures in the movie look better"
- Next in thread: Ana Celia Vila Verde: "Re: Protein went out of the Box"
- Reply: Ana Celia Vila Verde: "Re: Protein went out of the Box"
- Reply: Josh Vermaas: "Re: Protein went out of the Box"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]