hydrogen from three side bond to near atoms

From: zahra ghalami <[email protected]>
Subject: atoms stick together badly
To: "[email protected]" <[email protected]>
Date: Friday, January 22, 2016, 7:19 AM
I try to simulate solid porous
organic cage (CC1) with C, N and H atoms. but when I run nve
and then npt and visit the result in VMD,

all hydrogen atoms bonds from three side to near atoms.

poc.in (3.44 KB)