A strange phenomenon in my dynamics system,any suggestion?

From: ห๏อฅนใ (stg1979_at_emails.bjut.edu.cn)
Date: Fri Apr 07 2006 - 21:29:32 CDT

Dear All,

I am using namd to study trihelices in the water box. Minimization and 500ps CA restrained dynamics were performed. I found a strange phenomenon: a hole without water formed in the water box(even afer adding the water layer to 15 angstrom),and with the rotating of the trihelices,the hole seems moving accordingly. I wondered how to explain it and how to tackle the problem. Could anyone offer some help? Thanks.



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