From: Wang Yi (
Date: Thu Aug 09 2012 - 15:00:42 CDT

set allatoms [atomselect top all]
$allatoms get beta

You need to read the online manual for VMD keywords.
By the way, why extracting B-factors from trajectory? Is there any thing during your simulation will change the B-factor?


Yi (Yves) Wang
Duke University

On 2012-8-9, at 下午3:13, flavio seixas wrote:

> Hi all,
> Anyone knows a tcl script to extract the B-factors values of protein residues (or atoms) from namd trajectory file?
> I´ll be thankful for any help.
> regards,
> flavio