26 Oct
2010
26 Oct
'10
8:15 a.m.
On 10/25/10 3:30 PM, Orhan Ertughrul wrote: > I’ve been using a standard script to build an alpha helix from an > alanine chain. Modeller generates the restrained structure but it isn’t > alpha-helical when viewed in PYMOL.
The restraints are consistent with an alpha-helical structure but they are also consistent with other structures (they are quite loose). They are designed really just to "encourage" a structure to adopt an alpha-helical-like conformation but will typically not force a perfect alpha helix.
Ben Webb, Modeller Caretaker
--
modeller-care@salilab.org http://www.salilab.org/modeller/
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage