Re: [modeller_usage] Helix building problem

[Modeller Caretaker <modeller-care@ucsf.edu>]

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
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