Re: [ccp4bb] curved cylindrical helices in PyMOL?

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Subject: Re: curved cylindrical helices in PyMOL?
From: Kianoush Sadre-Bazzaz ksadree {- at -} YAHOO {- dot -} COM
Date: 2009-08-27

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From: Ethan Merritt merritt {- at -} U {- dot -} WASHINGTON {- dot -} EDU
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Subject: Re: curved cylindrical helices in PyMOL?
From: Warren DeLano warren {- at -} DELSCI {- dot -} COM
Date: 2009-08-27

Actually, PyMOL cannot bend cylindrical helices. The workaround is to break them manually:

load $PYMOL_PATH/test/dat/1tii.pdb

as cartoon

set cartoon_cylindrical_helices

# Insert a break into the longest helix (only slightly bent)

cartoon skip, C/216/CA

Cheers,
Warren

PS. This is the CCP4 mailing list. The PyMOL Users mailing list is at:

http://sourceforge.net/mail/?group_id=4546

________________________________________
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Kianoush Sadre-Bazzaz
Sent: Thursday, August 27, 2009 7:55 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] curved cylindrical helices in PyMOL?

Hi Susanne,

On the Pymol menu go to Setting --> Cartoon --> Cylindrical Helices

Kianoush

--- On Thu, 8/27/09, Susanne Ressl wrote:

From: Susanne Ressl
Subject: [ccp4bb] curved cylindrical helices in PyMOL?
To: CCP4BB@JISCMAIL.AC.UK
Date: Thursday, August 27, 2009, 7:34 AM
Dear ccp4bb-people,

I would like to depict my protein with curved cylindrical helices using PyMOL.
(I know and use bobscript "rod fitted" for this purpose and like it.)

Anyway, I wonder if anybody has a script or knows how to tell PyMOL to follow the curvature of helices in the cylindrical cartoon representation?

Many thanks in advance.

Best wishes,

Susanne

************************************
Susanne Ressl
MPI Biophysics
Department Structural Biology
Max-von-Laue Strasse 3
60438 Frankfurt
Tel:+49-69-6303-3052
or +49-69-6303-3037

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: curved cylindrical helices in PyMOL?
From: Kianoush Sadre-Bazzaz ksadree {- at -} YAHOO {- dot -} COM
Date: 2009-08-27

Next message:
Subject: Re: anisotropic temp for H2O
From: Ethan Merritt merritt {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2009-08-27