Thanks to Carsten and Mauricio.
Following approaches work:
1) set stick_transparency, 0.4, molecule4
Useful if you are drawing multiple selections from Mol4 and want it transparent
2) Individual objects
create M223Dser, /mol4//D/MET`223 and !mc
show sticks, M223Dser
set stick_transparency=0.9
Mark,
you need to set
set stick_transparency=0.9, M223Dser
> -Original Message-
> From: Dr. Mark Mayer [mailto:may...@mail.nih.gov]
> Sent: Thursday, March 20, 2008 5:22 PM
> To: Schubert, Carsten [PRDUS]
> Cc: pymol-users@lists.sourceforge.net
> Subject: RE: [PyMOL] Transparency in indi
Hi Carsten,
Thanks for response - I Just tried following and its still drawn as
solid object. Did I mess up or should this have worked?
create M223Dser, /mol4//D/MET`223 and !mc
show sticks, M223Dser
set transparency=0.9, M223Dser
Mark,
as far as I know, transparency is supported for sufac
Hi All,'
If I have a PyMol script with multiple molecules loaded, is there a
way to set transparency (say for sticks or spheres), on a by
molecule, or even better on an object by object case. Used to be able
to do this in molscript/raster3d, but for PyMol I've only figured out
how to set sphe
or if B' is residues M to N in prot1 and B'' is residues L to K in prot2,
its as simple as
load prot1.pdb
load prot2.pdb
align prot1 and i. M-N, prot2 and i. L-K
look at "help selections" and you can try to align any two selections..
cheers,
Abhi.
On Thu, Mar 20, 2008 at 12:34 PM, DeLano Scien
Carlo,
If B is the chain ID for the matched seguments, then it should be as simple
as:
load file1.pdb
load file2.pdb
align file1//B//CA, file2//B//CA
Cheers,
Warren
--
DeLano Scientific LLC
Subscriber Support Services
mailto:del...@delsci.info
> -Original Message-
> From: pymol-user
Hi,
I have 2 pdb files corresponding to 2 partially overlapping proteins:
AB' and B"C. B' and B" have similar but not identical structures. I want
to align B' and B" so to obtain ABC. Can I select to align only portions
of molecules? Another possibility is to create 2 new pdb files
corresponding t
