Re: [ccp4bb] cif file for ALF3O

Dear Jinyu, Are you sure you have AlF3? I mean, when you prepare your mixture to get AlF3 actually you produce AlF3 and AlF4 (Goldstein, 1964). Indeed depending on the initial concentration of F ion you used you may have a 50% of AlF3 and 50% of AlF4, and any of them could be bound to your prot

Re: [ccp4bb] cif file for ALF3O

Did not design compound strings for some time, the atom O should be without brackets… O[Al](F)(F)F works Cheers Jeroen -- Dr. math. et dis. nat. Jeroen R. Mesters https://orcid.org/-0001-8532-6699 University of Lübeck Institute of Biochemistry https://www.biochem.uni-luebeck.de phone: +49-

Re: [ccp4bb] [EXTERNAL] Re: [ccp4bb] ILLUSTRATE in PYMOL

Hi Faisal - In addition to the `specular`, `ray_trace_mode`, and `ray_trace_gain` settings Blaine pointed out, you can also adjust the `direct` and `ambient` lighting settings, as well as `light_count` (which I believe only affects direct and specular lighting, not ambient). For example, these wo

Re: [ccp4bb] [EXTERNAL] Re: [ccp4bb] ILLUSTRATE in PYMOL

Hi Faisal, I made a number of such figures several years ago. I finally found the code. Load the molecule of interest into PyMOL and paste the following code onto the command line just below the command history window. I was using our school colors: crimson and cream. Ligands are colored crimson.

Re: [ccp4bb] ILLUSTRATE in PYMOL

https://pymolwiki.org/index.php/APBS *Pius Padayatti* On Tue, Aug 15, 2023 at 5:20 PM khaja faisal tarique < khajafaisaltari...@gmail.com> wrote: > Hi everyone > > Is there any way to make surface representation of a protein structure > similar to the 'Illustrate: Non-photorealistic Biomolecul

[ccp4bb] ILLUSTRATE in PYMOL

Hi everyone Is there any way to make surface representation of a protein structure similar to the 'Illustrate: Non-photorealistic Biomolecular Illustration' ( https://ccsb.scripps.edu/illustrate/) using scripts in Pymol ? It will be really helpful if someone can share this with me. Thanks Faisal

[ccp4bb] Reminder: CBMS Lecture Series - August 16 13:30 (EDT) - Jochen Zimmer

You are cordially invited to join …….. Jochen Zimmer  Professor, Molecular Physiology and Biological Physics School of Medicine  

Re: [ccp4bb] cif file for ALF3O

oops, sorry, have to correct the smiles string... (O)[Al](F)(F)F Cheers Jeroen -- Dr. math. et dis. nat. Jeroen R. Mesters https://orcid.org/-0001-8532-6699  University of Lübeck Institute of Biochemistry https://www.biochem.uni-luebeck.de phone: +49-451-3101-3105 Ratzeburger Allee 160 23

[ccp4bb] 3 year postdoctoral position at the University of Leeds

Dear CCP4BB, I’m looking for a postdoc to join my research group at the Astbury Centre, University of Leeds, UK. This is a 3-year BBSRC-funded position to study proteins involved in a spectrum of inherited disorders (ciliopathies), using a range of structural and biophysical techniques. For mo

[ccp4bb] [DEADLINE EXTENDED] Advanced Methods for Ambient Crystallography at ESRF-EBS Workshop - 21-23 November 2023

Dear All, we have extended the deadline the 1st September for this exciting workshop - we have a number of bursaries to cover all expenses so please go ahead and apply. Looking forward to meeting you in November, Matt. Dear all The ESRF and EMBL Joint Structural Biology Group, with the sup