Re: [ccp4bb] visualising anis B factors

Hi Eleanor, It’s easy in coot. Load in the PDB with ANISOU records, then select Draw -> Anisotropic atoms… -> tick box labelled “Show Anisotropic Atoms”! Best wishes, Randy - Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical ResearchTel:

Re: [ccp4bb] visualising anis B factors

Dear Eleanor, in Coot, this is four clicks away from the main menu: Draw ->Anisotropic Atoms->'Yes'->Apply Best, Tim On Wednesday, January 23, 2019 4:17:27 PM CET Eleanor Dodson wrote: > Is there any easy way to do this? > > Coot? ccp4mg? > > Eleanor Dodson > >

[ccp4bb] NECAT Beamtime availabile for MX in February

BEAM TIME AVAILABLE FOR MACROMOLECULAR CRYSTALLOGRAPHY AT THE TWO ID BEAMLINES OF NE-CAT AT APS. We currently have a number of days open in February. Below is a brief description of our beam lines, and links with more information. The 24-ID-C beamline can deliver X-rays in the range of 6 to

[ccp4bb] visualising anis B factors

Is there any easy way to do this? Coot? ccp4mg? Eleanor Dodson To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1

Re: [ccp4bb] visualising anis B factors

You might be interested in Chimera too (--> Tools --> Structure Analysis --> Thermal ellipsoids) On 23.01.2019 16:17, Eleanor Dodson wrote: Is there any easy way to do this? Coot? ccp4mg? Eleanor Dodson - To unsubscribe from the CCP4BB list, click the following

Re: [ccp4bb] visualising anis B factors

Hi Eleanor, This is pretty routine in chemical crystallography using e.g. Olex2 or similar - they use thermal ellipsoids to represent the anisotropic B parameters. I am guessing though that for any non-trivially sized protein this would be quite a computational challenge? best wishes

Re: [ccp4bb] visualising anis B factors

in pymol you can just type “as ellipsoids”. On 23 Jan 2019, at 16:17, Eleanor Dodson <176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk> wrote: Is there any easy way to do this? Coot? ccp4mg? Eleanor Dodson

[ccp4bb] Multiple Postdoctoral Fellowships available at the “Multiscale Research Institute for Complex Systems” at Fudan University of Shanghai

Dear all, The Multiscale Research Institute for Complex Systems (MRICS) at Fudan University is located at the Zhangjiang Campus of Fudan University and is supported by the Shanghai High-peak Program. MRICS is strongly committed to the development of noveland effective multi-scale imaging

Re: [ccp4bb] visualising anis B factors

In ccp4mg it is the representation tab --> Thermal ellipsoids On Wed, Jan 23, 2019 at 4:51 PM Oliviero Carugo < oliviero.car...@univie.ac.at> wrote: > You might be interested in Chimera too (--> Tools --> Structure Analysis > --> Thermal ellipsoids) > > > > > On 23.01.2019 16:17, Eleanor

Re: [ccp4bb] visualising anis B factors

Dear Rob, the commonly used term 'Ortep plot' and the respective entry in the Platon GUI make sure that at least the name of the program is not forgotten. Best, Tim On Wednesday, January 23, 2019 9:07:36 PM CET Sweet, Robert wrote: > Please remember Carrol Johnson and colleagues. In 1965 from

Re: [ccp4bb] visualising anis B factors

Please remember Carrol Johnson and colleagues. In 1965 from Oak Ridge National Lab they released a FORTRAN program, ORTEP, that would write instructions for a CalComp plotter, not only to make a molecular drawing showing thermal ellipsoids, but also to create them IN STEREO! This program

Re: [ccp4bb] visualising anis B factors

Thank you! I still love the BB Eleanor On Wed, 23 Jan 2019 at 16:24, Christian Roth wrote: > In ccp4mg it is the representation tab --> Thermal ellipsoids > > > > On Wed, Jan 23, 2019 at 4:51 PM Oliviero Carugo < > oliviero.car...@univie.ac.at> wrote: > >> You might be interested in Chimera too

Re: [ccp4bb] visualising anis B factors

ORTEP = Oak Ridge Thermal Ellipsoid Program Diana ** Diana R. Tomchick Professor Departments of Biophysics and Biochemistry UT Southwestern Medical Center 5323 Harry Hines Blvd. Rm. ND10.214A Dallas, TX 75390-8816

Re: [ccp4bb] Cation-channel pore representation for solvent accessible area

Hi Ashok Have you tried using Caver plugin in Pymol? It interprets and displays possible channels of solvent accessible areain a given PDB. It is much more interactive, and you can choose any one of the results it provides. There's also a standalone software available, but I'd prefer the

Re: [ccp4bb] visualising anis B factors

I nominate this as the most annoying thread in all of CCP4BB history. Stop including the image already! Just stop! To unsubscribe from the CCP4BB list, click the following link:

Re: [ccp4bb] visualising anis B factors

Oak Ridge Thermal Ellipsoid Plot I From: CCP4 bulletin board on behalf of Keller, Jacob Sent: 23 January 2019 21:50:57 To: ccp4bb Subject: Re: [ccp4bb] visualising anis B factors What’s the story with the funny name—does it have to do with its being petro

Re: [ccp4bb] visualising anis B factors

(Another idle post to see if we can hit the record) One assumes the image is an attachment, and won't be included in the reply. But no, its inline with the text. Easy enough to delete if you notice that, but less likely to be noticed as the thread gets longer and longer . . . On 01/23/2019