[ccp4bb] Has anyone successfully used RoseTTAFold or AF2 to guide crystallization?

2022-04-04 Thread Scott Classen
you trimmed or modified them in some way to aid in crystallization? Or if you haven’t done this yourself, are you aware of anyone who has? Thanks, Scott ~~ Scott Classen, Ph.D. ALS-ENABLE TomAlberTron Beamline 8.3.1 SIBYLS Beamline 12.3.1 Advanced Light Source

Re: [ccp4bb] [phenixbb] comfortable OS X level

2017-06-07 Thread Scott Classen
10.2 ? That OS is 15 years old. > On Jun 7, 2017, at 8:27 AM, Diana Tomchick > wrote: > > I’ve not had any problems; the current version is 10.2.5, so it’s pretty > stable now. > > Diana > > ** > Diana R. Tomchick > Professor > Departments of B

Re: [ccp4bb] paper

2014-09-03 Thread Scott Classen
I think he just did ;-) Sincerely, Scott > On Sep 3, 2014, at 6:05 AM, "Keller, Jacob" wrote: > > Can you do this for structural biology? > > JPK > > -Original Message- > From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of William > G. Scott > Sent: Wednesday, Septe

Re: [ccp4bb] fluorescent pedal

2014-02-14 Thread Scott Classen
Hi Ronnie, We use YAG discs (Yttrium Aluminum Garnet). We buy small 10mm x 100um or 500um thick discs, break them into shards, glue them to various alignment jigs and they provide a very effective X-ray visualization tool. Our latest supplier is Star Tech Instruments (http://www.startechinstrum

Re: [ccp4bb] Best compounds for heavy atom soaks

2014-01-15 Thread Scott Classen
On Jan 15, 2014, at 10:27 AM, Jim Pflugrath wrote: > > Quiz time: What wavelength would give iodide a similar signal to that of > selenium? Can one get a better signal than selenium by choosing a different > wavelength for data collection? I'll bite, At ~11,000eV Iodine has about 3.8 anoma

Re: [ccp4bb] a problem when using NOMACHINE Player from OSX 10.7.4

2013-09-18 Thread Scott Classen
The keyboard combo to get the settings is control+option+0 Sincerely, Scott > On Sep 18, 2013, at 19:14, Scott Classen wrote: > > I think if you press option + command + 0 a menu will pop up in the middle of > the screen. There should be a display settings icon there. You can ch

Re: [ccp4bb] a problem when using NOMACHINE Player from OSX 10.7.4

2013-09-18 Thread Scott Classen
I think if you press option + command + 0 a menu will pop up in the middle of the screen. There should be a display settings icon there. You can choose full screen or 1:1 pixel ratio etc. Just explore the various options and something should work for you hopefully. Sincerely, Scott > On S

[ccp4bb] 5D data storage

2013-07-11 Thread Scott Classen
I stumbled across this interesting abstract today, and though I'd rekindle the perennial data storage debate on ccp4bb. Apparently these researchers have figured out a way to store 360TB of data on a "disc" (not sure of the actual dimensions). The memory crystal should have a thermal stability

Re: [ccp4bb] HKL2000 24IDE beam center.

2013-01-17 Thread Scott Classen
Hello Niu, Have you tried adding the following line to appropriate areas in the macro tab (indexing, refinement and integration I believe they're called?): x beam 156 y beam 157 Sincerely, Scott Classen On Jan 17, 2013, at 1:19 PM, Niu Tou wrote: > Hi colleagues, > > We

Re: [ccp4bb] refining against weak data and Table I stats

2012-12-13 Thread Scott Classen
On Dec 13, 2012, at 11:00 AM, Ed Pozharski wrote: > I am not a perfectionist by > any measure, but deliberately not placing water molecules that you can > place because it "does not make biological difference" can hardly be > justified. Hello Ed, As an admitted water adder I couldn't agree more

Re: [ccp4bb] how to ignore spot overlap in imosflm?

2012-05-13 Thread Scott Classen
Hello Xinghua, I don't think you need to do anything special to ignore overlapping reflections. Mosflm will not integrate them. You biggest concern is that your data will not be complete, which will result in poor density or inability to solve your structure. Have you looked closely at your i

Re: [ccp4bb] negative difference density around sulphur and oxygen atoms

2012-04-04 Thread Scott Classen
Hello Chris, Are you refining individual atomic B factors or grouped? Perhaps the B factors of the terminal atoms of the side chain are being restrained to too low of a B factor resulting in excessive negative density? Scott On Apr 4, 2012, at 8:16 AM, Chris Meier wrote: > Dear all, > I am r

Re: [ccp4bb] images

2009-03-20 Thread Scott Classen
On Mar 19, 2009, at 3:26 AM, Andrew Purkiss-Trew wrote: On Wed, 2009-03-18 at 18:19 +, Frank von Delft wrote: Maybe, but images without experimental context (sequence? ligands? purification? crystallization format? -- PURPOSE OF EXPERIMENT!?!! relationship to the other 15 similar datasets)

Re: [ccp4bb] foam dewar usage ?

2008-10-12 Thread Scott Classen
the foam lid on. It just works! I don't know what else to say. Scott :~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~: Scott Classen, Ph.D. SIBYLS Beamline 12.3.1 Advanced Light Source Lawrence Berkeley National Laboratory 1 Cyclotron Road, MS6R2100 c) 510.206.4418 o) 510.495.2697 beamline) 510.495.2134 :~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~:~: