[ccp4bb] PhD studentship in structural biology, Max Planck, Gottingen

2009-04-28 Thread Vlad Pena
The position is available in the group of X-ray crystallography, Department of Cellular Biochemistry (Prof. Reinhard Lührmann). The project is part of the extensive effort of our department towards understanding the structural basis of the spliceosome function. The spliceosome is a multi-megadalto

Re: [ccp4bb] refining pseudo-translation

2009-04-28 Thread Eleanor Dodson
You dont say what the translation vector is, or the spacegroup, but if one of the translation components is fractional, eg 0.5 with an orthogonal SG or 0.333 in a trigonal, then it can generate aparent absences along an axis, and it s easy to mis-assign the spacegroup; eg call something P212121

[ccp4bb] molecular replacement and twinning problems

2009-04-28 Thread Kay Diederichs
Dear all, we have crystals that nicely diffract to 1.7 A (sharp spots), with the following characteristics and findings: a) the data appear as P212121, with axes 117.2 133.6 138.3 (if reduced in P1, the largest deviation of any angle from 90° is 0.2°); the odd screw-axis reflections are most

Re: [ccp4bb] molecular replacement and twinning problems

2009-04-28 Thread Eleanor Dodson
You dont mention any twinning tests? The L test, now part of the newest ctruncate is pretty good at detecting twinning even with the NCS translation. And SFCHECK does a good job too. If these are inconclusive I would not assume twinning. Usually you can get solutions for MR with twinned data,

[ccp4bb] ccp4mg and OS X

2009-04-28 Thread William G. Scott
Hi Citizens: Today I decided to try ccp4Mg, to see what I have been missing. I downloaded the CCP4 website precompiled version. OS X intel iMac. When the program starts up, a window appears, and it is flickering at a rapid frequency. I closed it before I had a seizure. I had to quit th

Re: [ccp4bb] molecular replacement and twinning problems

2009-04-28 Thread Kay Diederichs
Eleanor Dodson schrieb: You dont mention any twinning tests? sorry, I forgot to mention that the twinning tests do not show twinning. Rather, the actual curves in the "Cumulative distribution of H" lie on the "not-twinned-at-all" (i.e opposite) side of the alpha=0 curve (see plot below). But

Re: [ccp4bb] ccp4mg and OS X

2009-04-28 Thread Stuart McNicholas
Dear Bill, CCP4MG is undergoing a major rewrite; this is mostly complete. The new version does not use X11 at all and should be generally much more stable. It is not yet hosted on the CCP4 site - my fault, sorry. You can get it from: http://www.ysbl.york.ac.uk/~ccp4mg/download2/ Best Wishe

Re: [ccp4bb] ccp4mg and OS X

2009-04-28 Thread Dirk Kostrewa
Dear Bill, I can confirm what Stuart says: independent of Grateful Dead, the new QtMG from the download2-site is not flickering at all. Best regards, Dirk. Am 28.04.2009 um 15:57 schrieb Stuart McNicholas: Dear Bill, CCP4MG is undergoing a major rewrite; this is mostly complete. The ne

[ccp4bb] deadline for applications for beamtime at BM1/ESRF is 6th May for beamtime in June/July 2009

2009-04-28 Thread Martin A. Walsh
Dear all, deadline for submission of proposals for beamtime at BM14 (ESRF) for the third run of 2009 [June/July] is wednesday, the 6th May 2009. Beamline proposals can be submitted on-line from the BM14 webpages at http://www.bm14.eu PLEASE remember this call is distinct from ESRF proposal call

[ccp4bb] refmac, twinning, restraints

2009-04-28 Thread James Whittle
Dear all, Can any one comment on setting up restraints for refinement against merohedrally twinned data in Refmac? I find that refinement distorts the geometry (90% allowed in the Ram. plot becomes 60% after 10 cycles). Decreasing the weight term to 0.5 or 0.1 seems not to improve the ref

Re: [ccp4bb] ccp4mg and OS X

2009-04-28 Thread Donnie Berkholz
On 14:57 Tue 28 Apr , Stuart McNicholas wrote: > Dear Bill, > CCP4MG is undergoing a major rewrite; this is mostly complete. The new > version does not use X11 at all and should be generally much more > stable. It is not yet hosted on the CCP4 site - my fault, sorry. You can > get it fro

Re: [ccp4bb] molecular replacement and twinning problems

2009-04-28 Thread Eleanor Dodson
Well - there s nothing there to indicate twinning, although as you say it is hard to be sure with a pseudo translation... The contrast doesnt look brilliant, but then it often doesnt.. What about phaser? If it gives a contrast between one spacegroup and the others I always think that is a good

[ccp4bb] Refmac Running problem

2009-04-28 Thread Li, Dongyang
Dear sir: I got a very large model with 56 NCS groups working on. So I decided to upgrade our old version of CCP4, which is 4.6.0. The one I installed is the CCP4 4.6.1 executable for Linux without coot and Databases for Balbes. The installation appeared to be successful. I can start ccp4 GUI an

[ccp4bb] Exciting postdoctoral fellowships in India

2009-04-28 Thread Dr. Anthony Addlagatta
Sorry for the off topic mail Government of India has recently initiated several postdoctoral fellowships with attractive salaries and project contingencies. Those interested can visit the Council of Scientific & Industrial Research (CSIR), Department of Science and Technology, New Delhi (