Re: [ccp4bb] Superpositions: Deviation by Residue

2011-11-29 Thread Tim Gruene
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Dear Jacob, Coot prints this information to the terminal, so you can start coot and 'tee' its output into a file. Tim On 11/28/2011 11:53 PM, Jacob Keller wrote: Let me refine my question (sorry for my lack of clarity): is there a program that

Re: [ccp4bb] Disappearing crystals

2011-11-29 Thread Enrico Stura
Dear Christine, I had guessed that you had more salt in the protein solution than in the reservoir with a relatively low protein concentration. The protein is in: 100mM Sodium Acetate pH 5.5 with 150mM NaCl at a protein concentration of ~4.3mg/mL. and the reservoir is: (0.05M Calcium

[ccp4bb] Phaser problem child killed: segmentation violation in phaser

2011-11-29 Thread Sita Ram Meena
Hi CCP4 community. While running the Phaser in the CCP4 GUI, It was terminated and giving the error message. #CCP4I TERMINATION STATUS 0 child killed: segmentation violation #CCP4I VERSION CCP4Interface 2.0.6 CCP4 Version ccp4-6.1.13 Thanks in advance. Sita Ram

[ccp4bb] Leader of Biophysics Facility at the Biozentrum Basel

2011-11-29 Thread Timm Maier
The Biozentrum of the University of Basel, an internationally renowned Life Sciences research institute, invites applications for the Leader of its new Biophysics Facility. We are looking for an enthusiastic person that combines technical expertise with communication skills. The ideal candidate is

[ccp4bb] Postdoctoral position, Institut de Biologie Stucturale, Grenoble, France

2011-11-29 Thread Franck Borel
Postdoctoral position, Institut de Biologie Stucturale, Grenoble, France A two year postdoctoral position for a biochemist/structural biologist is available in the Synchrotron Group at the Institute for

[ccp4bb] Job opening for a structural biologist to join the “Biocrystallography and Structural Biology of Therapeutic Targets” group at the Institute for the Biology and Chemistry of Proteins, Lyon in

2011-11-29 Thread Nushin Aghajari
A 2 year postdoctoral position with support from the French National Research Agency (ANR) is available to study regulatory mechanisms of BMP-1/tolloid like proteinases ((BTPs; also known as procollagen C-proteinases) which are enzymes implicated in a number of key events during tissue

Re: [ccp4bb] Disappearing crystals

2011-11-29 Thread Patrick Shaw Stewart
Christine, I have a couple more comments First, if those crystals come back, I would certainly try microseeding into *random *screens. You should be able to pick up new conditions that have a little more salt in them, and are therefore stable regarding the movement of water. (If you can't get

[ccp4bb] (off topic) effective chemical lysis of E. coli under anaerobic conditions

2011-11-29 Thread Jim Spencer, Cellular and Molecular Medicine
Dear All, Apologies for the off-topic question. I'm seeking suggestions on the best way to achieve an effective, but not over-harsh, chemical lysis of E coli expressing an oxygen-sensitive Fe-S protein. We need to lyse anaerobically but do not have access to a sonicator that we can use in

Re: [ccp4bb] (off topic) effective chemical lysis of E. coli under anaerobic conditions

2011-11-29 Thread Artem Evdokimov
0.5% octyl-thioglucopyranoside + lysozyme + DNAse in 30 mM TRIS pH 8.0 - degassed/sparged and supplemented with whatever reducing agent you need. Stir in cold for 30-40 minutes at a ratio of 3ml of solution to 1g of cell pellet (wet). Artem On Tue, Nov 29, 2011 at 8:49 AM, Jim Spencer, Cellular

Re: [ccp4bb] Superpositions: Deviation by Residue

2011-11-29 Thread Jacob Keller
Dear Crystallographers, Thanks very much for all who responded to my request. Below is a compiled list of the various ways to skin this crystallographic cat! Jacob -Moleman ca plot distance-CCP4's superpose-distance matrix analysis, e.g.

[ccp4bb] Crystallographic and Physiologic but not Solution Oligomers

2011-11-29 Thread Jacob Keller
Dear Crystallographers, does anyone have any nice examples/references of proteins which form demonstrably physiologically-relevant oligomers in crystals, but which do not appear to do so in solution? I am thinking particularly that domains of membrane proteins which oligomerize primarily through

[ccp4bb] Withdrawal of subscription

2011-11-29 Thread debanjan choudhuri
To whom it may concern, I am writing this in request to the cancellation of my subscription to CCP4BB mail. It was indeed a very rewarding and a knowledgeable experience to be a part of this family. With regards Debanjan Choudhuri

Re: [ccp4bb] Withdrawal of subscription

2011-11-29 Thread James Stroud
With such a nice parting letter, we find it disheartening to let you go. James On Nov 29, 2011, at 7:44 PM, debanjan choudhuri wrote: To whom it may concern, I am writing this in request to the cancellation of my subscription to CCP4BB mail. It was indeed a very rewarding and a

Re: [ccp4bb] Withdrawal of subscription

2011-11-29 Thread Jacob Keller
Just you wait--he'll be back...won't he? On Tue, Nov 29, 2011 at 11:11 PM, James Stroud xtald...@gmail.com wrote: With such a nice parting letter, we find it disheartening to let you go. James On Nov 29, 2011, at 7:44 PM, debanjan choudhuri wrote: To whom it may concern, I am writing