Re: [ccp4bb] finicky protein

2008-03-03 Thread James Stroud
Try refolding before purification. On Mar 2, 2008, at 11:47 PM, Tim Gruene wrote: Hi all sorry, for offtopic query... I am trying to purify my protein by Ni-NTA affinity chromatography. After sonication as i centrifuge bacterial lysate, soon after 10 min whole lysates get precipitated

[ccp4bb] REMINDER: Job opportunities- Helmholtz Department of Structural Biology, DESY Hamburg.

2008-03-03 Thread Christine Bentz
Dear colleagues, we are writing to remind you that 6 March 2008 is the closing date for applications for the following job opportunities. The German Helmholtz Association, together with the University of Hamburg, is creating a new department of Structural Biology at the German Electron

Re: [ccp4bb] finicky protein

2008-03-03 Thread Brenda Patterson
Did you filter your lysate through .45 then .22 filters? cheers b Quoting James Stroud [EMAIL PROTECTED]: Try refolding before purification. On Mar 2, 2008, at 11:47 PM, Tim Gruene wrote: Hi all sorry, for offtopic query... I am trying to purify my protein by Ni-NTA affinity

[ccp4bb] new versions of Mosflm (7.0.3) and iMosflm (0.6.1)

2008-03-03 Thread Harry Powell
Hi folks We are pleased to announce the release of Mosflm version 7.0.3 and iMosflm 0.6.1. These are bug-fix releases for versions 7.0.2 and 0.6.0, which affect the following detectors and circumstances only. If your detector is not listed, it isn't affected, so you shouldn't need to update

Re: [ccp4bb] finicky protein / cell disruption

2008-03-03 Thread Thomas Earnest
I will second this recommendation to use alternate cell disruption methods instead of sonication. Particularly with multi-protein complexes, where the preservation of the complex from disruption though crystallization is important, sonication can be quite deleterious. Even with the French

[ccp4bb] protein degraded when setting xtal?

2008-03-03 Thread Ngo Duc Tri
Dear CCP4 experts, I'm working on a kind of cystein peptidase. It shows a little degradation after 2 days storing at 4 degree even I tried many kinds of protease inhibitors, or glycerol and DTT. So I decided to work fast (1 day) then set xtal. After one week I pick up some condition and check

[ccp4bb] radiation damage question

2008-03-03 Thread Patrick Loll
Hi all, I had an interesting experience, and wonder if others have seen similar things. I was collecting data from a crystal that contains an iodinated macromolecule. After 2 days on a copper rotating anode, with the crystal at 100 K, we experienced a detector problem, so I put the

Re: [ccp4bb] protein degraded when setting xtal?

2008-03-03 Thread Roger Rowlett
Ngo Duc Tri wrote: Dear CCP4 experts, I'm working on a kind of cystein peptidase. It shows a little degradation after 2 days storing at 4 degree even I tried many kinds of protease inhibitors, or glycerol and DTT. So I decided to work fast (1 day) then set xtal. After one week I pick up some

Re: [ccp4bb] protein degraded when setting xtal?

2008-03-03 Thread Kevin Jude
If your protein is autolyzing, you may need to crystallize it in the presence of an inhibitor. In the case of trypsin, I have crystallized in the presence of benzamidine, then removed the inhibitor by dialysis after crystallization. kmj Ngo Duc Tri wrote: Dear CCP4 experts, I'm working on

Re: [ccp4bb] radiation damage question

2008-03-03 Thread Philippe DUMAS
Yes indeed ! H2 is one product of H2O radiolysis by recombination of two H radicals. Whether or not the cleavage of iodine (quite efficient under X-rays) is a factor increasing H2 production, I don't know. Philippe Dumas IBMC-CNRS, UPR9002 15, rue Rene Descartes 67084 Strasbourg cedex tel: +33

[ccp4bb] Positions available in Australia

2008-03-03 Thread Margaret Bills
RESEARCH POSITION IN THE ROSSJOHN LABORATORY http://www.med.monash.edu.au/biochem/staff/rossjohn-lab.html The protein crystallography unit at Monash University, headed by Prof Jamie Rossjohn, ARC Federation Fellow, seeks two talented scientists to join his group. One position to work in

Re: [ccp4bb] Crosslinking reagents

2008-03-03 Thread Nian Huang
I used glutaraldehyde vapor by placing crystal drop above a bridge with 15% glutaradehyde for various amount of time. It worked for me for many crystals, but not for the one that I am trying now. The crystal didn't diffract any more. I intended to make the crystal tougher for heavy metal soaking.

[ccp4bb] HIC-Update: Release 12.1 @ 2008-03-03 == 7,870 compounds

2008-03-03 Thread Gerard DVD Kleywegt
Dear structural(-ly interested) biologist ! HIC-Up, the Hetero-compound Information Centre - Uppsala, has been updated and now contains information on 7,870 hetero-entities. This is the first HIC-Up version after the release of the remediated PDB. A few changes had to be made to the

[ccp4bb] Copper Staining

2008-03-03 Thread Jacob Keller
Dear Crystallographers: just to share something I found out recently, that is really helpful to know: 5 min Copper Stain protocol Normal SDS-PAGE gels can be stained in 5 min with 300mM CuCl2. Simply remove the gel, rinse ~10s in water, place 5 min in CuCl2, and the gel is negatively

Re: [ccp4bb] Copper Staining

2008-03-03 Thread Rebecca Phillips
One down side is that copper sulfate is toxic to fish and plants. Please be good to the environment and do not pour copper sulfate solutions down the drain. We normally precipitate with NaOH, filter, and put the precipitated copper in an appropriate waste. -Original Message- From:

Re: [ccp4bb] Copper Staining

2008-03-03 Thread Artem Evdokimov
There's an even faster reagent for staining - takes abut 1 minute overall and the results look just like dear old Coomassie. This reagent works wonderfully for us. Yes, the recipe is proprietary - but if you add up the cost of reagents for normal Coomassie and compare - this one isn't much more

Re: [ccp4bb] Copper Staining

2008-03-03 Thread Jacob Keller
Touche' Jacob *** Jacob Pearson Keller Northwestern University Medical Scientist Training Program Dallos Laboratory F. Searle 1-240 2240 Campus Drive Evanston IL 60208 lab: 847.491.2438 cel: 773.608.9185 email: [EMAIL PROTECTED]

Re: [ccp4bb] Copper Staining

2008-03-03 Thread Dima Klenchin
There's an even faster reagent for staining - takes abut 1 minute overall and the results look just like dear old Coomassie. This reagent works wonderfully for us. Yes, the recipe is proprietary - but if you add up the cost of reagents for normal Coomassie and compare - this one isn't much more

[ccp4bb] superimpose two maps

2008-03-03 Thread Yanming Zhang
Hello, I did the replacement soaking and it was successful. Now I want to superimpose the two maps to show (I hate to show off but I have to) the map diffrence of the ligand region to demonstrate that the replacement soaking was a success. Is there a way to superimpose the two maps? The

Re: [ccp4bb] superimpose two maps

2008-03-03 Thread Paul Emsley
Yanming Zhang wrote: Hello, I did the replacement soaking and it was successful. Now I want to superimpose the two maps to show (I hate to show off but I have to) the map diffrence of the ligand region to demonstrate that the replacement soaking was a success. Is there a way to superimpose