Re: [ccp4bb] unknown density in structure

2007-07-26 Thread Artem Evdokimov
Oxalate. Sometimes forms when PEGs get old and begin to oxidize. That's some of the stuff that is responsible for PEG's becoming progressively more acidic as they age. No idea if you have PEG in solution or not. Alternative - CH3-C(=O)-COOH Disordered dimethyl formamide Dimethyl acetamide

Re: [ccp4bb] native PAGE for duplex DNA purification

2007-07-23 Thread Artem Evdokimov
If you're worried about UV all you need to do is to run multiple lanes of the same stuff, shield all but one with some sort of UV-opaque material (many kinds of plastics work very well), and cut the shielded lanes based on what you see on the illuminated lane. In a properly cast gel, all the lanes

Re: [ccp4bb] Stereo grpahics and Virtual Reality

2007-06-21 Thread Artem Evdokimov
And obviously, each crystallography lab should invest in a Wii station with a full complement of games - for training purposes. Artem -Original Message- From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of Stephen Graham Sent: Thursday, June 21, 2007 10:46 AM To:

Re: [ccp4bb] protein or salt?

2007-04-18 Thread Artem Evdokimov
Hi, In my opinion this is clearly a twinned crystal of some sort of a small molecule. If you have a small ice crystal on top of a completely non-diffractive protein crystal, sometimes the pattern may also look like this - but I would bet this is just 'salt'. Artem _ From: CCP4

Re: [ccp4bb] effect of high salt on protein

2007-04-07 Thread Artem Evdokimov
You have to judge using some sort of a biochemical or biophysical method. Yes, protein can be functionally/structurally impaired and yet still soluble - however there is very little reason to suspect this due to salt exposure - unless you have hard evidence. I have worked with several proteins

Re: [ccp4bb] (bigger) fragment identification of limited proteolysis w/ mass-spec

2007-03-31 Thread Artem Evdokimov
Dear Yong, There are several MS-specific programs that I know of but they're not in the public domain. I have a couple of crude PERL scripts for this and an Excel application written by a former colleague. These are too crude to send out, but I would be happy to run your sequences and masses

Re: [ccp4bb] Multiple nucleation

2007-03-29 Thread Artem Evdokimov
What often works for this scenario: Change temperature. Try 21, 15, and 4C. Add glycerol or ethylene glycol - set a screen with your condition as basis, and % EG/glycerol across - from 1% to 15% in suitable increments Find additives that produce no crystals, set up tray(s) with those, then

Re: [ccp4bb] Expression hosts (was:Inclusion body)

2007-03-24 Thread Artem Evdokimov
Hi Dima, Can anyone comment on availability of Archaea expression systems? Based on available structures, it would appear that their chaperons are much more similar to eukaryotic one than anything present in eubacteria. For a long time, I've been puzzling over why there is still no

Re: [ccp4bb] Inclusion body

2007-03-23 Thread Artem Evdokimov
Weijun, There are literally hundreds of options you can pursue - obviously a comprehensive and detailed list of suggestions would not fit in a little email (in fact they don't all fit into a one-volume book). It would be helpful to narrow things down a bit - for starters, for one or two cases

Re: [ccp4bb] AKTA prime

2007-02-15 Thread Artem Evdokimov
It’s much better to refer to your machinery by its first name – they work better that way. My AKTA machines always had Teutonic names: Helga, Brunhilde, Gertrude, just to name the last three. Artem _ From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of Derek Logan

<    1   2   3   4   5