Re: [ccp4bb] TEV Protease in low reducing agent?

2019-02-13 Thread Chun Luo
Hi Nicola, Our TurboTEV (http://accelagen.com/TurboTEV-datasheet.htm) is very stable and does not need additional reducing agent for its activity. The storage buffer has 1 mM TCEP. It'll be likely <0.1 mM in your digestion. You can get it from our European distributors or directly from Accealge

[ccp4bb] Re : [ccp4bb] Can anyone run refmac from the WINDOWS command prompt?

2019-02-13 Thread Philippe BENAS
Hi Kevin, Since CCP4 v.7 there is an issue with the term Windows. I was used to run any CCP4 program from anywhere on my disks with v. 6.x but with v.7x you have to move every needed fiies to C:\CCP4\ccp4-7.0 (or something like this): Indeed where the shortcut of the CCP4 consol is located. So

Re: [ccp4bb] TEV Protease in low reducing agent?

2019-02-13 Thread Zhijie Li
Hi Nicola, 0.1-1mM Cysteine, GSH or BME will work fine. You can also try using very fresh TEV without reducing reagent (or store it with BME and remove the reducing reagent by some column just before use). Depending on how concentrated the stock is, diluting it 3-5x could also sufficiently red

Re: [ccp4bb] TEV Protease in low reducing agent?

2019-02-13 Thread Bonsor, Daniel
You can use a redox system which should maintain disulfide bonds, but still offer enough reduction to give TEV active. Use 3mM reduced glutathione/0.3mM oxidized glutathione. Add the protein to TEV so the DTT is rapidly diluted. We started to make our own when it rapidly became used my nearly e

[ccp4bb] TEV Protease in low reducing agent?

2019-02-13 Thread Nicola Evans
I am interested in purifying proteins with 1 or 2 disulphide bonds, and have been using enterokinase to cleave off N-terminal tags but we have had issues with poor cleavage and want to try TEV cleavage instead. However TEV protease is usually kept in a high amount of DTT and I am concerned about

[ccp4bb] postdoc position

2019-02-13 Thread Alexandra Deaconescu
Dear ccp4bb enthusiasts, Please help spread the word about the postdoc position described below. Thank you, Alexandra *POSTDOCTORAL POSITION* *at Brown University, USA* The Deaconescu Lab at Brown University has one opening for a postdoctoral researcher. The laboratory's interests lie prim

Re: [ccp4bb] AW: [EXTERNAL] [ccp4bb] refmac same residue different names

2019-02-13 Thread Clemens Vonrhein
Dear Herman, On Thu, Feb 07, 2019 at 10:26:09AM +, Herman Schreuder wrote: > I did understand your question correctly and (at least for ligands) > the procedure I and also Diana Tomchick described, worked. However, > I just did a test with both Refmac and Buster and it seems that > these progr

Re: [ccp4bb] 2019 mid-range & high-end LINUX laptops for structural biology

2019-02-13 Thread Jon Agirre
Dear Domen, I bought a Lenovo Thinkpad p72 for both MX and cryoEM work last year and I am generally happy. The Xeon CPUs do get hot from time to time when governor is set to performance, but the thing is well ventilated and not too noisy. The Quadro GPU I have is, performance-wise, equivalent to

Re: [ccp4bb] 2019 mid-range & high-end LINUX laptops for structural biology

2019-02-13 Thread Tristan Croll
I've been really happy with the performance of my laptop (a 2016-era Asus ROG Strix GL502vs) for MD work. It's a gaming model (GTX 1070 rather than Quadro, and an i7 CPU), but it's solid and seriously powerful. I dual-boot Fedora and Windows (I initially tried with Ubuntu, but its setup crashed

[ccp4bb] 2019 mid-range & high-end LINUX laptops for structural biology

2019-02-13 Thread Domen Zafred
Dear CCP4 community, My 8-year-old Dell Inspiron with Ubuntu 10 is waving goodbye and I would ask for some help on this bulletin as buying/setting up a new workstation is common trouble in our community. Has anyone recently set up a laptop for structural work with all the MD, docking, etc. *in sil

[ccp4bb] Can anyone run refmac from the WINDOWS command prompt?

2019-02-13 Thread Kevin Cowtan
Hi! Can anyone run refmac from the WINDOWS command prompt? I've been experimenting with various combinations of environment variables, but I always get an error. The one instance of this error on google is an unanswered CCP4BB question. Dictionary path has not been defined Check the environment v

[ccp4bb] CCP-EM Madrid and Icknield High Resolution EM Model Building & Validation Workshops

2019-02-13 Thread Tom Burnley - UKRI STFC
Dear all, There are still some places left for our two model building workshops. Please note deadline for applications is tomorrow (14th Feb). (1) Introduction to model building and refinement using cryo-EM maps. 14-15 March CNIO, Madrid Introduction to atomic model building using EM data. Th