[ccp4bb] Pisa application

Dear ccp4ers I just wonder whether anybody knows if the PISA software could be used/modified to detect potential interfaces of interaction of different proteins? This would be very useful as a tool to validate protein-protein interactions detected by in vivo methods such as yeast 2 hybrid scree

Re: [ccp4bb] refining large region with multiple conformers

Hi, ~1/3 of a chain that show substantial difference suggests a possibility that may deserve a check---the symmetry is actually lower and the 2 conformations belong to two occ=1 mols (unless the SG is already P1). I had a case that the apo SG was P1 and ligand-bound (soaked) SG was P1 t

Re: [ccp4bb] balbes solution

Hi Faisal, The solutions from BALBES have already gone through multiple rounds of refinement which minimize the R/Rfree. If you make a number of drastic changes to side chains or add waters, the R/Rfree should go down. However if the structure fits the density well (with no side chains needin

[ccp4bb] balbes solution

Dear all i submitted one job in BALBES at YSBL server. The final outcome are showing the result to be definite solution by stating it to be a 99%solution. but when i am refining with refmac, Rwork and Rfree is not coming down despite my several tries. In COOT i can see tye missing density for lo

Re: [ccp4bb] refining large region with multiple conformers

You have to build the model you actually believe matches what is in the crystal. Do you believe that each amino acid is occupying two conformations independent of its neighbors? I wouldn't go that way. I would start with an apo conformation, labeled with 'g', and a holo conformation including

Re: [ccp4bb] SCALA bugs in CCP4 6.3.0?

Dear David, As suggested I have reinstalled Windows CCP4 6.2.0, but the problem of the missing information in the SCALA summary table was not abolished. In fact, it occurred in AIMLESS as well! I had done the original data processing in iMOSFLM 1.0.7, followed by a run of REINDEX to set the sp

Re: [ccp4bb] dumb software question

7-Aug-2012 20:30 Dear Paul, Pls see "Virtual nanoscopy: Like 'Google Earth' for cell biologists" http://www.rdmag.com/News/2012/08/Life-Science-Biology-Microscopy-Virtual-nanoscop-Like-Google-Earth-for-cell-biologists/?et_cid=2784615&et_rid=54732139&linkid=http%3a%2f%2fwww.rdmag.com%2fNews%2f2012%2

Re: [ccp4bb] dumb software question

You mean "cell" in terms of a living cell, not a unit cell, right? JPK On Tue, Aug 7, 2012 at 10:24 AM, Paul Kraft wrote: > > Hi guys, > is there a program similar to ccp4/coot that allows one to visuallize an > ideal cell (either prokaryote or eukaryote) in 3D with semi accurate > distances. O

Re: [ccp4bb] dumb software question

http://www.cgl.ucsf.edu/chimera/ ? Jürgen On Aug 7, 2012, at 11:24 AM, Paul Kraft wrote: Hi guys, is there a program similar to ccp4/coot that allows one to visuallize an ideal cell (either prokaryote or eukaryote) in 3D with semi accurate distances. One that is windows based (as much as I de

[ccp4bb] dumb software question

Hi guys, is there a program similar to ccp4/coot that allows one to visuallize an ideal cell (either prokaryote or eukaryote) in 3D with semi accurate distances. One that is windows based (as much as I detest) that would be good for teaching biochem 380 students emphasising distance, diffusion,

[ccp4bb] joint EMBL-CCP4 training course in macromolecular crystallography

We would like to announce a joint EMBL-CCP4 training course "European School for Macromolecular Crystallography (ESMAX)", which will build upon the traditions of the forefront of training in structural biology – the M2M workshops and the CCP4 crystallography schools. The first ESMAX-2012 course

Re: [ccp4bb] not strictly crystallography-related (summary)

Dear all, thanks for the many answers sent privately or posted to CCP4BB! I cannot answer them all individually, and I also cannot answer the questions that some people asked, since I have not yet heard back from my colleague whose experiment that is. But I'm sure there are some options for him

Re: [ccp4bb] column profile

Note that gel filtration columns need to be calibrated separately for different buffer. S100 is a preparative column not quite intended for molecular weight determination, but if that is what you are doing, it's important to do your own calibration. On 08/07/2012 03:20 AM, MT wrote: Have a l

[ccp4bb] BBSRC-CASE PhD studentship (UK residents only)

Dear colleagues, The position below does not strictly relate to structural biology, but it involves a good amount of protein engineering and biophysical analysis. Candidates with a background in protein biochemistry are particularly welcome to apply. -- 4 Year BBSRC CASE PhD Studentship -

[ccp4bb] Knauer Bioline chromatography system

Dear all, Has anyone used the Knauer bioline chromatography system? Can you please share your experience? Thanks in advance Regards Subhash C Bihani

[ccp4bb] Postdoc positions in X-ray crystallography or electron microscopy at Imperial College London

Research Associate: London, United Kingdom Imperial College London Salary: £32,100 - £40,720 per annum We are seeking two Research Associates to work in the research group of Professor Xiaodong Zhang (www.msf.bio.ac.uk) in the Centre for Structural Biology, at the South

Re: [ccp4bb] column profile

Have a look at this pdf. Regards. https://www.gelifesciences.com/gehcls_images/GELS/Related%20Content/Files/1314750913712/litdoc28407384AA_20110831032125.pdf Le 6 août 2012 à 10:23, sajid akthar a écrit : > Hi all > > If anyone have, please post the calibration profile for GE Sephacryl S100