[ccp4bb] does 12 A diffraction worth optimization

2018-03-02 Thread Natalia O
Hello, I got crystals of protein-nucleic acid complex, rod-shape, reproducible, don’t visibly get damaged upon freezing; however they gave diffraction only to about 12 A. I tried several crystals. My question is whether such crystals worth optimization. Clearly a 4A diffracting crystal could

[ccp4bb] building into EM map

2018-01-23 Thread Natalia O
Hello, I am new to building into an EM map, and I wonder if I could get a recommendation for some standard routine for programs to use. I tried "find helixes and strands" tool in phenix, it found some secondary structure elements, however, it seems that there is more that could be done

[ccp4bb] fit multiple structures into SAXS envelope

2016-11-04 Thread Natalia O
Dear All, I have a question regarding SAXS, I collected SAXS data on the protein of interest and I can generate the molecular envelope, I also solved x-ray structures of its domains, and I would like to fit my x-ray structures into SAXS envelope, or alternatively find some program which could

[ccp4bb] building in Coot

2015-04-15 Thread Natalia O
Dear All, Thanks to everybody who answered my previous question about heavy atoms! I got it now. I have some more questions now. 1) I built a loop in Coot, right now it is a separate molecule. I also know that it is possible to merge molecules, but if I do so, I’ll get my loop connected to my

[ccp4bb] Phenix: heavy atoms

2015-04-14 Thread Natalia O
Dear All, I am new to the crystallography and I am seeking for an advice considering data processing. I have a dataset with 2.8 A resolution. I used hybrid substructure search program in phenix, I got the heavy atom sites (selenium), and then I submitted the site to the autosol. With autosol

[ccp4bb] Role of protein dimerization

2015-04-08 Thread Natalia O
Dear All, I have a question that is a little bit related to the previous discussion about crystallisation of a minority fraction monomers. I wonder if there is a review of some sort (or anything in principle) that would discuss role of dimerization (or more broadly oligomerization) in proteins