[ccp4bb] Postdoctoral Training Fellowship at the Francis Crick Institute - Costa lab

dear all, a new postdoctoral position is available at the Francis Crick Institute in London. Our group (Est. 2012) works on the mechanism of eukaryotic chromosome replication. We are looking for an enthusiastic researcher interested in how molecular machines function. The perfect candidat

Re: [ccp4bb] Help with assigning density

Is that positive density lying at the symmetry axis ? please check, if yes then probably you have to model the appropriate compound with appropriate occupancy. Best Prem On Fri, Jan 26, 2018 at 11:10 PM, Vivoli, Mirella wrote: > Hi Tristan! > Definitely PEG, in the so called horseshoe shape.

Re: [ccp4bb] Help with assigning density

Hi Tristan! Definitely PEG, in the so called horseshoe shape. Cheers, Mirella Get Outlook for Android From: CCP4 bulletin board on behalf of Tristan Croll Sent: Friday, January 26, 2018 6:09:01 PM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [c

Re: [ccp4bb] Help with assigning density

Yes it can. See 5x49 (residue 603) for a wonderful example. On 2018-01-26 16:46, Michal Boniecki wrote: I have positive density around lysine residue (image). This density is found in all crystals, and only with this lysine. It is solvent accessible but again not only this one is surface K resid

[ccp4bb] Vacancy for a Science Technician in Protein Crystallography and Biophysical Analysis at JIC, Norwich, UK

Dear All, I would like to draw your attention to an open position for a science technician supporting the protein crystallography and biophysical analysis facilities at the John Innes Centre in Norwich, UK. Details about the position (deadline for application: 16 Feb 2018) can be found here: htt

Re: [ccp4bb] Modelling protein/protein interfaces

I have also heard about Frodock. The primary reference: J. I. Garzon, J. R. Lopéz-Blanco, C. Pons, J. Kovacs, R. Abagyan, J. Fernandez-Recio, P. Chacón (2009) FRODOCK: a new approach for fast rotational protein-protein docking Bioinformatics, 25, 2544-2551 If you go to the webpage (http://chac

Re: [ccp4bb] Modelling protein/protein interfaces

I've been quite impressed by ClusPro (https://cluspro.bu.edu) in the past. Rather than pure rigid-body docking it makes some (pretty good) effort to adjust interacting sidechains into reasonable arrangements. The advanced options also allow you to specify attractions and repulsions between spec

Re: [ccp4bb] Issues with latest XDS (20171218)

Dear Keitaro, I have come to the exact same conclusions, and the next version of XDS will revert to the old refinement behavior. As a preview, I've uploaded a fixed Linux binary (not the whole package, just xds_par) to ftp://turn5.biologie.uni-konstanz.de/pub/xds/xds_par.refi_cell_position_t

Re: [ccp4bb] Modelling protein/protein interfaces

haddock may be an appropriate tool https://haddock.science.uu.nl/ On 26/1/2018 8:34 PM, Thomas Krey wrote: Dear colleagues, Is there any appropriate tool for docking an interacting protein to a relatively large protein-protein interface (>2500 A2). We are facing a hetero-oligomer for whic

[ccp4bb] Modelling protein/protein interfaces

Dear colleagues, Is there any appropriate tool for docking an interacting protein to a relatively large protein-protein interface (>2500 A2). We are facing a hetero-oligomer for which we approximately know the interfaces as well as the structures of the individual protomers and would like to mo

[ccp4bb] Post doctoral position in structure-based hit discovery for antibiotic targets (Bergen, Norway)

Hi, I have an open position in my group at the University of Bergen (Norway) for structure-based hit discovery for targets for antibiotics. I am looking for somebody with experience in at least one of the following areas: X-ray crystallography of macromolecules Assay development using surfa

Re: [ccp4bb] Issues with latest XDS (20171218)

Dear Kay, I also tested this using a publicly available data of thaumatin https://zenodo.org/record/10271 (resolution ~1.4 Å, wavelength= 0.97625 Å). The camera distance from header is 265.27 mm. I tested this original distance and some shifts (+1, +2, +4, ..., +32 mm) with different versions of X