[ccp4bb] postdoc position available in the lab of Prof. Eddy Arnold (Rutgers University, NJ, USA)

2022-07-11 Thread F. Xavier Ruiz
Dear All, We have an immediate opening for a skilled post-doctoral researcher in the laboratory of Prof. Eddy Arnold at Rutgers University (NJ, USA). The aim of the project is to study the structure and function of human viral proteins (and polyproteins), including from polymerases from HIV-1, S

Re: [ccp4bb] problems in Rfree-flags when refining with REFMAC and processing with STARANISO

2022-07-11 Thread Clemens Vonrhein
Hi Vera, On Mon, Jul 11, 2022 at 04:51:32PM +0200, Vera Pfanzagl wrote: > I am trying to get a structure with a bit of a history in terms of > programs I have used into a deposit-able form. Yeah ... real-life never follows the nicely linear steps of the methods section ;-) > However I have massi

Re: [ccp4bb] problems in Rfree-flags when refining with REFMAC and processing with STARANISO

2022-07-11 Thread Clemens Vonrhein
Dear all, On Mon, Jul 11, 2022 at 03:12:02PM +, Carrapa Nunes Dias, Joao Miguel wrote: > I had a similar case and I solved it using the PDB tool pdb_extract from: > https://pdb-extract.wwpdb.org/ > PDB Extract is a pre-deposition service for assembling structure files for > wwPDB OneDep depos

[ccp4bb] career opportunity in membrane protein structural biology at Genentech

2022-07-11 Thread Yoana Dimitrova (DIMITRY4)
Dear colleagues, The department of Structural Biology at Genentech has a new opening for a Senior Scientist (on our group/lab head track) within its Membrane Protein group. We are looking for a creative and driven Senior Scientist to support cutting edge membrane protein research and drug discove

Re: [ccp4bb] [EXTERNAL] [ccp4bb] problems in Rfree-flags when refining with REFMAC and processing with STARANISO

2022-07-11 Thread Vera Pfanzagl
Hello Joao, Thank you for your suggestion. Unfortunately i still seem to have a problem in the mtz file itself, from pdb-extract I get the following error message data_info _sf_convert.error ; Warning: (data block=1): all status (80493) are assigned as 'x' (changed! 'x'->'o') Error: File (xx

Re: [ccp4bb] [EXTERNAL] [ccp4bb] problems in Rfree-flags when refining with REFMAC and processing with STARANISO

2022-07-11 Thread Carrapa Nunes Dias, Joao Miguel
Vera, I had a similar case and I solved it using the PDB tool pdb_extract from: https://pdb-extract.wwpdb.org/ PDB Extract is a pre-deposition service for assembling structure files for wwPDB OneDep deposition . You have a pdb and you have a mtz file, then you should be able to convert them to t

[ccp4bb] problems in Rfree-flags when refining with REFMAC and processing with STARANISO

2022-07-11 Thread Vera Pfanzagl
Hello, I am trying to get a structure with a bit of a history in terms of programs I have used into a deposit-able form. However I have massif problems with the mtz labels, specifically the Rfree flags and cannot figure out where my problem is derived from. Specifically I have collected

[ccp4bb] Post-doctoral positions available using X-ray crystallography, Cryo-EM and NMR to study signaling complexes

2022-07-11 Thread Page,Rebecca
Post-doctoral positions for the study of signaling complexes using X-ray crystallography, Cryo-EM and NMR. The Page Laboratory at the University of Connecticut Health Center has an immediate opening for up to two post-doctoral candidates to study eukaryotic signaling enzymes, with a focus on t

Re: [ccp4bb] Phenix.refine sequence check equivalent in CCP4?

2022-07-11 Thread Paul Emsley
On 11/07/2022 12:36, Colin Levy wrote: Hi All, Is there an equivalent functionality to Phenix.refine Sequence check in CCP4?  A quick alignment tool of model sequence from pdb to the provided sequence? It seems to me there are a number of ways that one can check a model (and map) against