[ccp4bb] Postdoctoral Position in the Murray Lab

The Murray Laboratory University of California, Davis Department of Chemistry Postdoctoral Research Opportunity Position Title: Postdoctoral Researcher Location: UC Davis, One Shields Avenue, Davis, California 95616 USA The Murray Laboratory at the University of California, Davis

Re: [ccp4bb] Tutorials for easy structure determinations

Dear Yong, please have a look at this https://www.helmholtz-berlin.de/forschung/oe/ps/macromolecular-crystallography/tutorial/index_en.html You get even the raw data, but also all files in between till the fully refined structure. It covers MR, SAD , . I know it is CCP4 mailing list, but

[ccp4bb] Tutorials for easy structure determinations

Dear all, Do we have tutorials suitable for beginners to follow from Molecular Replacement to model building and refinement, all the way up to water and ligand inclusion? I remember in the old days there were "case studies" that one could download and follow through in Coot/Refmac - I have troubl

[ccp4bb] Ask the Experts | Career paths in cryo-EM | April 20, 2022

Dear All, We'd like to invite you to attend our next upcoming Ask The Experts Series Webinar for all levels of electron microscopists. Career paths in cryo-EM Wednesday, April 20, 2022 | 8 a.m. PDT | 11 a.m. EDT | 5 p.m. CEST Career Paths in Cryo-EM Webinar

[ccp4bb] CCP4 error in job missing

While Running CCP4 7.0. All the jobs get cleared from the main window and project. How will I get back all the job lists? Thanks in advance for suggestions. SMITA To unsubscribe from the CCP4BB list, click the following li

[ccp4bb] Postdoctoral position in structural biology open in Bethesda, MD

A postdoctoral position is available immediately to participate in an inter-disciplinary research program in structural immunology at the laboratory of Dr. Pazgier (https://www.usuhs.edu/node/68252) at Uniformed Services University of the Health Sciences (USU), Bethesda, MD Candidates are expected

Re: [ccp4bb] Add secondary structure definition into an alphafold PDB

Dear Ines, The latest version of DSSP (https://github.com/PDB-REDO/dssp) also annotates the coordinate file in pdb or mmCIF. Note that mmCIF is preferred as you can do a more complete annotation. The latest version of mkdssp will be in CCP4 version 8. Cheers, Robie > -Original Message

Re: [ccp4bb] Add secondary structure definition into an alphafold PDB

Thanks Paul, I´ll give it a try Best Inés > El 7 abr 2022, a las 10:33, Paul Emsley escribió: > > CAUTION: This email originated from outside of the organization. Do not click > links or open attachments unless you recognize the sender and know the > content is safe > > > > On 07/04/2022 09:24,

Re: [ccp4bb] Add secondary structure definition into an alphafold PDB

Harry, you are right! It was the first program that I used but as long as I have seen it gives you the info regarding the amino acids that form those areas but then you have to include this info into your pdb manually. Best Inés > El 7 abr 2022, a las 10:29, Harry Powell - CCP4BB > <193323

Re: [ccp4bb] Add secondary structure definition into an alphafold PDB

On 07/04/2022 09:24, Munoz.Ines wrote: Dear all, Is there any program or server that automatically assign the secondary structure elements into a pdb generated by alpha fold? If you are using Coot, you can use Calculate -> Scripting -> Python add_header_secondary_structure_info(imol) ###

Re: [ccp4bb] Add secondary structure definition into an alphafold PDB

Also, of course, you could get the up-to-date version from - https://swift.cmbi.umcn.nl/gv/dssp/ Harry > On 7 Apr 2022, at 09:29, Harry Powell - CCP4BB > wrote: > > Hi Ines > > DSSP? (In ccp4 as “mkdssp” in $CBIN)? Should work with any (valid??) PDB file > > “Oldie but goodie”... >

Re: [ccp4bb] Add secondary structure definition into an alphafold PDB

Hi Ines DSSP? (In ccp4 as “mkdssp” in $CBIN)? Should work with any (valid??) PDB file “Oldie but goodie”... Harry > On 7 Apr 2022, at 09:24, Munoz.Ines wrote: > > Dear all, > > Is there any program or server that automatically assign the secondary > structure elements into a pdb generated b

[ccp4bb] Add secondary structure definition into an alphafold PDB

Dear all, Is there any program or server that automatically assign the secondary structure elements into a pdb generated by alpha fold? Many thanks Inés Inés G. Muñoz Head of Crystallography and Protein Engineering Unit Spanish National Cancer Research Centre, CNIO imu...@cnio.es