Hello Johan and Natesh, There is more info about the terminology in this article: https://doi.org/10.1038/s41586-024-07215-4 In brief, yes, "Coulomb potential map" or "electrostatic potential map" is most correct (as far as I remember). But "cryoEM map" is widely accepted as a shortcut, and is seen everywhere in the literature.
Cheers, Guillaume On 28 Nov 2024, at 03:20, Johan Hattne <[email protected]<mailto:[email protected]>> wrote: Hi Natesh; I don't know that "density" is necessarily inappropriate: the map gives potential for each voxel, so potential per volume. I'd think that's a density. Unsure about "cryoEM density" though, but this may be a matter of how the phrase is delineated. I often look at green (and red) density maps in Coot, but that's probably not a representation of "green density". // Apologies for going off-topic; Johan On 2024-11-27 11:16, Natesh Ramanathan wrote: Dear Gloria, Already the wonderful chimera, phenix and ccpEM and other excellent softwares have been highlighted for your requirements. Along with that, I would like to suggest a small correction. It is not correct to say 'cryoEM density' or 'cryoEM density map'. X-ray Crystallography gives 'electron density map' and cryoEM gives 'electron potential map' (Also known as electrostatic potential maps or Coulomb potential maps). Best regards, Natesh On Wed, 27 Nov 2024 at 05:20, Gloria Borgstahl <[email protected]<mailto:[email protected]> <mailto:[email protected]>> wrote: Hello Friends, We are finally using cryoEM when the crystallography got too hard! We have a crystal structure for the hexamer. What is the easiest software tool to swing a monomer or hexamer into the cryoEM density? Thank you, Gloria ------------------------------------------------------------------------ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 <https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1> -- ---------------------------------------------------------- "Live Simply and do Serious Things .. " - Dorothy Mary Crowfoot Hodgkin OM, FRS "In Science truth always wins" - Max Ferdinand Perutz OM FRS ---------------------------------------------------------- Dr. Ramanathan Natesh Associate Professor, School of Biology and Center for High-Performance Computing (CHPC), Founding and Current President of Cryo Electron Microscopy and 3 Dimensional Image Processing Society of India (CEM3DIPSI), Indian Institute of Science Education and Research Thiruvananthapuram (IISER-TVM), Maruthamala P.O., Vithura, Thiruvananthapuram, 695551, Kerala, India [email protected]<mailto:[email protected]> <mailto:[email protected]> http://faculty.iisertvm.ac.in/natesh <http://faculty.iisertvm.ac.in/natesh> *Researcher ID*: http://www.researcherid.com/rid/C-4488-2008 <http:// www.researcherid.com/rid/C-4488-2008<http://www.researcherid.com/rid/C-4488-2008>> *ORCID*: http://orcid.org/0000-0002-1145-5962 <http:// orcid.org/0000-0002-1145-5962<http://orcid.org/0000-0002-1145-5962>> Vidwan-ID : 94134: http://iisertvm.irins.org/profile/94134 <http:// iisertvm.irins.org/profile/94134<http://iisertvm.irins.org/profile/94134>> *PUBLONS*: https://publons.com/author/1520837/ramanathan-natesh#profile <https://publons.com/author/1520837/ramanathan-natesh#profile> Office Ph. 0091- 471-2778087 ------------------------------------------------------------------------ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 <https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1> ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/ VARNING: Klicka inte på länkar och öppna inte bilagor om du inte känner igen avsändaren och vet att innehållet är säkert. CAUTION: Do not click on links or open attachments unless you recognise the sender and know the content is safe. När du har kontakt med oss på Uppsala universitet med e-post så innebär det att vi behandlar dina personuppgifter. För att läsa mer om hur vi gör det kan du läsa här: http://www.uu.se/om-uu/dataskydd-personuppgifter/ E-mailing Uppsala University means that we will process your personal data. For more information on how this is performed, please read here: http://www.uu.se/en/about-uu/data-protection-policy ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
