I just change MODEL 0 to MODEL 1 then it works fine. John
On Fri, Aug 27, 2021 at 11:03 AM Schreuder, Herman /DE < herman.schreu...@sanofi.com> wrote: > Dear Nick, > > > > I had just looked at a pdb downloaded from the alphafold server without > problems. However, then I realized that I had looked at the alphafold model > after I had it superimposed on my own structure. Loading the alphafoldmodel > directly in coot failed for me as well. > > > > By looking into the pdb file, I discovered that the alphafold file has a > “MODEL” record just before the coordinates and an “ENDMDL” record after the > coordinates. After deleting these two records, the alphafold pdb loads fine. > > > > Hope this helps, > > Herman > > > > *Von:* CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> *Im Auftrag von *Nicholas > Keep > *Gesendet:* Freitag, 27. August 2021 16:51 > *An:* CCP4BB@JISCMAIL.AC.UK > *Betreff:* Re: [ccp4bb] A "funny" thing related to AlphaFold2 .... > > > > Has anyone made use of an Alpha Fold PDB as opposed to CIF. On the half > dozen or so I have tried to read into CCP4mg or coot the PDB has always > failed but the CIF is fine. I can then write out a PDB if I want. > > I could add to the conspiracy theories that this is EBI trying to > normalise use of CIF format, but I suspect it is something much more > mundane, that should be addressed. > > Best wishes > > Nick > > -- > NOTE NEW PHONE NUMBER JULY 2020 > > I do not work Mondays. For urgent business on a Monday contact Clare > Woodward (Director of Operations) or Gillian Forrester (Deputy Dean) > > Prof Nicholas H. Keep > Executive Dean of School of Science > Professor of Biomolecular Science > Crystallography, Institute for Structural and Molecular Biology, > Department of Biological Sciences > Birkbeck, University of London, > Malet Street, > Bloomsbury > LONDON > WC1E 7HX > > Office G54a > > Dean Email; scid...@bbk.ac.uk > Dept email n.k...@mail.cryst.bbk.ac.uk > Telephone 020-3926-3475 (Will contact me at home if working as well as my > office) > > If you want to access me in person you have to come to the crystallography > entrance > and ring me or the department office from the internal phone by the door > > ######################################################################## > > 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/ > > ------------------------------ > > To unsubscribe from the CCP4BB list, click the following link: > 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/
