Dear Andrew, This is not very CCP4-way, but you can use:
phenix.fetch_pdb --maps 4wz7 It took about 10 minutes on my PC. Best regards, Takanori Nakane On 2015年04月28日 18:35, Andrew Leslie wrote:
I am trying to get coordinates and maps into COOT for a PDB entry that is only in mmcif format. If I select any of the "Fetch PDB …" options in COOT, I get the following error message: DEBUG:: in get-url-str: "4wz7" "http://www.ebi.ac.uk/pdbe-srv/view/files/4wz7.ent"; pdb (handle-read-draw-molecule-with-recentre "coot-download/4wz7.pdb.ent" 0) Reading coordinate file: coot-download/4wz7.pdb.ent There was an error reading coot-download/4wz7.pdb.ent. ERROR 20 READ: Attempt to read unknown-type file. No Spacegroup found for this PDB file There was a coordinates read error PDB Accession Code: 4wz7 If I download the mmcif PDB file and read it into COOT using the "Open coordinates" option then this works OK, so I can get the coordinates but I cannot get the density map. If I go direct to the EDS server (http://eds.bmc.uu.se/eds/) and put in the PDB code I get the error message "Sorry, there is no structure factor entry for 4wz7". Does anyone know an easy way around this to get the maps into COOT, or do I just have to download the mmcif structure factor file and use a program (e.g. refmac) to calculate the map coefficients ? I am using COOT version 0.8.1 EL (ccp4). Thanks, Andrew
