It is probably sensible to download the structure factors and run refmac. I don't really trust the deposited map coefficients eleanor
On 28 April 2015 at 11:08, Takanori Nakane < [email protected]> wrote: > 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 >> >>
