Hi, Stefano, Thanks. I use Pymol 2.4. I figured out that if I downloaded the PDB (5L93) RCSB website (biological assembly 1 PDB file), Pymol would show each state of the structure (3 chains) individually, if I execute the "set all_states, on" command, I can see the assembly.
Best, Xiao On Fri, May 21, 2021 at 9:07 AM Stefano Trapani <[email protected]> wrote: > Le 2021-05-21 13:54, Xiao Lei a écrit : > > Thank you for your help. It seems the problem is due to the Pymol program. > > Hi Xiao > which version of PyMOL are you using ? > > > I could only see 3 chains in Pymol from the assembly PDB downloaded from > the RCSB website (biological assembly 1 PDB file). > > There is no *PDB* file for biological assembly 1 of that entry on the > RCSB site. There is, instead, a *pdbx/mmCIF* file for the assembly ( > https://www.ebi.ac.uk/pdbe/static/entry/download/5l93-assembly-1.cif.gz). > > The assembly file is correctly displayed in PyMOL (at least the version I > use : 2.2.0 Open-Source). > > Another way of displaying assemblies in PyMOL is: > > *set assembly, 1* > *fetch 5l93* > > Best regards > > --- > Stefano Trapani > > Maître de > Conférenceshttp://www.cbs.cnrs.fr/index.php/fr/personnel?PERS=Stefano%20Trapani > ------------------------------------- > Centre de Biologie Structurale (CBS) > 29 rue de Navacelles > 34090 MONTPELLIER Cedex, France > > Tel : +33 (0)4 67 41 77 29 > Fax : +33 (0)4 67 41 79 13 > ------------------------------------- > Université de Montpellier > CNRS UMR 5048 > INSERM UMR 1054 > ------------------------------------- > > > -- > This message has been scanned for viruses and > dangerous content by *MailScanner* <http://www.mailscanner.info/>, and is > believed to be clean. > ######################################################################## 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/
