getpdb Command Help

Command: $SCHRODINGER/utilities/getpdb

Usage: getpdb    getpdb_utility.py

    Copy a PDB file out of the PDB directory, or, if not found, download it from the
    RCSB repository.

    usage: getpdb [options] <PDB code>[<:Chain ID>] [<PDB code>[<:Chain ID>] ...]

           <PDB code> is the PDB code for the desired file

           <:Chain ID> is the Chain for which to extract the TITLE, ATOM, HETATM,
           MODEL, ENDMDL and TER records.  Use the word 'space' (without quotes) to
           indicate chains whose name is the space character.

            Examples:
            getpdb 1xyz
                retrieves the PDB file for the structure with PDB code 1xyz
            getpdb 1xyz:A
                retrieves the PDB file for the structure with PDB code 1xyz
                and extracts TITLE, ATOM, HETATM, MODEL, ENDMDL and TER records
                for Chain A

            getpdb 1xyz:space
                retrieves the PDB file for the structure with PDB code 1xyz
                and extracts TITLE, ATOM, HETATM, MODEL, ENDMDL and TER records
                for Chain " "

            getpdb 1xyz 1e6o:L
                retrieves the PDB file for the structure with PDB code 1xyz
                Also retrieves the PDB file for the structure with PDB code 1e6o
                and extracts TITLE, ATOM, HETATM, MODEL, ENDMDL and TER records
                for Chain L

    

Options:
  -v, -version    Show the program's version and exit.
  -h, -help       Show this help message and exit.
  -b              Download the complete biological unit for each PDB code.
                  This option forces -r, and will ignore Chain IDs.
  -l              Only search the local directory for PDB files, do not
                  retrieve from the web. (def. use local and web)
  -r              Only retrieve PDB files from the RCSB respository, do not
                  search local directories. (def. use local and web)
  -d              Print debugging output. (def. do not print)
  -verbose        Print verbose debugging output. (def. do not print)
  -fasta          Obsolete. Use the -format option instead
  -format FORMAT  Download file in specified format. Available options:
                  pdb|cif|xml|sf|fasta. Single chain download is only
                  available for pdb format.