NAME

       plipcmd - Protein-Ligand Interaction Profiler (PLIP)

DESCRIPTION

       usage: PLIP [-h] (-f INPUT [INPUT ...] | -i PDBID [PDBID ...]) [-o OUTPATH]

              [-v]  [-p]  [-x]  [-t] [-y] [--maxthreads MAXTHREADS] [--breakcomposite] [--altlocation] [--debug]
              [--nofix] [--dnareceptor] [--peptides PEPTIDES [PEPTIDES ...] | --intra INTRA] [--keepmod]

       Protein-Ligand Interaction Profiler (PLIP) v1.3.4 is a command-line based tool to analyze interactions in
       a protein-ligand complex. If you are using PLIP in your work, please cite: Salentin,S. et al. PLIP: fully
       automated proteinligand interaction profiler. Nucl. Acids Res. (1 July 2015)  43  (W1):  W443-W447.  doi:
       10.1093/nar/gkv315

   optional arguments:
       -h, --help
              show this help message and exit

       -f INPUT [INPUT ...], --file INPUT [INPUT ...]

       -i PDBID [PDBID ...], --input PDBID [PDBID ...]

       -o OUTPATH, --out OUTPATH

       -v, --verbose
              Set verbose mode

       -p, --pics
              Additional pictures

       -x, --xml
              Generate report file in XML format

       -t, --txt
              Generate report file in TXT (RST) format

       -y, --pymol
              Additional PyMOL session files

       --maxthreads MAXTHREADS
              Set  maximum number of main threads (number of binding sites processed simultaneously).If not set,
              PLIP uses all available CPUs if possible.

       --breakcomposite
              Don't combine ligand fragments into with covalent bonds but treat them as  single  ligandsfot  the
              analysis.

       --altlocation
              Also consider alternate locations for atoms (e.g.  alternate conformations).

       --debug
              Turn on DEBUG mode with extended log.

       --nofix
              Turns off fixing of PDB files.

       --dnareceptor
              Uses the DNA instead of the protein as a receptor for interactions.

       --peptides PEPTIDES [PEPTIDES ...], --inter PEPTIDES [PEPTIDES ...]
              Allows to define one or multiple chains as peptide ligands or to detect inter-chain contacts

       --intra INTRA
              Allows to define one chain to analyze intra-chain contacts.

       --keepmod
              Keep modified residues as ligands

plipcmd 1.3.5+dfsg-1                              December 2017                                       PLIPCMD(1)