title: PLIP: fully automated protein-ligand interaction profiler.
abstract: The characterization of interactions in protein-ligand complexes is essential for research in structural bioinformatics, drug discovery and biology. However, comprehensive tools are not freely available to the research community. Here, we present the protein-ligand interaction profiler (PLIP), a novel web service for fully automated detection and visualization of relevant non-covalent protein-ligand contacts in 3D structures, freely available at projects.biotec.tu-dresden.de/plip-web. The input is either a Protein Data Bank structure, a protein or ligand name, or a custom protein-ligand complex (e.g. from docking). In contrast to other tools, the rule-based PLIP algorithm does not require any structure preparation. It returns a list of detected interactions on single atom level, covering seven interaction types (hydrogen bonds, hydrophobic contacts, pi-stacking, pi-cation interactions, salt bridges, water bridges and halogen bonds). PLIP stands out by offering publication-ready images, PyMOL session files to generate custom images and parsable result files to facilitate successive data processing. The full python source code is available for download on the website. PLIP's command-line mode allows for high-throughput interaction profiling.
authors: Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, 01307 Dresden, Germany.
authors: Sebastian
authors: S
authors: Salentin
authors: Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, 01307 Dresden, Germany.
authors: Sven
authors: S
authors: Schreiber
authors: Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, 01307 Dresden, Germany.
authors: V Joachim
authors: VJ
authors: Haupt
authors: Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, 01307 Dresden, Germany Escuela de Ingeniería en Bioinformática, Universidad de Talca, Avda. Lircay s/n Talca, 3460000, Chile.
authors: Melissa F
authors: MF
authors: Adasme
authors: Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, 01307 Dresden, Germany ms@biotec.tu-dresden.de.
authors: Michael
authors: M
authors: Schroeder
mesh_terms: D000465:Algorithms; D004791:Enzyme Inhibitors / Q000737:chemistry; D020407:Internet; D008024:Ligands; D062105:Molecular Docking Simulation / Q000379:methods*; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry; D012984:Software
chemical_list: D004791:Enzyme Inhibitors; D008024:Ligands; D011506:Proteins