Phenix: Difference between revisions

272 bytes added ,  18 November 2012
phenix.pdb_atom_selection
(phenix.pdb_atom_selection)
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=== [http://www.phenix-online.org/documentation/hydrogens.htm phenix.reduce] - tool for adding hydrogens to a PDB model ===
=== [http://www.phenix-online.org/documentation/hydrogens.htm phenix.reduce] - tool for adding hydrogens to a PDB model ===
=== phenix.pdb_atom_selection ===
phenix.pdb_atom_selection model.pdb "within(3, chain L and resseq 9 and name CA)" --write-pdb-file=cut.pdb
In this example, selects all atoms within 3 A from CA atom in chain A of residue number 9, and writes them into cut.pdb file.
=== [http://www.phenix-online.org/documentation/superpose_pdbs.htm phenix.superpose_pdbs] - Superposition of models ===
=== [http://www.phenix-online.org/documentation/superpose_pdbs.htm phenix.superpose_pdbs] - Superposition of models ===
===  phenix.superpose_ligands - Superposition of ligands ===
===  phenix.superpose_ligands - Superposition of ligands ===
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