Phenix Examples and Tutorials

Video tutorials with data

The data for each of these tutorials are available in the GUI by selecting 'New Project' and then 'Set up Tutorial Data' and selecting a tutorial. Each video tutorial provides some background and then carries out a demonstration using the tutorial data.

Sample data and instructions supplied with the GUI

Step-by-step Tutorials

• Tutorial 1: Solving a structure using SAD data
• Tutorial 2: Solving a structure using MAD data
• Tutorial 3: Solving a structure using MIR data
• Tutorial 4: Iterative model-building, density modification and refinement starting from experimental phases
• Tutorial 5: Introduction to molecular replacement, refinement, and rebuilding for novice users
• Tutorial 6: Solving a structure using Molecular Replacement
• Tutorial 7: Automatically rebuilding a structure solved by Molecular Replacement
• Tutorial 8: Fitting a flexible ligand into a difference electron density map
• Tutorial 9: Structure refinement
• Tutorial 10: Refining a structure in the presence of merohedral twinning
• Tutorial 11: Generating ligand coordinates and restraints for structure refinement
• Tutorial 12: Structure validation using MolProbity
• Tutorial 13: Running refinement examples on the command line
• Tutorial 14: Solving a cryo-EM structure by density modification, docking, refinement and loop fitting
• Tutorial 15: Solving a cryo-EM structure by density modification, model-building, refinement and loop fitting