Phenix for cryoEM Workshop
October 29, 2025
8:30 am - 5:00 pm
Health Education Center Rm 2.220
The Phenix instructors, Drs. Dorothee Liebschner and Pavel Afonine will both, present talks and perform tutorials. The participants are expected to bring their own laptops with Phenix installed; the installation instructions will be sent two weeks before the start of the Workshop. https://phenix-online.org/about
The room is equipped with multiple projection screens and microphones to ask questions. the emphasis will be on Phenix capabilities to work with cryo-EM maps, AI predictions of atomic models and their docking to experimental data.
Registration Required: $75 (no onsite registration and is NonRefundable)
This includes AM and PM coffee and box lunch (vegetarian option available by choosing)
Parking for registrants will be only at the UTMB Shuttle lot, the HEC/SON stop.
For questions regarding this workshop, please email Dr. Michael Sherman
Time | Agenda | Lecturer |
8:30 | Welcome/What’s new in Phenix (20 min) | DL |
8:50 | Overview: Using AlphaFold models in Phenix (30 min) | DL |
9:20 | Tutorial: AF model prediction with Phenix (20 min) | |
9:40 | Overview of map tools in Phenix (35 min) | PVA |
10:15 | 15 min break | |
10:30 | Tutorial: map symmetry, mapBox, docking, apply symmetry (50 min) | DL |
11:30 | Tutorial: Phenix tools in ChimeraX (40 min) | DL |
12:00 | 1 hour lunch break; on-on-one discussions | |
13:30 | Refinement & validation (90 min) | PVA |
15:00 | 15 min break | |
15:15 | Tutorial: phenix.real_space_refine (30 min) | PVA |
15:45 | Ligands (30 min) | DL |
16:15 | PDB deposition (15 min) | PVA |
16:30 | Discussion and questions | |
17:00 | End |
