[Phenix Industrial Consortium] Starts Tomorrow - 2025 Spring Phenix Developers Meeting - March 17-19

Dear Consortium Members, The* 2025 Spring Phenix Developers Meeting https://phenix-online.org/workshops/mar-2025-lanl/index.html* is this week *March 17-19, 2025 *in Santa Fe, NM and online. The Phenix Developers will host a series of talks on Monday and Tuesday, March 17 & 18. And, we will host an *Industry Roundtable discussion on Wednesday, March 19* in the morning (USA Mountain Time). This is a chance to ask questions and discuss any issues directly with the Developers. The agenda posted on the workshop website https://phenix-online.org/workshops/mar-2025-lanl/index.html (login:workshop, pswd:phenix3py) shows the complete schedule for those attending in person. Monday, March 17 – Talks - 09:00 – 09:05 AM *Paul D. Adams*, Introduction - 09:05 – 09:30 AM *Dorothee Liebschner*, Current status of DiSCaMB integration/Overview of MicroED models. - 09:30 – 09:55 AM *Paulina Dominiak*, Aspherical scattering factors in refinement of biomacromolecules - 09:55 – 10:20 AM *Malgorzata Biczysko*, Quantum refinement with machine learning: AQuaRef - 10:20 – 10:35 AM Break - 10:35 – 11:00 AM *Tom Terwilliger*, Is there a best assignment of side-chain alternative conformations to conformers? - 11:00 – 11:25 AM *David Case*, Creating and evaluating ensemble atomic models - 11:25 – 11:45 AM *Billy Poon*, Phenix updates - 11:45 - 12:10 PM *Jane Richardson*, Opportunities and concerns in RNA modeling - 12:10 – 12:30 PM *Christopher Schlicksup*, Exploration of per-atom real space refinement weight Tuesday, March 18 – Talks (USA Mountain Time) - 09:00 – 09:05 AM *Paul D. Adams*, Welcome - 09:05 – 09:30 AM *Laura Pacoste*, Developing electron diffraction methods to probe oxidation states in metalloenzymes (virtual) - 09:30 – 09:55 AM *Airlie McCoy*, phasertng updates (virtual) - 09:55 – 10:20 AM *Pavel Afonine*, I. Nuances, New Tools, and Methods for Visualizing and Validating Subtle Structural Details.II. Atomic Model Refinement Gets More Accurate: Combining Aspherical Density Models with Quantum-Based Restraints - 10:20 – 10:45 AM *Alisia Fadini*, AlphaFold as a Prior: Guiding Protein Structure Prediction Using Experimental Data with ROCKET - 10:45 – 11:00 AM Break - 11:00 – 11:25 AM *Oleg Sobolev*, Automatically Finding the Best Reference Model - 11:25 – 11:50 AM *Nigel W. Moriarty*, Paradigm Shift for Ligands in Phenix - Part Deux - 11:50 – 12:15 PM *Christopher Williams*, Further details of low-pLDDT AlphaFold2 predictions Wednesday, March 19 – Phenix Industry Session - 9:00 AM – 12:00 PM *Industry Roundtable* – conference of developers and industry to discuss the future directions of Phenix. This session will be devoted to a discussion of AlphaFold/RosettaFold and future directions. *Industry consortium members are encouraged to attend.* The Zoom information is below. We look forward to having you join the meeting and discussion. Thank you, Ashley

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Join Zoom Meeting https://lbnl.zoom.us/j/91935895632?pwd=apavpMaMGbJ0FLXw9Q8rCECI8iAyng.1 https://www.google.com/url?q=https://lbnl.zoom.us/j/91935895632?pwd%3DapavpMaMGbJ0FLXw9Q8rCECI8iAyng.1&sa=D&source=calendar&ust=1741211367526113&usg=AOvVaw3E642yFQgwk6Mvm0y4mztd

Meeting ID: 919 3589 5632 Passcode: 730330

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Meeting ID: 919 3589 5632

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Meeting ID: 919 3589 5632 Passcode: 730330

*If you would like to add company members to subscribe to our industry partners listserv, please email [email protected] with “subscribe” (no quotes) as the subject line and nothing in the body. By subscribing, you will receive information about developer meetings, workshops, and industry-focused sessions that happen a few times a year. If you no longer want to receive these emails, you may choose to use "unsubscribe" in the subject line. This is not a discussion listserv. If you have software questions, please email [email protected] .*

Ashley Dawn (she/her/hers) Program Manager, Phenix Industrial Consortium https://phenix-online.org/ Molecular Biophysics & Integrated Bioimaging (MBIB https://biosciences.lbl.gov/mbib/) Lawrence Berkeley Laboratory 510-486-5455