ArticleJournal of chemical information and modeling2026
KNexPHENIX: A PHENIX-Based Workflow for Improving Cryo-EM and Crystallographic Structural Models.
Article in Journal of chemical information and modeling, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
2 citing papers in PubMed.
- Molecular basis of tRNA substrate recognition and modification by the atypical SPOUT methyltransferase Trm10.Nucleic acids research · 2026Article
- Mechanism of 30S subunit recognition and modification by the conserved bacterial ribosomal RNA methyltransferase RsmI.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
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No grant is acknowledged in the PubMed record.
Abstract
New and improved methods for visualizing complex macromolecules in atomic detail continue to expand structural information in the Protein Data Bank but accurately refining atomic models from experimental maps remains a challenge due to efficiency limitations of current refinement approaches. Standard PHENIX refinement can partially address these limitations with its speed and accessibility but often fails to yield the best model compared to more computationally demanding approaches. To support improved macromolecular model building, we therefore developed "KNexPHENIX", a PHENIX-based workflow that combines staged refinement, geometry minimization, and customized refinement parameters. KNexPHENIX can be used to refine macromolecular structures obtained via cryo-electron microscopy (cryo-EM) or X-ray crystallography, regardless of molecular size or composition. KNexPHENIX was evaluated on deposited structures and
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.