ArticleJournal of structural biology2018
Assessment of structural features in Cryo-EM density maps using SSE and side chain Z-scores.
Article in Journal of structural biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- A Large-Scale Cryo-EM RNA Motif Dataset and Benchmark for Machine Learning-Based Structure Modeling.bioRxiv : the preprint server for biology · 2026Article
- Advances in cryo-electron microscopy (cryoEM) for structure-based drug discovery.Expert opinion on drug discovery · 2025Review
- Simulation and Machine Learning Methods for Ion-Channel Structure Determination, Mechanistic Studies and Drug Design.Frontiers in pharmacology · 2022Review
- Validation, analysis and annotation of cryo-EM structures.Acta crystallographica. Section D, Structural biology · 2021Article
- Structure of the far-red light utilizing photosystem I of Acaryochloris marina.Nature communications · 2021Article
- High resolution single particle Cryo-EM refinement using JSPR.Progress in biophysics and molecular biology · 2021Review
- The N-terminus of varicella-zoster virus glycoprotein B has a functional role in fusion.PLoS pathogens · 2021Article
- What Could Go Wrong? A Practical Guide to Single-Particle Cryo-EM: From Biochemistry to Atomic Models.Journal of chemical information and modeling · 2020Article
- Cylindrical Similarity Measurement for Helices in Medium-Resolution Cryo-Electron Microscopy Density Maps.Journal of chemical information and modeling · 2020Article
- Measurement of atom resolvability in cryo-EM maps with Q-scores.Nature methods · 2020Article
- New tools in MolProbity validation: CaBLAM for CryoEM backbone, UnDowser to rethink "waters," and NGL Viewer to recapture online 3D graphics.Protein science : a publication of the Protein Society · 2020Article
- Evolving data standards for cryo-EM structures.Structural dynamics (Melville, N.Y.) · 2020Article
- Deriving and refining atomic models in crystallography and cryo-EM: the latest Phenix tools to facilitate structure analysis.Acta crystallographica. Section D, Structural biology · 2019Article
- Cryo-EM structures ofProceedings of the National Academy of Sciences of the United States of America · 2019Article
- Coupling of ssRNA cleavage with DNase activity in type III-A CRISPR-Csm revealed by cryo-EM and biochemistry.Cell research · 2019Article
- Comparing cryo-EM structures.Journal of structural biology · 2018Article
- The first single particle analysis Map Challenge: A summary of the assessments.Journal of structural biology · 2018Article
Corrections and comments
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2 authors.
Funding
Abstract
We introduce a new method for assessing resolvability of structural features in density maps from Cryo-Electron Microscopy (Cryo-EM) using fitted or derived models. It calculates Z-scores for secondary structure elements (SSEs) and side chains. Z-scores capture how much larger the cross-correlation score (CCS) is for atoms in such features at their placed locations compared to the CCS at displaced positions. Z-scores are larger when the structural features are well-resolved, as confirmed by visual analysis. This method was applied to all 66 maps submitted to the 2015/2016 EMDB map challenge. For each map, the fitted model provided by the map committee was used in this assessment. The average Z-scores for each map and fitted model correlate moderately well with reported map resolutions (r
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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.