ReviewMethods in enzymology2016
Tools for Model Building and Optimization into Near-Atomic Resolution Electron Cryo-Microscopy Density Maps.
Review in Methods in enzymology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 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
18 citing papers in PubMed.
- Filamentation of hCTPS1 with CTP.Cell & bioscience · 2025Article
- Novel Artificial Intelligence-Based Approaches for Ab Initio Structure Determination and Atomic Model Building for Cryo-Electron Microscopy.Micromachines · 2023Review
- Building Protein Atomic Models from Cryo-EM Density Maps and Residue Co-Evolution.Biomolecules · 2022Article
- Structural basis for ligand binding modes of CTP synthase.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- State-dependent sequential allostery exhibited by chaperonin TRiC/CCT revealed by network analysis of Cryo-EM maps.Progress in biophysics and molecular biology · 2021Article
- Complementarity of Hydrogen/Deuterium Exchange Mass Spectrometry and Cryo-Electron Microscopy.Trends in biochemical sciences · 2020Review
- Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures.Nature methods · 2020Article
- Simulation-Based Methods for Model Building and Refinement in Cryoelectron Microscopy.Journal of chemical information and modeling · 2020Review
- Using NMR Chemical Shifts and Cryo-EM Density Restraints in Iterative Rosetta-MD Protein Structure Refinement.Journal of chemical information and modeling · 2020Article
- Advances in methods for atomic resolution macromolecular structure determination.F1000Research · 2020Review
- Cryo-EM map interpretation and protein model-building using iterative map segmentation.Protein science : a publication of the Protein Society · 2020Article
- Assessment of structural features in Cryo-EM density maps using SSE and side chain Z-scores.Journal of structural biology · 2018Article
- De novo computational RNA modeling into cryo-EM maps of large ribonucleoprotein complexes.Nature methods · 2018Article
- A fully automatic method yielding initial models from high-resolution cryo-electron microscopy maps.Nature methods · 2018Article
- Map segmentation, automated model-building and their application to the Cryo-EM Model Challenge.Journal of structural biology · 2018Article
- CryoEM-based hybrid modeling approaches for structure determination.Current opinion in microbiology · 2018Review
- Iterative Molecular Dynamics-Rosetta Membrane Protein Structure Refinement Guided by Cryo-EM Densities.Journal of chemical theory and computation · 2017Article
- EMBuilder: A Template Matching-based Automatic Model-building Program for High-resolution Cryo-Electron Microscopy Maps.Scientific reports · 2017Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
Electron cryo-microscopy (cryoEM) has advanced dramatically to become a viable tool for high-resolution structural biology research. The ultimate outcome of a cryoEM study is an atomic model of a macromolecule or its complex with interacting partners. This chapter describes a variety of algorithms and software to build a de novo model based on the cryoEM 3D density map, to optimize the model with the best stereochemistry restraints and finally to validate the model with proper protocols. The full process of atomic structure determination from a cryoEM map is described. The tools outlined in this chapter should prove extremely valuable in revealing atomic interactions guided by cryoEM data.
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