ArticleMethods in enzymology2010
Analyses of subnanometer resolution cryo-EM density maps.
Article in Methods in enzymology, 2010. 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.
- Beyond the Backbone: The Next Generation of Pathwalking Utilities for Model Building in CryoEM Density Maps.Biomolecules · 2022Article
- Three-Dimensional Graph Matching to Identify Secondary Structure Correspondence of Medium-Resolution Cryo-EM Density Maps.Biomolecules · 2021Article
- The 3.5-Å CryoEM Structure of Nanodisc-Reconstituted Yeast Vacuolar ATPase VMolecular cell · 2018Article
- Flexible Fitting of Atomic Models into Cryo-EM Density Maps Guided by Helix Correspondences.Biophysical journal · 2017Article
- Disentangling constraints using viability evolution principles in integrative modeling of macromolecular assemblies.Scientific reports · 2017Article
- De Novo modeling in cryo-EM density maps with Pathwalking.Journal of structural biology · 2016Article
- Article
- Single-particle cryo-EM of the ryanodine receptor channel in an aqueous environment.European journal of translational myology · 2015Article
- Protruding knob-like proteins violate local symmetries in an icosahedral marine virus.Nature communications · 2014Article
- Nhs: network-based hierarchical segmentation for cryo-electron microscopy density maps.Biopolymers · 2012Article
- Gorgon and pathwalking: macromolecular modeling tools for subnanometer resolution density maps.Biopolymers · 2012Article
- Cryo-electron microscopy modeling by the molecular dynamics flexible fitting method.Biopolymers · 2012Article
- Constructing and validating initial Cα models from subnanometer resolution density maps with pathwalking.Structure (London, England : 1993) · 2012Article
- Reconstructing virus structures from nanometer to near-atomic resolutions with cryo-electron microscopy and tomography.Advances in experimental medicine and biology · 2012Review
- MultiFit: a web server for fitting multiple protein structures into their electron microscopy density map.Nucleic acids research · 2011Article
- Modeling protein structure at near atomic resolutions with Gorgon.Journal of structural biology · 2011Article
- EMDataBank.org: unified data resource for CryoEM.Nucleic acids research · 2011Article
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4 authors.
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Abstract
Today, electron cryomicroscopy (cryo-EM) can routinely achieve subnanometer resolutions of complex macromolecular assemblies. From a density map, one can extract key structural and functional information using a variety of computational analysis tools. At subnanometer resolution, these tools make it possible to isolate individual subunits, identify secondary structures, and accurately fit atomic models. With several cryo-EM studies achieving resolutions beyond 5Å, computational modeling and feature recognition tools have been employed to construct backbone and atomic models of the protein components directly from a density map. In this chapter, we describe several common classes of computational tools that can be used to analyze and model subnanometer resolution reconstructions from cryo-EM. A general protocol for analyzing subnanometer resolution density maps is presented along with a full description of steps used in analyzing the 4.3Å resolution structure of Mm-cpn.
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