Atomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement (Q30300619)

4 November 2017

Atomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement (English)

1 reference

cryogenic electron microscopy

4 November 2017

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1 reference

PubMed publication ID

21 June 2017

Edward Egelman

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David Baker

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Chunfu Xu

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Frank DiMaio

1 reference

4 November 2017

Yifan Song

1 reference

4 November 2017

Xueming Li

1 reference

4 November 2017

Matthias J Brunner

1 reference

4 November 2017

Vincent Conticello

1 reference

4 November 2017

Yifan Cheng

1 reference

4 November 2017

23 February 2015

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4 November 2017

1 reference

4 November 2017

1 reference

4 November 2017

1 reference

4 November 2017

361-365

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Improved low-resolution crystallographic refinement with Phenix and Rosetta

4 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

High-resolution comparative modeling with RosettaCM.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

FOLD-EM: automated fold recognition in medium- and low-resolution (4-15 Å) electron density maps

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

RELION: implementation of a Bayesian approach to cryo-EM structure determination

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Gorgon and pathwalking: macromolecular modeling tools for subnanometer resolution density maps

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Towards automated crystallographic structure refinement with phenix.refine

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

EM-fold: de novo atomic-detail protein structure determination from medium-resolution density maps

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Outcome of the first electron microscopy validation task force meeting

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Initial evaluation of a direct detection device detector for single particle cryo-electron microscopy.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

MultiFit: a web server for fitting multiple protein structures into their electron microscopy density map.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

BCL::EM-Fit: rigid body fitting of atomic structures into density maps using geometric hashing and real space refinement

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

MolProbity: all-atom structure validation for macromolecular crystallography

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Refinement of protein structures into low-resolution density maps using rosetta

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Molecular dynamics flexible fitting: a practical guide to combine cryo-electron microscopy and X-ray crystallography

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Comparative protein structure modeling using Modeller

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

MolProbity: all-atom contacts and structure validation for proteins and nucleic acids

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

The Buccaneer software for automated model building. 1. Tracing protein chains

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Refinement of protein structures by iterative comparative modeling and CryoEM density fitting

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

3 June 2018

The Protein Data Bank

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4382417

Structural plasticity of helical nanotubes based on coiled-coil assemblies

3 June 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

Sharpening high resolution information in single particle electron cryomicroscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

Structure of a pathogenic type 3 secretion system in action

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

Three-dimensional model of Salmonella's needle complex at subnanometer resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

Accurate determination of local defocus and specimen tilt in electron microscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

Interactions of PAN's C-termini with archaeal 20S proteasome and implications for the eukaryotic proteasome–ATPase interactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

FindEM--a fast, efficient program for automatic selection of particles from electron micrographs

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

GPU-enabled FREALIGN: accelerating single particle 3D reconstruction and refinement in Fourier space on graphics processors

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

Optimal determination of particle orientation, absolute hand, and contrast loss in single-particle electron cryomicroscopy

21 January 2018

2 references

https://api.crossref.org/works/10.1038%2FNMETH.3286

21 January 2018

https://api.crossref.org/works/10.1038%2FNMETH.3286

7 January 2021

inferred from DOI database lookup

Comparative protein structure modeling using MODELLER

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25707030

12 December 2020

inferred from PubMed ID database lookup

De novo protein structure determination from near-atomic-resolution cryo-EM maps

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

7 January 2021

inferred from DOI database lookup

Robust Parameterization of Elastic and Absorptive Electron Atomic Scattering Factors

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.3286

7 January 2021

inferred from DOI database lookup

Identifiers

DOI

10.1038/NMETH.3286

1 reference

Dimensions Publication ID

4 November 2017

0 references

1 reference

4 November 2017

PubMed publication ID

25707030

1 reference