De novo protein structure determination from near-atomic-resolution cryo-EM maps (Q30300622)

23 September 2017

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

1 reference

cryogenic electron microscopy

23 September 2017

0 references

protein structure determination

0 references

author

Mikhail Kudryashev

2

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Marek Basler

5

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Edward H Egelman

object named as

Edward H Egelman

4

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David Baker

object named as

David Baker

7

0 references

author name string

Ray Yu-Ruei Wang

1

1 reference

23 September 2017

Xueming Li

3

1 reference

23 September 2017

Yifan Cheng

6

1 reference

23 September 2017

Frank DiMaio

8

1 reference

23 September 2017

23 February 2015

1 reference

23 September 2017

1 reference

23 September 2017

12

1 reference

23 September 2017

4

1 reference

23 September 2017

335-338

1 reference

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

23 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Beam-induced motion correction for sub-megadalton cryo-EM particles.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Three-dimensional structure of human γ-secretase

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Structure of the Yeast Mitochondrial Large Ribosomal Subunit

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Atomic model of the F 420 -reducing [NiFe] hydrogenase by electron cryo-microscopy using a direct electron detector

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Structure of the TRPV1 ion channel determined by electron cryo-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=4435692

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=4435692

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=4435692

Atomic structure of the 75 MDa extremophile Sulfolobus turreted icosahedral virus determined by CryoEM 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=4435692

De novo modeling of the F 420 -reducing [NiFe]-hydrogenase from a methanogenic archaeon by 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=4435692

Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Prevention of overfitting in 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=4435692

Determination of solution structures of proteins up to 40 kDa using CS-Rosetta with sparse NMR data from deuterated samples

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Resolution-adapted recombination of structural features significantly improves sampling in restraint-guided structure calculation

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Constructing and validating initial Cα models from subnanometer resolution density maps with pathwalking

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Generalized fragment picking in Rosetta: design, protocols and applications

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Near-atomic-resolution cryo-EM for molecular virology

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Overview of the CCP4 suite and current developments

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Near-atomic resolution reconstructions of icosahedral viruses from electron cryo-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=4435692

Modeling protein structure at near atomic resolutions with Gorgon

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Structure of the full-length Shaker potassium channel Kv1.2 by normal-mode-based X-ray crystallographic 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=4435692

3.3 A cryo-EM structure of a nonenveloped virus reveals a priming mechanism for cell entry

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

NMR structure determination for larger proteins using backbone-only data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

PHENIX: a comprehensive Python-based system for macromolecular structure solution

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

EM-fold: De novo folding of alpha-helical proteins guided by intermediate-resolution electron microscopy 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=4435692

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=4435692

Spherical-harmonic decomposition for molecular recognition in 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=4435692

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=4435692

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=4435692

Towards atomic resolution structural determination by 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=4435692

Near-atomic resolution using electron cryomicroscopy and single-particle reconstruction

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

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=4435692

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=4435692

Toward high-resolution de novo structure prediction for small proteins.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Protein structure prediction 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=4435692

Design of a Novel Globular Protein Fold with Atomic-Level Accuracy

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

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

3 June 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

3 June 2018

https://pubmed.ncbi.nlm.nih.gov/25707029

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Situs: A package for docking crystal structures into low-resolution maps from electron microscopy

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4435692

Accurate determination of local defocus and specimen tilt in electron microscopy

3 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.3287

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

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.3287

Combining Electron Microscopic with X-Ray Crystallographic Structures

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25707029

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NMETH.3287

1 reference

Dimensions Publication ID

23 September 2017

1052795485

0 references

Fatcat ID

release_36mun2fhvbaybgjl75e7yfcwqi

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/36mun2fhvbaybgjl75e7yfcwqi

mapped directly with Wikidata item

24 November 2022

based on heuristic

1 reference

23 September 2017

PubMed publication ID

25707029

1 reference