Deformable elastic network refinement for low-resolution macromolecular crystallography (Q34148076)

31 July 2017

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title

Deformable elastic network refinement for low-resolution macromolecular crystallography (English)

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31 July 2017

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3

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31 July 2017

Gunnar F Schröder

1

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Michael Levitt

series ordinal

2

object named as

Michael Levitt

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31 July 2017

publication date

29 August 2014

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Acta Crystallographica Section D: Biological Crystallography

31 July 2017

published in

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31 July 2017

volume

70

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31 July 2017

issue

Pt 9

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31 July 2017

page(s)

2241-2255

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Improved low-resolution crystallographic refinement with Phenix and Rosetta

31 July 2017

cites work

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5 July 2018

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Improving the Accuracy of Macromolecular Structure Refinement at 7 Å Resolution

5 July 2018

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Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum

5 July 2018

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Exploiting structure similarity in refinement: automated NCS and target-structure restraints in BUSTER

5 July 2018

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Structure of myxovirus resistance protein a reveals intra- and intermolecular domain interactions required for the antiviral function

5 July 2018

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Reintroducing Electrostatics into Macromolecular Crystallographic Refinement: Application to Neutron Crystallography and DNA Hydration

5 July 2018

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REFMAC5 for the refinement of macromolecular crystal structures

5 July 2018

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Femtosecond X-ray protein nanocrystallography

5 July 2018

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Structure of a nanobody-stabilized active state of the β(2) adrenoceptor

5 July 2018

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Structural basis of oligomerization in the stalk region of dynamin-like MxA

5 July 2018

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Features and development of Coot

5 July 2018

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Super-resolution biomolecular crystallography with low-resolution data

5 July 2018

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

5 July 2018

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5 July 2018

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What recent ribosome structures have revealed about the mechanism of translation

5 July 2018

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5 July 2018

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X-ray structure determination at low resolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157441

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

5 July 2018

1 reference

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5 July 2018

Viral membrane fusion

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Automated structure solution with the PHENIX suite

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157441

Improved structures of full-length p97, an AAA ATPase: implications for mechanisms of nucleotide-dependent conformational change

5 July 2018

1 reference

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Combining efficient conformational sampling with a deformable elastic network model facilitates structure refinement at low resolution

5 July 2018

1 reference

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Version 1.2 of the Crystallography and NMR system

5 July 2018

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High-resolution crystal structure of an engineered human beta2-adrenergic G protein-coupled receptor

5 July 2018

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Crystallographic R factor refinement by molecular dynamics

5 July 2018

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The molecular basis of eukaryotic transcription

5 July 2018

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The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling

5 July 2018

1 reference

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Crystal structure of the GTPase domain of rat dynamin 1.

5 July 2018

1 reference

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Nucleotide dependent motion and mechanism of action of p97/VCP

5 July 2018

1 reference

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5 July 2018

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Normal mode-based fitting of atomic structure into electron density maps: application to sarcoplasmic reticulum Ca-ATPase

5 July 2018

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Normal mode based flexible fitting of high-resolution structure into low-resolution experimental data from cryo-EM.

5 July 2018

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On the use of low-frequency normal modes to enforce collective movements in refining macromolecular structural models

5 July 2018

1 reference

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Protein structure prediction using Rosetta

5 July 2018

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Complete structure of p97/valosin-containing protein reveals communication between nucleotide domains

5 July 2018

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An improved hydrogen bond potential: impact on medium resolution protein structures.

5 July 2018

1 reference

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Three-dimensional structure of cyanobacterial photosystem I at 2.5 A resolution

5 July 2018

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Structure of the AAA ATPase p97

5 July 2018

1 reference

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Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination

5 July 2018

1 reference

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Cross-validated maximum likelihood enhances crystallographic simulated annealing refinement

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157441

Comparative protein modelling by satisfaction of spatial restraints

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157441

Torsion angle dynamics: reduced variable conformational sampling enhances crystallographic structure refinement

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157441

Protein normal-mode dynamics: trypsin inhibitor, crambin, ribonuclease and lysozyme

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157441

Refinement of the influenza virus hemagglutinin by simulated annealing

5 July 2018

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Improved methods for building protein models in electron density maps and the location of errors in these models

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4157441

Towards automated crystallographic structure refinement with phenix.refine

5 July 2018

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https://api.crossref.org/works/10.1107%2FS1399004714016496

CHARMM: A program for macromolecular energy, minimization, and dynamics calculations

21 January 2018

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https://api.crossref.org/works/10.1107%2FS1399004714016496

On the use of normal modes in thermal parameter refinement: theory and application to the bovine pancreatic trypsin inhibitor

21 January 2018

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https://api.crossref.org/works/10.1107%2FS1399004714016496

Accurate bond and angle parameters for X-ray protein structure refinement

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS1399004714016496

Use of knowledge-based restraints in phenix.refine to improve macromolecular refinement at low resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS1399004714016496

NORMA: a tool for flexible fitting of high-resolution protein structures into low-resolution electron-microscopy-derived density maps.

21 January 2018

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https://api.crossref.org/works/10.1107%2FS1399004714016496

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS1399004714016496

Real-space refinement with DireX: from global fitting to side-chain improvements.

21 January 2018

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https://api.crossref.org/works/10.1107%2FS1399004714016496

Large Amplitude Elastic Motions in Proteins from a Single-Parameter, Atomic Analysis

21 January 2018

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https://api.crossref.org/works/10.1107%2FS1399004714016496

Stereochemically restrained refinement of macromolecular structures

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25195739

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1107/S1399004714016496

1 reference

31 July 2017

1 reference

31 July 2017

1 reference