Improved low-resolution crystallographic refinement with Phenix and Rosetta (Q33978661)

30 July 2017

Improved low-resolution crystallographic refinement with Phenix and Rosetta (English)

1 reference

30 July 2017

5

1 reference

PubMed ID

24076763

30 July 2017

Thomas C. Terwilliger

object named as

Thomas C Terwilliger

series ordinal

4

0 references

David Baker

object named as

David Baker

series ordinal

6

0 references

Jeffrey J Headd

series ordinal

3

object named as

Jeffrey J Headd

1 reference

30 July 2017

2

Nathaniel Echols

1 reference

30 July 2017

Frank DiMaio

1

1 reference

30 July 2017

29 September 2013

1 reference

30 July 2017

1 reference

30 July 2017

10

1 reference

30 July 2017

11

1 reference

30 July 2017

1102-1104

1 reference

https://scigraph.springernature.com/pub.10.1038/nmeth.2648

30 July 2017

0 references

cites work

Scientific benchmarks for guiding macromolecular energy function improvement

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Structure and stoichiometry of an accessory subunit TRIP8b interaction with hyperpolarization-activated cyclic nucleotide-gated channels

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Use of knowledge-based restraints in phenix.refine to improve macromolecular refinement 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=4116791

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Towards automated crystallographic structure refinement with phenix.refine

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Automated real-space refinement of protein structures using a realistic backbone move set.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Modeling symmetric macromolecular structures in Rosetta3

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

RosettaScripts: a scripting language interface to the Rosetta macromolecular modeling 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=4116791

Improved molecular replacement by density- and energy-guided protein structure optimization

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

REFMAC5 for the refinement of macromolecular crystal structures

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Overview of the CCP4 suite and current developments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Applying an empirical hydropathic forcefield in refinement may improve low-resolution protein X-ray crystal structures

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Features and development of Coot

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Super-resolution biomolecular crystallography with low-resolution data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

MolProbity: all-atom structure validation for macromolecular crystallography

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Phasercrystallographic software

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

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=4116791

Free R value: a novel statistical quantity for assessing the accuracy of crystal structures

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Macromolecular modeling with rosetta

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Separating model optimization and model validation in statistical cross-validation as applied to crystallography

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

A robust bulk-solvent correction and anisotropic scaling procedure

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

REFMAC5 dictionary: organization of prior chemical knowledge and guidelines for its use

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Maximum-likelihood density modification

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Incorporation of prior phase information strengthens maximum-likelihood 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=4116791

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

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=4116791

Low-resolution refinement tools in REFMAC5.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Polarizable atomic multipole X-ray refinement: weighting schemes for macromolecular diffraction

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Improvement of molecular-replacement models with Sculptor

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Likelihood-based refinement. I. Irremovable model errors.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4116791

Improved Fourier coefficients for maps using phases from partial structures with errors

29 October 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.2648

inferred from DOI database lookup

7 January 2021

based on heuristic

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

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.2648

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1038/NMETH.2648

1 reference

PubMed ID

24076763

Dimensions Publication ID

30 July 2017

0 references

1 reference

30 July 2017

1 reference

PubMed ID

24076763