Improved crystallographic models through iterated local density-guided model deformation and reciprocal-space refinement (Q36073490)

12 August 2017

Improved crystallographic models through iterated local density-guided model deformation and reciprocal-space refinement (English)

1 reference

12 August 2017

2

1 reference

12 August 2017

3

1 reference

12 August 2017

4

1 reference

12 August 2017

Li-Wei Hung

7

0 references

Thomas C. Terwilliger

object named as

Thomas C Terwilliger

series ordinal

1

0 references

Ralf W Grosse-Kunstleve

series ordinal

6

object named as

Ralf W Grosse-Kunstleve

1 reference

12 August 2017

5

Pavel V Afonine

1 reference

PMCID

3388814

12 August 2017

language of work or name

1 reference

19 June 2012

1 reference

Acta Crystallographica Section D: Biological Crystallography

12 August 2017

1 reference

12 August 2017

68

1 reference

12 August 2017

Pt 7

1 reference

12 August 2017

861-870

1 reference

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

12 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Structure of the catalytic domain of glucuronoyl esterase Cip2 from Hypocrea jecorina

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Improved technologies now routinely provide protein NMR structures useful for molecular replacement

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Cloning, expression, purification, crystallization and preliminary X-ray diffraction data of the Pyrococcus horikoshii RadA intein

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

REFMAC5 for the refinement of macromolecular crystal structures

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Evaluating the solution from MrBUMP and BALBES.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Crystal structure of XMRV protease differs from the structures of other retropepsins

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Features and development of Coot

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Recent developments in classical density modification

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Super-resolution biomolecular crystallography with low-resolution data

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Automatic multiple-zone rigid-body refinement with a large convergence radius

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Phasercrystallographic software

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Improving NMR protein structure quality by Rosetta refinement: A molecular replacement study

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Raster3D: photorealistic molecular graphics

2 October 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

2 October 2017

https://api.crossref.org/works/10.1107%2FS0907444912015636

ARP/wARP and molecular replacement: the next generation

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Dealing with structural variability in molecular replacement and crystallographic refinement through normal-mode analysis

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

An introduction to molecular replacement

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

High-resolution structure prediction and the crystallographic phase problem

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Assessment of CASP7 predictions in the high accuracy template-based modeling category

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Normal mode refinement of anisotropic thermal parameters for a supramolecular complex at 3.42-A crystallographic resolution

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Ultra-high resolution crystal structure of HIV-1 protease mutant reveals two binding sites for clinical inhibitor TMC114

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Structure alignment via Delaunay tetrahedralization.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Refinement of severely incomplete structures with maximum likelihood in BUSTER-TNT

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Maximum-likelihood density modification using pattern recognition of structural motifs

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Pushing the boundaries of molecular replacement with maximum likelihood

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Does NMR mean "not for molecular replacement"? Using NMR-based search models to solve protein crystal structures

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

DaliLite workbench for protein structure comparison

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Reciprocal-space solvent flattening

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Automated protein model building combined with iterative structure refinement

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Resolution of phase ambiguity in macromolecular crystallography

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

The relation between the divergence of sequence and structure in proteins

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Normal mode refinement: crystallographic refinement of protein dynamic structure. I. Theory and test by simulated diffraction data

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3388814

Bias reduction in phase refinement by modified interference functions: introducing the gamma correction.

2 October 2017

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

21 January 2018

The Protein Data Bank

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

Template convolution to enhance or detect structural features in macromolecular electron-density maps.

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

Percentile-based spread: a more accurate way to compare crystallographic models

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

A genetic algorithm for the identification of conformationally invariant regions in protein molecules

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

MRSAD: using anomalous dispersion from S atoms collected at Cu Kα wavelength in molecular-replacement structure determination

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

On the potential of normal-mode analysis for solving difficult molecular-replacement problems

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

Using prime-and-switch phasing to reduce model bias in molecular replacement

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

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%2FS0907444912015636

MOLREP: an Automated Program for Molecular Replacement

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

Modified Phased Translation Functions and their Application to Molecular-Fragment Location

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1107%2FS0907444912015636

Phase combination and cross validation in iterated density-modification calculations

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22751672

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Application of the Method of Steepest Descents to X-Ray Structure Analysis

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22751672

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1107/S0907444912015636

1 reference

release_5doepqzsfngqdpjblgsws2douu

12 August 2017

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/5doepqzsfngqdpjblgsws2douu

mapped directly with Wikidata item

24 November 2022

based on heuristic

PMCID

3388814

1 reference

12 August 2017

1 reference

PMCID

3388814