Correcting pervasive errors in RNA crystallography through enumerative structure prediction (Q34497694)

2 August 2017

Correcting pervasive errors in RNA crystallography through enumerative structure prediction (English)

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2 August 2017

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Rhiju Das

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author name string

Fang-Chieh Chou

1

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2 August 2017

Parin Sripakdeevong

2

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2 August 2017

Sergey M Dibrov

3

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2 August 2017

Thomas Hermann

4

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2 August 2017

2 December 2012

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2 August 2017

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2 August 2017

10

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1

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2 August 2017

74-76

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https://scigraph.springernature.com/pub.10.1038/nmeth.2262

2 August 2017

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cites work

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Structure of a hepatitis C virus RNA domain in complex with a translation inhibitor reveals a binding mode reminiscent of riboswitches

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

RNA-Puzzles: a CASP-like evaluation of RNA three-dimensional structure prediction

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

An enumerative stepwise ansatz enables atomic-accuracy RNA loop modeling

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

A new generation of crystallographic validation tools for the protein data bank

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

phenix.model_vs_data: a high-level tool for the calculation of crystallographic model and data statistics

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Semiautomated model building for RNA crystallography using a directed rotameric approach

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Atomic accuracy in predicting and designing noncanonical RNA structure

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

MolProbity: all-atom structure validation for macromolecular crystallography

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

KING (Kinemage, Next Generation): a versatile interactive molecular and scientific visualization program

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Structure and function converge to identify a hydrogen bond in a group I ribozyme active site

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Averaged kick maps: less noise, more signal... and probably less bias

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Sub-angstrom accuracy in protein loop reconstruction by robotics-inspired conformational sampling

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

RNA backbone: consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution)

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Automated de novo prediction of native-like RNA tertiary structures

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

Use of TLS parameters to model anisotropic displacements in macromolecular refinement

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

The complete atomic structure of the large ribosomal subunit at 2.4 A resolution

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3531565

RNABC: forward kinematics to reduce all-atom steric clashes in RNA backbone

7 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.2262

Quantitative analysis of nucleic acid three-dimensional structures.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.2262

21 January 2018

Identifiers

DOI

10.1038/NMETH.2262

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Dimensions Publication ID

2 August 2017

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2 August 2017

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