Alternate states of proteins revealed by detailed energy landscape mapping (Q30396213)

4 November 2017

Alternate states of proteins revealed by detailed energy landscape mapping (English)

1 reference

4 November 2017

1 reference

2

1 reference

4 November 2017

Ingemar André

3

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David Baker

object named as

David Baker

8

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David C. Richardson

6

object named as

David C Richardson

1 reference

4 November 2017

Michael D Tyka

1

1 reference

4 November 2017

Frank Dimaio

4

1 reference

4 November 2017

Yifan Song

5

1 reference

4 November 2017

language of work or name

English

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publication date

10 November 2010

1 reference

Journal of Molecular Biology

4 November 2017

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4 November 2017

405

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4 November 2017

2

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4 November 2017

607-618

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Automated electron-density sampling reveals widespread conformational polymorphism in proteins

4 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

MolProbity: all-atom structure validation for macromolecular crystallography

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Simultaneous prediction of protein folding and docking at high resolution

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Rapid equilibrium sampling initiated from nonequilibrium data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Autofix for backward-fit sidechains: using MolProbity and real-space refinement to put misfits in their place

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Recognition dynamics up to microseconds revealed from an RDC-derived ubiquitin ensemble in solution

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Kemp elimination catalysts by computational enzyme design

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Consistent blind protein structure generation from NMR chemical shift data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

De novo computational design of retro-aldol enzymes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Open-to-closed transition in apo maltose-binding protein observed by paramagnetic NMR

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Structure prediction for CASP7 targets using extensive all-atom refinement with Rosetta@home

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Ensemble Refinement of Protein Crystal Structures: Validation and Application

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Interpretation of ensembles created by multiple iterative rebuilding of macromolecular models

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

A physical picture of atomic motions within the Dickerson DNA dodecamer in solution derived from joint ensemble refinement against NMR and large-angle X-ray scattering data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

The MUMO (minimal under-restraining minimal over-restraining) method for the determination of native state ensembles of proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Relation between native ensembles and experimental structures of proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Elastic network models for understanding biomolecular machinery: from enzymes to supramolecular assemblies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

A test of enhancing model accuracy in high-throughput crystallography

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Protein structure prediction using Rosetta

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Protein flexibility and adaptability seen in 25 crystal forms of T4 lysozyme

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Using NMR chemical shifts as structural restraints in molecular dynamics simulations of proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

NMR spectroscopy brings invisible protein states into focus

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

The other 90% of the protein: assessment beyond the Calphas for CASP8 template-based and high-accuracy models

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

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

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

High-resolution structure prediction and the crystallographic phase problem

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

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

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

The limit of accuracy of protein modeling: influence of crystal packing on protein structure.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

The penultimate rotamer library

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3046547

Structural artifacts in protein-ligand X-ray structures: implications for the development of docking scoring functions

26 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21073878

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/J.JMB.2010.11.008

1 reference

4 November 2017

1 reference

4 November 2017

1 reference