De novo high-resolution protein structure determination from sparse spin-labeling EPR data. (Q30367770)

15 August 2017

De novo high-resolution protein structure determination from sparse spin-labeling EPR data. (English)

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protein structure determination

15 August 2017

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author

Jens Meiler

5

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PubMed publication ID

21 June 2017

Marco Bortolus

2

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author name string

Nathan Alexander

1

1 reference

15 August 2017

Ahmad Al-Mestarihi

3

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15 August 2017

Hassane Mchaourab

4

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15 August 2017

1 February 2008

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15 August 2017

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15 August 2017

16

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15 August 2017

2

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15 August 2017

181-195

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Measuring distances by pulsed dipolar ESR spectroscopy: spin-labeled histidine kinases.

15 August 2017

1 reference

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Recent advances and applications of site-directed spin labeling.

3 June 2018

1 reference

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Physically realistic homology models built with ROSETTA can be more accurate than their templates

3 June 2018

1 reference

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Pfam: clans, web tools and services

3 June 2018

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Free modeling with Rosetta in CASP6

3 June 2018

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

3 June 2018

1 reference

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Accessibility of nitroxide side chains: absolute Heisenberg exchange rates from power saturation EPR

3 June 2018

1 reference

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Protein structure prediction servers at University College London

3 June 2018

1 reference

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The HHpred interactive server for protein homology detection and structure prediction

3 June 2018

1 reference

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Structural basis of energy transduction in the transport cycle of MsbA.

3 June 2018

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3 June 2018

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3 June 2018

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Progress and challenges in high-resolution refinement of protein structure models.

3 June 2018

1 reference

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Detecting distant homology with Meta-BASIC.

3 June 2018

1 reference

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The PredictProtein server

3 June 2018

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3 June 2018

1 reference

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Protein structure prediction using Rosetta

3 June 2018

1 reference

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Whither structural biology?

3 June 2018

1 reference

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Rapid protein fold determination using unassigned NMR data

3 June 2018

1 reference

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3 June 2018

1 reference

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Rosetta predictions in CASP5: successes, failures, and prospects for complete automation.

3 June 2018

1 reference

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Coupled prediction of protein secondary and tertiary structure

3 June 2018

1 reference

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3D-Jury: a simple approach to improve protein structure predictions

3 June 2018

1 reference

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The Protein Data Bank and structural genomics

3 June 2018

1 reference

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Distance measurements in the nanometer range by pulse EPR.

3 June 2018

1 reference

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Structure of the inhibitory region of troponin by site directed spin labeling electron paramagnetic resonance

3 June 2018

1 reference

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Structural genomics of the Thermotoga maritima proteome implemented in a high-throughput structure determination pipeline

3 June 2018

1 reference

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Rotamer libraries in the 21st century

3 June 2018

1 reference

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Contact order and ab initio protein structure prediction

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

3 June 2018

The Protein Data Bank

1 reference

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Protein structure determination using long-distance constraints from double-quantum coherence ESR: study of T4 lysozyme.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

De novo determination of protein backbone structure from residual dipolar couplings using Rosetta

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Rosetta in CASP4: progress in ab initio protein structure prediction

3 June 2018

1 reference

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Estimation of inter-residue distances in spin labeled proteins at physiological temperatures: experimental strategies and practical limitations.

3 June 2018

1 reference

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Crystal structure and assembly of a eukaryotic small heat shock protein

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Structure of the KcsA channel intracellular gate in the open state

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Review: protein secondary structure prediction continues to rise.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

De novo protein structure determination using sparse NMR data.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Improving the performance of Rosetta using multiple sequence alignment information and global measures of hydrophobic core formation.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Native protein sequences are close to optimal for their structures

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Crystal structures of spin labeled T4 lysozyme mutants: implications for the interpretation of EPR spectra in terms of structure.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Enhanced genome annotation using structural profiles in the program 3D-PSSM

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

A surprising simplicity to protein folding.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Small heat-shock protein structures reveal a continuum from symmetric to variable assemblies

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Folding pattern of the alpha-crystallin domain in alphaA-crystallin determined by site-directed spin labeling.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Protein secondary structure prediction based on position-specific scoring matrices

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Structural rearrangements underlying K+-channel activation gating

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Crystal structure of a small heat-shock protein

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Predicting protein structure using hidden Markov models

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Watching proteins move using site-directed spin labeling

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Motion of spin-labeled side chains in T4 lysozyme. Correlation with protein structure and dynamics

3 June 2018

1 reference

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3 June 2018

1 reference

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Proctor Lecture. The function of alpha-crystallin

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

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3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Determination of the distance between two spin labels attached to a macromolecule

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Structure of bacteriophage T4 lysozyme refined at 1.7 A resolution

3 June 2018

1 reference

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Spin labeled cysteines as sensors for protein-lipid interaction and conformation in rhodopsin

3 June 2018

1 reference

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Alpha-crystallin can function as a molecular chaperone

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Explicit treatment of spin labels in modeling of distance constraints from dipolar EPR and DEER.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

The determination of pair distance distributions by pulsed ESR using Tikhonov regularization.

26 November 2018

1 reference

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Improvement of the GenTHREADER method for genomic fold recognition

26 November 2018

1 reference

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Global Efforts in Structural Genomics

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2390841

Hybrid fold recognition: combining sequence derived properties with evolutionary information.

26 November 2018

1 reference

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Wrapping the alpha-crystallin domain fold in a chaperone assembly

26 November 2018

1 reference

12 December 2020

100,000 protein structures for the biologist

1 reference

12 December 2020

Site-directed spin-labeling study of the structure and subunit interactions along a conserved sequence in the alpha-crystallin domain of heat-shock protein 27. Evidence of a conserved subunit interface

1 reference

12 December 2020

Identification of protein folding patterns using site-directed spin labeling. Structural characterization of a beta-sheet and putative substrate binding regions in the conserved domain of alpha A-crystallin

1 reference

12 December 2020

Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteins

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12 December 2020

10.1016/J.STR.2007.11.015

Identifiers

DOI

1 reference

15 August 2017

1 reference

15 August 2017

PubMed publication ID

18275810

1 reference