(Q28914731)

4

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author name string

Gregory D Friedland

1

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Anthony J Linares

2

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Colin A Smith

Journal of Molecular Biology

3

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language of work or name

English

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publication date

18 July 2008

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published in

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volume

380

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issue

4

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page(s)

757-74

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cites work

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On side-chain conformational entropy of proteins

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What contributions to protein side-chain dynamics are probed by NMR experiments? A molecular dynamics simulation analysis

16 March 2017

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The origin of protein sidechain order parameter distributions

16 March 2017

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

16 March 2017

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Effective energy function for proteins in solution

16 March 2017

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Correlation between dynamics and high affinity binding in an SH2 domain interaction

16 March 2017

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A hierarchy of timescales in protein dynamics is linked to enzyme catalysis

16 March 2017

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Intrinsic dynamics of an enzyme underlies catalysis

7 April 2017

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Protein structure prediction using Rosetta

7 April 2017

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A hierarchical approach to all-atom protein loop prediction

7 April 2017

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Evolutionarily conserved pathways of energetic connectivity in protein families

7 April 2017

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Hot-spot mimicry of a cytokine receptor by a small molecule

7 April 2017

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Relation between native ensembles and experimental structures of proteins

3 June 2018

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A common allosteric site and mechanism in caspases

3 June 2018

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Structural comparison of the two alternative transition states for folding of TI I27.

3 June 2018

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The backrub motion: how protein backbone shrugs when a sidechain dances

3 June 2018

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A "solvated rotamer" approach to modeling water-mediated hydrogen bonds at protein-protein interfaces

3 June 2018

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Simultaneous determination of protein structure and dynamics.

3 June 2018

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Analysis of side chain mobility among protein G B1 domain mutants with widely varying stabilities

3 June 2018

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Is allostery an intrinsic property of all dynamic proteins?

3 June 2018

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Correlation between 2H NMR side-chain order parameters and sequence conservation in globular proteins

3 June 2018

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Prediction of methyl-side chain dynamics in proteins.

3 June 2018

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Improved side-chain prediction accuracy using an ab initio potential energy function and a very large rotamer library

3 June 2018

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The role of dynamics in allosteric regulation

3 June 2018

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Increased rigidity of eglin c at acidic pH: evidence from NMR spin relaxation and MD simulations

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Dynamics and entropy of a calmodulin-peptide complex studied by NMR and molecular dynamics

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Side-chain modeling with an optimized scoring function

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Enzyme-like proteins by computational design

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Extending the accuracy limits of prediction for side-chain conformations

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Calculation of ensembles of structures representing the unfolded state of an SH3 domain.

3 June 2018

1 reference

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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=3574579

Redistribution and loss of side chain entropy upon formation of a calmodulin-peptide complex

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Backbone and methyl dynamics of the regulatory domain of troponin C: anisotropic rotational diffusion and contribution of conformational entropy to calcium affinity.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Probing the role of packing specificity in protein design

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Bayesian statistical analysis of protein side-chain rotamer preferences

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Protein design automation

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Application of a self-consistent mean field theory to predict protein side-chains conformation and estimate their conformational entropy

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Conformational substates in a protein: structure and dynamics of metmyoglobin at 80 K.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Denatured states of proteins

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Dynamics of the aromatic amino acid residues in the globular conformation of the basic pancreatic trypsin inhibitor (BPTI)

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Multiscale Optimization of a Truncated Newton Minimization Algorithm and Application to Proteins and Protein-Ligand Complexes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Analysis of deuterium relaxation-derived methyl axis order parameters and correlation with local 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=3574579

Backbone and side chain dynamics of mutant calmodulin-peptide complexes

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Relating side-chain mobility in proteins to rotameric transitions: insights from molecular dynamics simulations and NMR.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Intramolecular signaling pathways revealed by modeling anisotropic thermal diffusion

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Long-range dynamic effects of point mutations propagate through side chains in the serine protease inhibitor eglin c.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Linkage between dynamics and catalysis in a thermophilic-mesophilic enzyme pair

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Anisotropic small amplitude Peptide plane dynamics in proteins from residual dipolar couplings

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Hydrophobic core fluidity of homologous protein domains: relation of side-chain dynamics to core composition and packing.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

An orientation-dependent hydrogen bonding potential improves prediction of specificity and structure for proteins and protein-protein complexes

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

An increase in side chain entropy facilitates effector binding: NMR characterization of the side chain methyl group dynamics in Cdc42Hs

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3574579

Backbone and side chain dynamics of uncomplexed human adipocyte and muscle fatty acid-binding 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=3574579

Evaluation of energetic and dynamic coupling networks in a PDZ domain protein

26 November 2018

1 reference

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Dynamics of a de novo designed three-helix bundle protein studied by 15N, 13C, and 2H NMR relaxation methods

1 reference

12 December 2020

Main chain and side chain dynamics of a heme protein: 15N and 2H NMR relaxation studies of R. capsulatus ferrocytochrome c2

1 reference

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Main chain and side chain dynamics of oxidized flavodoxin from Cyanobacterium anabaena

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12 December 2020

Correlation between binding and dynamics at SH2 domain interfaces

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The Effects of Mutations on Motions of Side-chains in Protein L Studied by 2H NMR Dynamics and Scalar Couplings

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12 December 2020

Characterization of the backbone and side chain dynamics of the CaM-CaMKIp complex reveals microscopic contributions to protein conformational entropy

1 reference

12 December 2020

Improved modeling of side-chains in proteins with rotamer-based methods: A flexible rotamer model

1 reference

12 December 2020