Resolving the complex role of enzyme conformational dynamics in catalytic function (Q35889390)

10 August 2017

Resolving the complex role of enzyme conformational dynamics in catalytic function (English)

1 reference

10 August 2017

Urmi Doshi

1

1 reference

10 August 2017

Lauren C McGowan

series ordinal

2

1 reference

10 August 2017

Safieh Tork Ladani

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3

1 reference

10 August 2017

Donald Hamelberg

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4

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10 August 2017

language of work or name

English

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publication date

26 March 2012

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10 August 2017

6

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Proceedings of the National Academy of Sciences of the United States of America

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published in

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10 August 2017

109

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10 August 2017

15

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10 August 2017

5699-5704

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Catalysis by dihydrofolate reductase and other enzymes arises from electrostatic preorganization, not conformational motions

10 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

A dynamic knockout reveals that conformational fluctuations influence the chemical step of enzyme catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Enzyme dynamics point to stepwise conformational selection in catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Role of conformation transitions in adenylate kinase

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

At the dawn of the 21st century: Is dynamics the missing link for understanding enzyme catalysis?

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Hidden alternative structures of proline isomerase essential for catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Toward a unified representation of protein structural dynamics in solution.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Enzyme millisecond conformational dynamics do not catalyze the chemical step

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

A unified model of protein dynamics.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Mechanistic insight into the role of transition-state stabilization in cyclophilin A.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Dynamic personalities of proteins

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Protein folding kinetics: barrier effects in chemical and thermal denaturation experiments

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Electrostatic basis for enzyme catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Relating protein motion to catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Fluctuating enzymes: lessons from single-molecule studies.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Intrinsic dynamics of an enzyme underlies catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Molecular dynamics and protein function

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Determination of barrier heights and prefactors from protein folding rate data

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Protein dynamics and enzymatic catalysis: investigating the peptidyl-prolyl cis-trans isomerization activity of cyclophilin A.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

How enzymes work: analysis by modern rate theory and computer simulations

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

A perspective on enzyme catalysis.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Enzyme dynamics during catalysis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

The depth of chemical time and the power of enzymes as catalysts.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Limited internal friction in the rate-limiting step of a two-state protein folding reaction

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

The Energy Landscapes and Motions of Proteins

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

A Fourier method for the analysis of exponential decay curves

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3326486

Accelerated molecular dynamics: a promising and efficient simulation method for biomolecules

11 July 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Kinetic Analysis of Cyclophilin-Catalyzed Prolyl Cis/Trans Isomerization by Dynamic NMR Spectroscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Extracting Realistic Kinetics of Rare Activated Processes from Accelerated Molecular Dynamics Using Kramers' Theory.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Enhanced conformational space sampling improves the prediction of chemical shifts in proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Two-dimensional reaction free energy surfaces of catalytic reaction: effects of protein conformational dynamics on enzyme catalysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Reaction-rate theory: fifty years after Kramers

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Reoptimization of the AMBER force field parameters for peptide bond (Omega) torsions using accelerated molecular dynamics

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

What is so special about Arg 55 in the catalysis of cyclophilin A? insights from hybrid QM/MM simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Reply to Karplus: Conformational dynamics have no role in the chemical step

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1117060109

Examining the limits of time reweighting and Kramers' rate theory to obtain correct kinetics from accelerated molecular dynamics

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22451902

12 December 2020

inferred from PubMed ID database lookup

Exploring multiple timescale motions in protein GB3 using accelerated molecular dynamics and NMR spectroscopy

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22451902

12 December 2020

inferred from PubMed ID database lookup

Water’s Contribution to the Energetic Roughness from Peptide Dynamics

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22451902

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1073/PNAS.1117060109

1 reference

10 August 2017

0 references

1 reference

10 August 2017

PubMed publication ID

22451902

1 reference