(Q28361327)

English

Molecular dynamics simulation of Escherichia coli dihydrofolate reductase and its protein fragments: relative stabilities in experiment and simulations

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scholarly article

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Molecular dynamics simulation of Escherichia coli dihydrofolate reductase and its protein fragments: relative stabilities in experiment and simulations (English)

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molecular dynamics simulation

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Escherichia coli

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based on heuristic

inferred from title

4

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object named as

B Ma

2

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author name string

Y Y Sham

1

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C J Tsai

3

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language of work or name

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publication date

January 2001

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Protein Science

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10

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1

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135-48

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The crystal structure of dihydrofolate reductase from Thermotoga maritima: molecular features of thermostability

1 reference

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20 March 2017

Effective energy function for proteins in solution

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20 March 2017

Loop and subdomain movements in the mechanism of Escherichia coli dihydrofolate reductase: crystallographic evidence

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

20 March 2017

Hydrophobic folding units derived from dissimilar monomer structures and their interactions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

20 March 2017

Toward an outline of the topography of a realistic protein-folding funnel

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

20 March 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

20 March 2017

Crystal structures of Escherichia coli dihydrofolate reductase: the NADP+ holoenzyme and the folate.NADP+ ternary complex. Substrate binding and a model for the transition state

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

20 March 2017

Crystal structure of unliganded Escherichia coli dihydrofolate reductase. Ligand-induced conformational changes and cooperativity in binding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

20 March 2017

The Protein Data Bank: a computer-based archival file for macromolecular structures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

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Derivation of force fields for molecular mechanics and dynamics from ab initio energy surfaces

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

29 September 2017

Anatomy of protein structures: visualizing how a one-dimensional protein chain folds into a three-dimensional shape

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

29 September 2017

Folding and binding cascades: dynamic landscapes and population shifts

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

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Limited proteolysis of bovine alpha-lactalbumin: isolation and characterization of protein domains

1 reference

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29 September 2017

Folding and binding cascades: shifts in energy landscapes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

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Hierarchy of structure loss in MD simulations of src SH3 domain unfolding.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

29 September 2017

Folding funnels, binding funnels, and protein function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

29 September 2017

Is protein folding hierarchic? II. Folding intermediates and transition states

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

29 September 2017

Is protein folding hierarchic? I. Local structure and peptide folding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

29 September 2017

Foldons, protein structural modules, and exons

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

29 September 2017

Protein folding dynamics: the diffusion-collision model and experimental data

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29 September 2017

Principles of protein folding--a perspective from simple exact models.

1 reference

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29 September 2017

Refolding of Escherichia coli dihydrofolate reductase: sequential formation of substrate binding sites

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29 September 2017

Study of the stability and unfolding mechanism of BBA1 by molecular dynamics simulations at different temperatures.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

2 June 2018

Protein folding via binding and vice versa

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

2 June 2018

Probing minimal independent folding units in dihydrofolate reductase by molecular dissection

1 reference

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2 June 2018

Probing the partly folded states of proteins by limited proteolysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

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Identification and characterization of the unfolding transition state of chymotrypsin inhibitor 2 by molecular dynamics simulations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

2 June 2018

A reexamination of the folding mechanism of dihydrofolate reductase from Escherichia coli: verification and refinement of a four-channel model.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

2 June 2018

A strategy for testing the suitability of cysteine replacements in dihydrofolate reductase from Escherichia coli.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

2 June 2018

Transient intermediates in the folding of dihydrofolate reductase as detected by far-ultraviolet circular dichroism spectroscopy.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

2 June 2018

Folding of dihydrofolate reductase from Escherichia coli.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2249846

20 June 2018

The foldon universe: a survey of structural similarity and self-recognition of independently folding units 1 1Edited by F. E. Cohen

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Formation of unique structure in polypeptide chains. Theoretical investigation with the aid of a replica approach

1 reference

https://pubmed.ncbi.nlm.nih.gov/11266602

12 December 2020

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Acid and thermal denaturation of barnase investigated by molecular dynamics simulations

1 reference

https://pubmed.ncbi.nlm.nih.gov/11266602

12 December 2020

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Effects of point mutations at the flexible loop alanine-145 of Escherichia coli dihydrofolate reductase on its stability and function

1 reference

https://pubmed.ncbi.nlm.nih.gov/11266602

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1110/PS.33301

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