(Q28367422)

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Enzyme specificity under dynamic control II: Principal component analysis of alpha-lytic protease using global and local solvent boundary conditions

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scholarly article

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Enzyme specificity under dynamic control II: Principal component analysis of alpha-lytic protease using global and local solvent boundary conditions (English)

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principal component analysis

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boundary condition

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author name string

N Ota

1

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D A Agard

2

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language of work or name

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publication date

July 2001

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Protein Science

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10

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7

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1403-14

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Direct structural observation of an acyl-enzyme intermediate in the hydrolysis of an ester substrate by elastase

1 reference

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20 March 2017

Kinetic and structural characterization of mutations of glycine 216 in alpha-lytic protease: a new target for engineering substrate specificity

1 reference

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20 March 2017

Refined structure of alpha-lytic protease at 1.7 A resolution. Analysis of hydrogen bonding and solvent structure

1 reference

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20 March 2017

Serine protease mechanism: structure of an inhibitory complex of alpha-lytic protease and a tightly bound peptide boronic acid

1 reference

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20 March 2017

Structural plasticity broadens the specificity of an engineered protease

1 reference

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20 March 2017

Structural analysis of specificity: alpha-lytic protease complexes with analogues of reaction intermediates

1 reference

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20 March 2017

Structural basis for broad specificity in alpha-lytic protease mutants

1 reference

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20 March 2017

Dynamics of folded proteins

1 reference

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20 March 2017

NMR - this other method for protein and nucleic acid structure determination.

1 reference

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29 September 2017

Investigating protein dynamics in collective coordinate space

1 reference

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29 September 2017

Enzyme specificity under dynamic control: a normal mode analysis of alpha-lytic protease

1 reference

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29 September 2017

Domain motions in bacteriophage T4 lysozyme: a comparison between molecular dynamics and crystallographic data.

1 reference

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29 September 2017

Conformational substates in enzyme mechanism: the 120 K structure of alpha-lytic protease at 1.5 A resolution

1 reference

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29 September 2017

Proline cis-trans isomerization in staphylococcal nuclease: multi-substrate free energy perturbation calculations

1 reference

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29 September 2017

Active site dynamics of ribonuclease

1 reference

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29 September 2017

Molecular dynamics simulations in biology

1 reference

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29 September 2017

Nucleotide binding to glycogen phosphorylase b in the crystal

1 reference

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29 September 2017

Molecular structure of the α-lytic protease from Myxobacter 495 at 2·8 Å resolution

1 reference

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29 September 2017

Laue crystallography: Lights! Camera! action!

1 reference

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2 June 2018

Harmonic and anharmonic aspects in the dynamics of BPTI: A normal mode analysis and principal component analysis

1 reference

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2 June 2018

Collective motions in proteins: A covariance analysis of atomic fluctuations in molecular dynamics and normal mode simulations

1 reference

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2 June 2018

Relationship between enzyme specificity and the backbone dynamics of free and inhibited alpha-lytic protease

1 reference

https://api.crossref.org/works/10.1110%2FPS.800101

21 January 2018

Effect of solvent on collective motions in globular protein.

1 reference

https://api.crossref.org/works/10.1110%2FPS.800101

21 January 2018

Comparison of simple potential functions for simulating liquid water

1 reference

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21 January 2018

The OPLS [optimized potentials for liquid simulations] potential functions for proteins, energy minimizations for crystals of cyclic peptides and crambin

1 reference

https://api.crossref.org/works/10.1110%2FPS.800101

21 January 2018

Comparison of normal mode analyses on a small globular protein in dihedral angle space and Cartesian coordinate space

1 reference

https://api.crossref.org/works/10.1110%2FPS.800101

21 January 2018

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

1 reference

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21 January 2018

Computer "Experiments" on Classical Fluids. I. Thermodynamical Properties of Lennard-Jones Molecules

1 reference

https://api.crossref.org/works/10.1110%2FPS.800101

21 January 2018

Molecular dynamics with coupling to an external bath

1 reference

https://api.crossref.org/works/10.1110%2FPS.800101

21 January 2018

Nature of Forces between Large Molecules of Biological Interest*

1 reference

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21 January 2018

Demonstration of the acyl-enzyme mechanism for the hydrolysis of peptides and anilides by chymotrypsin

1 reference

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Structure of crystalline alpha-chymotrypsin. 3. Crystallographic studies of substrates and inhibitors bound to the active site of alpha-chymotrypsin

1 reference

https://pubmed.ncbi.nlm.nih.gov/11420442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Protein dynamics in solution and in a crystalline environment: a molecular dynamics study

1 reference

https://pubmed.ncbi.nlm.nih.gov/11420442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular dynamics of native protein. II. Analysis and nature of motion

1 reference

https://pubmed.ncbi.nlm.nih.gov/11420442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Harmonicity and anharmonicity in protein dynamics: a normal mode analysis and principal component analysis

1 reference

https://pubmed.ncbi.nlm.nih.gov/11420442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comment on a "fluctuation and cross correlation analysis of protein motions observed in nanosecond molecular dynamics simulations"

1 reference

https://pubmed.ncbi.nlm.nih.gov/11420442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mechanism of action of serine proteases: tetrahedral intermediate and concerted proton transfer

1 reference

https://pubmed.ncbi.nlm.nih.gov/11420442

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1110/PS.800101

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