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A two‐phase volume of fluid approach to model rigid‐perfectly plastic granular materials

International journal for numerical methods in fluids, 2024-07

2024

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Stability and dynamics of G-actin: back-door water diffusion and behavior of a subdomain 3/4 loop

Biophysical journal, 1997-08, Vol.73 (2), p.624-639

1997

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Multi-resolution contour-based fitting of macromolecular structures

Journal of molecular biology, 2002-03, Vol.317 (3), p.375-384

2002

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Predicting the structure of apolipoprotein A-I in reconstituted high-density lipoprotein disks

Biophysical journal, 1997-11, Vol.73 (5), p.2337-2346

1997

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Control of protein functional dynamics by peptide linkers

Biopolymers, 2005, Vol.80 (6), p.736-746

2005

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Using Situs for Flexible and Rigid-Body Fitting of Multiresolution Single-Molecule Data

Journal of structural biology, 2001-02, Vol.133 (2-3), p.193-202

2001

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Like-Charge Attraction between Polyelectrolytes Induced by Counterion Charge Density Waves

Proceedings of the National Academy of Sciences - PNAS, 2003-07, Vol.100 (15), p.8634-8637

2003

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Direct observation of counterion organization in F-actin polyelectrolyte bundles

The European physical journal. E, Soft matter and biological physics, 2005-04, Vol.16 (4), p.389-400

2005

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Modeling Tricks and Fitting Techniques for Multiresolution Structures

Structure (London), 2001-09, Vol.9 (9), p.779-788

2001

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Principal Component Analysis and Long Time Protein Dynamics

Journal of physical chemistry (1952), 1996-02, Vol.100 (7), p.2567-2572

1996

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Structure and Function of the Transcription Elongation Factor GreB Bound to Bacterial RNA Polymerase

Cell, 2003-08, Vol.114 (3), p.335-345

2003

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Exploring Global Distortions of Biological Macromolecules and Assemblies from Low-resolution Structural Information and Elastic Network Theory

Journal of molecular biology, 2002-08, Vol.321 (2), p.297-305

2002

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Mega-Dalton Biomolecular Motion Captured from Electron Microscopy Reconstructions

Journal of molecular biology, 2003-02, Vol.326 (2), p.485-492

2003

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Simulating nanoscale functional motions of biomolecules

Molecular simulation, 2006-09, Vol.32 (10-11), p.803-815

2006

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Conformations of variably linked chimeric proteins evaluated by synchrotron X-ray small-angle scattering

Proteins, structure, function, and bioinformatics, 2004-12, Vol.57 (4), p.829-838

2004

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Using Situs for the registration of protein structures with low-resolution bead models from X-ray solution scattering

Journal of applied crystallography, 2001-12, Vol.34 (6), p.773-776

2001

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Situs: A Package for Docking Crystal Structures into Low-Resolution Maps from Electron Microscopy

Journal of structural biology, 1999-04, Vol.125 (2-3), p.185-195

1999

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Protein domain movements: detection of rigid domains and visualization of hinges in comparisons of atomic coordinates

Proteins, structure, function, and bioinformatics, 1997-09, Vol.29 (1), p.1-14

1997

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Actin Depolymerizing Factor Stabilizes an Existing State of F-Actin and Can Change the Tilt of F-Actin Subunits

The Journal of cell biology, 2001-04, Vol.153 (1), p.75-86

2001

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Investigating a back door mechanism of actin phosphate release by steered molecular dynamics

Proteins, structure, function, and bioinformatics, 1999-05, Vol.35 (2), p.262-273

1999

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Conformational Flexibility of Bacterial RNA Polymerase

Proceedings of the National Academy of Sciences - PNAS, 2002-04, Vol.99 (7), p.4296-4301

2002

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Spanning the Length Scales of Biomolecular Simulation

Structure, 2004-01, Vol.12 (1), p.1-2

Wriggers, Willy

2004

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Limulus polyphemus Hemocyanin: 10 Å Cryo-EM Structure, Sequence Analysis, Molecular Modelling and Rigid-body Fitting Reveal the Interfaces Between the Eight Hexamers

Journal of molecular biology, 2007-03, Vol.366 (4), p.1332-1350

2007

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Interactive fitting augmented by force-feedback and virtual reality

Journal of structural biology, 2003-10, Vol.144 (1), p.123-131

2003

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Fast rotational matching of rigid bodies by fast Fourier transform acceleration of five degrees of freedom

Acta crystallographica. Section D, Biological crystallography., 2003-08, Vol.59 (8), p.1371-1376

2003

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A two‐phase volume of fluid approach to model rigid‐perfectly plastic granular materials

Stability and dynamics of G-actin: back-door water diffusion and behavior of a subdomain 3/4 loop

Multi-resolution contour-based fitting of macromolecular structures

Predicting the structure of apolipoprotein A-I in reconstituted high-density lipoprotein disks

Control of protein functional dynamics by peptide linkers

Using Situs for Flexible and Rigid-Body Fitting of Multiresolution Single-Molecule Data

Like-Charge Attraction between Polyelectrolytes Induced by Counterion Charge Density Waves

Direct observation of counterion organization in F-actin polyelectrolyte bundles

Modeling Tricks and Fitting Techniques for Multiresolution Structures

Principal Component Analysis and Long Time Protein Dynamics

Structure and Function of the Transcription Elongation Factor GreB Bound to Bacterial RNA Polymerase

Exploring Global Distortions of Biological Macromolecules and Assemblies from Low-resolution Structural Information and Elastic Network Theory

Mega-Dalton Biomolecular Motion Captured from Electron Microscopy Reconstructions

Simulating nanoscale functional motions of biomolecules

Conformations of variably linked chimeric proteins evaluated by synchrotron X-ray small-angle scattering

Using Situs for the registration of protein structures with low-resolution bead models from X-ray solution scattering

Situs: A Package for Docking Crystal Structures into Low-Resolution Maps from Electron Microscopy

Protein domain movements: detection of rigid domains and visualization of hinges in comparisons of atomic coordinates

Actin Depolymerizing Factor Stabilizes an Existing State of F-Actin and Can Change the Tilt of F-Actin Subunits

Investigating a back door mechanism of actin phosphate release by steered molecular dynamics

Conformational Flexibility of Bacterial RNA Polymerase

Spanning the Length Scales of Biomolecular Simulation

Limulus polyphemus Hemocyanin: 10 Å Cryo-EM Structure, Sequence Analysis, Molecular Modelling and Rigid-body Fitting Reveal the Interfaces Between the Eight Hexamers

Interactive fitting augmented by force-feedback and virtual reality

Fast rotational matching of rigid bodies by fast Fourier transform acceleration of five degrees of freedom

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