Importance of the linker region in matrix metalloproteinase-1 domain interactions

Dynamic Water-Mediated Hydrogen Bonding in a Collagen Model Peptide

(2015) Iwen Fu et al.   BIOCHEMISTRY

Extensive Simulations of the Full-Length Matrix Metalloproteinase-2 Enzyme in a Prereactive Complex with a Collagen Triple-Helical Peptide

(2015) Natalia Díaz et al.   BIOCHEMISTRY

Potential clinical implications of recent matrix metalloproteinase inhibitor design strategies

(2015) Sabrina Amar et al.   Expert Review of Proteomics

Unraveling the Molecular Structure of the Catalytic Domain of Matrix Metalloproteinase-2 in Complex with a Triple-Helical Peptide by Means of Molecular Dynamics Simulations

(2013) Natalia Díaz et al.   BIOCHEMISTRY

GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit

(2013) Sander Pronk et al.   BIOINFORMATICS

Conformational Effects on the pro - S Hydrogen Abstraction Reaction in Cyclooxygenase-1: An Integrated QM/MM and MD Study

(2013) Christo Z. Christov et al.   BIOPHYSICAL JOURNAL

Molecular dynamics simulation study on the interaction of collagen-like peptides with gelatinase-A (MMP-2)

(2013) E. R. Azhagiya Singam et al.   BIOPOLYMERS

Examination of Matrix Metalloproteinase-1 in Solution

(2013) Linda Cerofolini et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Interstitial Collagen Catabolism

(2013) Gregg B. Fields   JOURNAL OF BIOLOGICAL CHEMISTRY

Insight into the Degradation of Type-I Collagen Fibrils by MMP-8

(2013) Kuojung G. Lu et al.   JOURNAL OF MOLECULAR BIOLOGY

The collagenolytic action of MMP-1 is regulated by the interaction between the catalytic domain and the hinge region

(2012) Giovanni Francesco Fasciglione et al.   JOURNAL OF BIOLOGICAL INORGANIC CHEMISTRY

Alternative Interdomain Configurations of the Full-Length MMP-2 Enzyme Explored by Molecular Dynamics Simulations

(2012) Natalia Díaz et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Structural insights into triple-helical collagen cleavage by matrix metalloproteinase 1

(2012) S. W. Manka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Automatic generation of protein structure cartoons with Pro-origami

(2011) A. Stivala et al.   BIOINFORMATICS

The Interface between Catalytic and Hemopexin Domains in Matrix Metalloproteinase-1 Conceals a Collagen Binding Exosite

(2011) Laurence H. Arnold et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural Basis for Matrix Metalloproteinase 1-Catalyzed Collagenolysis

(2011) Ivano Bertini et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Identification of Specific Hemopexin-like Domain Residues That Facilitate Matrix Metalloproteinase Collagenolytic Activity

(2009) Janelle L. Lauer-Fields et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Kinetic and binding effects in peptide substrate selectivity of matrix metalloproteinase-2: Molecular dynamics and QM/MM calculations

(2009) Natalia Díaz et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Entropic Control of the Relative Stability of Triple-helical Collagen Peptide Models

(2008) Ernesto Suárez et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Peptide Hydrolysis Catalyzed by Matrix Metalloproteinase 2: A Computational Study

(2008) Dr. Natalia Díaz et al.   JOURNAL OF PHYSICAL CHEMISTRY B

From the X-ray Compact Structure to the Elongated Form of the Full-Length MMP-2 Enzyme in Solution: A Molecular Dynamics Study

(2008) Natalia Díaz et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

P-LINCS:  A Parallel Linear Constraint Solver for Molecular Simulation

(2007) Berk Hess   Journal of Chemical Theory and Computation