Two decades of Martini: Better beads, broader scope
The Martini model, a coarse‐grained force field for molecular dynamics simulations, has
been around for nearly two decades. Originally developed for lipid‐based systems by the …
been around for nearly two decades. Originally developed for lipid‐based systems by the …
Perspective: Coarse-grained models for biomolecular systems
WG Noid - The Journal of chemical physics, 2013 - pubs.aip.org
By focusing on essential features, while averaging over less important details, coarse-
grained (CG) models provide significant computational and conceptual advantages with …
grained (CG) models provide significant computational and conceptual advantages with …
The MARTINI force field: coarse grained model for biomolecular simulations
We present an improved and extended version of our coarse grained lipid model. The new
version, coined the MARTINI force field, is parametrized in a systematic way, based on the …
version, coined the MARTINI force field, is parametrized in a systematic way, based on the …
The MARTINI coarse-grained force field: extension to proteins
Many biologically interesting phenomena occur on a time scale that is too long to be studied
by atomistic simulations. These phenomena include the dynamics of large proteins and self …
by atomistic simulations. These phenomena include the dynamics of large proteins and self …
Coarse grained model for semiquantitative lipid simulations
This paper describes the parametrization of a new coarse grained (CG) model for lipid and
surfactant systems. Reduction of the number of degrees of freedom together with the use of …
surfactant systems. Reduction of the number of degrees of freedom together with the use of …
A review of advancements in coarse-grained molecular dynamics simulations
Over the last few years, coarse-grained molecular dynamics has emerged as a way to model
large and complex systems in an efficient and inexpensive manner due to its lowered …
large and complex systems in an efficient and inexpensive manner due to its lowered …
A multiscale coarse-graining method for biomolecular systems
A new approach is presented for obtaining coarse-grained (CG) force fields from fully
atomistic molecular dynamics (MD) trajectories. The method is demonstrated by applying it …
atomistic molecular dynamics (MD) trajectories. The method is demonstrated by applying it …
Water in nanopores and biological channels: a molecular simulation perspective
This Review explores the dynamic behavior of water within nanopores and biological
channels in lipid bilayer membranes. We focus on molecular simulation studies, alongside …
channels in lipid bilayer membranes. We focus on molecular simulation studies, alongside …
The power of coarse graining in biomolecular simulations
Computational modeling of biological systems is challenging because of the multitude of
spatial and temporal scales involved. Replacing atomistic detail with lower resolution …
spatial and temporal scales involved. Replacing atomistic detail with lower resolution …
The multiscale coarse-graining method. I. A rigorous bridge between atomistic and coarse-grained models
Coarse-grained (CG) models provide a computationally efficient method for rapidly
investigating the long time-and length-scale processes that play a critical role in many …
investigating the long time-and length-scale processes that play a critical role in many …