[HTML][HTML] Modeling membranes in situ

CM Brown, SJ Marrink - Current Opinion in Structural Biology, 2024 - Elsevier
Molecular dynamics simulations of cellular membranes have come a long way—from simple
model lipid bilayers to multicomponent systems capturing the crowded and complex nature …

Seeing is believing: Illuminating the Gram-negative outer membrane with molecular dynamics simulations

G Gutishvili, L Yang, JC Gumbart - Current Opinion in Structural Biology, 2024 - Elsevier
Recent advances in molecular dynamics (MD) simulations have led to rapid improvement in
our understanding of the molecular details of the outer membranes (OMs) of Gram-negative …

[HTML][HTML] Polymyxin B1 in the Escherichia coli inner membrane: A complex story of protein and lipopolysaccharide-mediated insertion

D Weerakoon, JK Marzinek, C Pedebos… - Journal of Biological …, 2024 - Elsevier
The rise in multi-drug resistant Gram-negative bacterial infections has led to an increased
need for “last-resort” antibiotics such as polymyxins. However, the emergence of polymyxin …

Multifaceted Activity of Fabimycin: Insights from Molecular Dynamics Studies on Bacterial Membrane Models

M Rzycki, D Drabik - Journal of Chemical Information and …, 2024 - ACS Publications
Membranes─ cells' essential scaffolds─ are valid molecular targets for substances with an
antimicrobial effect. While certain substances, such as octenidine, have been developed to …

An integrative modelling approach to the mitochondrial cristae

CM Brown, MSS Westendorp, R Zarmiento-Garcia… - bioRxiv, 2024 - biorxiv.org
Mitochondria are implicated in many cellular functions such as energy production and
apoptosis but also disease pathogenesis. To effectively perform these roles, the …

Examining the Biophysical Properties of the Inner Membrane of Gram-Negative ESKAPE Pathogens

G Gazerani, LR Piercey, S Reema, KA Wilson - bioRxiv, 2024 - biorxiv.org
The World Health Organization has identified multidrug-resistant bacteria as a serious
global health threat. Gram-negative bacteria are particularly prone to antibiotic resistance …

Supporting the CIF file format of proteins in molecular dynamics simulations

H Wang, Z Zhang - JUSTC, 2024 - justc.ustc.edu.cn
Molecular dynamics (MD) simulations can capture the dynamic behavior of proteins in full
atomic detail and at very fine temporal resolution, so they have become an important tool in …

[PDF][PDF] Computational modeling of bacterial chromosome organization: macromolecular crowding, chain heterogeneity, and chain cross-linking

AHS Isfahani - 2024 - uwspace.uwaterloo.ca
Chromosome organization is integral to life, as it plays a pivotal role in maintaining the
integrity and functionality of genomic materials, as well as facilitating the transcription …