Paper Info
Title
Quantitative Estimation Of Cyclotide-Induced Bilayer Membrane Disruption By Lipid Extraction With Mesoscopic Simulation
Abstract
Cyclotide-induced membrane disruption is studied at the microsecond timescale by dissipative particle dynamics to quantitatively estimate a kinetic rate constant for membrane lipid extraction with a "sandwich" interaction model where two bilayer membranes enclose a cyclotide/water compartment. The obtained bioactivity trends for cyclotides Kalata B1, Cycloviolacin O2, and selected mutants with different membrane types are in agreement with experimental findings: For all membranes investigated, Cycloviolacin O2 shows a higher lipid extraction activity than Kalata B1. The presence of cholesterol leads to a decreased cyclotide activity compared to cholesterol-free membranes. Phosphoethanolamine-rich membranes exhibit an increased membrane disruption. A cyclotide's "hydrophobic patch" surface area is important for its bioactivity. A replacement of or with charged amino acid residues may lead to super-mutants with above-native activity but without simple charge-activity patterns. Cyclotide mixtures show linearly additive bioactivities without significant sub- or over-additive effects. The proposed method can be applied as a fast and easy-to-use tool for exploring structure-activity relationships of cyclotide/membrane systems: With the open software provided, the rate constant of a single cyclotide/membrane system can be determined in about 1 day by a scientific end-user without programming skills.
Year
DOI
Venue
2021
10.1021/acs.jcim.1c00332
JOURNAL OF CHEMICAL INFORMATION AND MODELING
DocType
Volume
Issue
Journal
61
6
ISSN
Citations 
PageRank 
1549-9596
0
0.34
References 
Authors
0
5
Name
Order
Citations
PageRank
van den Broek K100.34
Epple M200.34
Kersten Ls300.34
Kuhn H400.34
Zielesny A500.34