Tool stats & trends
Looking to identify usage trends or leading experts?
|Interface||Web user interface|
|Restrictions to use||None|
- person_outline Seyed Shahriar Arab
Publication for MemBuilder
Binding Modes of Teixobactin to Lipid II: Molecular Dynamics Study
[…] velocities.After the TXB-LII complex was stabilized in the aqueous simulations, we checked the stability of the complex in a membrane environment. The membrane model was built utilizing a web server MemBuilder II and parameterized with a Slipids force field published by Jambeck and Lyubertsev–, which is compatible with AMBER force field. In the prepared lipid bilayer, each leaflet of the membrane […]
Micelle Maker: An Online Tool for Generating Equilibrated Micelles as Direct Input for Molecular Dynamics Simulations
[…] ructures, avoiding a modeler’s frustration with error-prone models and equilibration issues.We note here as an aside two more tools of value when generating micelles. The first is an extension to the MemBuilder server (MemBuilder II, http://bioinf.modares.ac.ir/software/mb2/), which was originally developed to build lipid bilayers but has now also been extended to build micelles and liposomes. The […]
Membrane Mediated Antimicrobial and Antitumor Activity of Cathelicidin 6: Structural Insights from Molecular Dynamics Simulation on Multi Microsecond Scale
[…] ural properties in the absence of lipid membrane environments in AMBER99SB-ILDN  and CHARMM36  force fields for a time period of 0.5 μs. Anionic and zwitterionic lipid bilayers were created using MemBuilder  program and were equilibrated prior to peptide addition. The equilibrated lipid bilayer systems were considered for peptide-lipid structural analysis using Slipid/AMBER and AMBER99SB-ILD […]
Binding of the Antagonist Caffeine to the Human Adenosine Receptor hA2AR in Nearly Physiological Conditions
[…] Membrane models in systems I, II and III were generated using the MemBuilder tool . The inflateGRO code  was used to pack lipids around the hA2AR constructed in the previous step. The systems were inserted in a simulation box of size 14.8 nm x 11.1 nm x 10.0 nm. […]
Looking to check out a full list of citations?
Be the first to review MemBuilder