MemBuilder statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

MemBuilder specifications

Information


Unique identifier OMICS_08568
Name MemBuilder
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.0
Stability Beta
Maintained Yes

Maintainer


  • person_outline Seyed Shahriar Arab

Publication for MemBuilder

MemBuilder citations

 (4)
library_books

Binding Modes of Teixobactin to Lipid II: Molecular Dynamics Study

2017
Sci Rep
PMCID: 5722933
PMID: 29222455
DOI: 10.1038/s41598-017-17606-5

[…] 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 […]

library_books

Micelle Maker: An Online Tool for Generating Equilibrated Micelles as Direct Input for Molecular Dynamics Simulations

2017
PMCID: 5579539
PMID: 28884160
DOI: 10.1021/acsomega.7b00820

[…] 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 […]

library_books

Membrane Mediated Antimicrobial and Antitumor Activity of Cathelicidin 6: Structural Insights from Molecular Dynamics Simulation on Multi Microsecond Scale

2016
PLoS One
PMCID: 4938549
PMID: 27391304
DOI: 10.1371/journal.pone.0158702

[…] 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 […]

library_books

Binding of the Antagonist Caffeine to the Human Adenosine Receptor hA2AR in Nearly Physiological Conditions

2015
PLoS One
PMCID: 4439127
PMID: 25992797
DOI: 10.1371/journal.pone.0126833

[…] 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. […]

Citations

Looking to check out a full list of citations?

MemBuilder institution(s)
Department of Biophysics, School of Biological Sciences, Tarbiat Modares University, Tehran, Iran
MemBuilder funding source(s)
This research was in part supported by a grant from Biomath Research group at IPM.

MemBuilder reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review MemBuilder