1.2 Features

The MembraneEditor 2.1 was the replacement of the 2.0 version, a very simple proof-of-concept version. The visualization was still 2D based. The new 2.2 version supports 3D. For more historical facts on the MembraneEditor, please see the history page.

A screenshot of the old MembraneEditor 2.0 in action

 

The MembraneEditor 2.2 offers a lot of useful features. Some of them are listed here:

• a fully flexible and customizable GUI framework
• a simple database window to manage your local pdb files for this application
• a 3-dimensional presentation that provides a good overview and affords a free, non-gradual placing of all molecule members. It also provides more accurate molecular forms
• the ability to find and retrieve required files from the PDB as well as the OPM
• an automated Protein alignment based on OPM or PDBTM alignment data
• a tool that allows you to fill in any desired title sections of the membrane
• a restriction management system to handle your contents without exceeding PDB limits and to ensure maximum compatibility
• 4 different atomic display styles: Van-der-Waals, Covalent, Sticks, Balls & Sticks
• the ability to define microdomains (areas with different lipid compositions)
• the ability to create models with multiple bilayers
• an editor that allows to edit the conformation and/or granularity of
  a molecule by creating so called "molecule profiles"
• the ability to choose and adjust algorithms used to build up the lipid bilayer
• a plug in system for the lipid placing algorithms, which allows any user with basic Java knowledge to access a variety of relevant data and to write his/her own algorithms for his/her purposes
• a built-in preview option that displays your current membrane or single molecules in a Standalone-Jmol application
• a powerful writer for generating the pdb file with a maximum compatibility
• the ability to reimport already saved and altered membrane files
  into the application's data structure

Kobe Mentality 3