CELLmicrocosmos.org forum

Hi, its me again :wink: Would it be possible to get upper and lower leaflet as individual chains in the generated .pdb-file? Of course I you could separately generate both layers but that would double the time. I am asking this because there is always a defined space between both layers and since I ...

So it will be not so easy, because these files will usually not contain any information about the atoms - only some coordinates representing positions and shapes. So I fear, you cannot just create a PDB file from this STL file by writing a script. Sure and that is not what I want to do. Does the gr...

Hmmm ... maybe there is some kind of .stl import plugin you just have to copy and paste. But I don't have an coding experience with Java, so I don't know the pitfalls. I am again playing around with this membrane fusing stuff (see the bug report ^^) and I want to ask if it is possible that the Advan...

It's me again :D there are some issues I came across. While editing the conformation of a lipid it happens that atom bonds are being stretched. Sometimes several bonds within the selection that is rotated strech, sometimes it is just the bond that is attached to the center of rotation. You can not s...

Thanks for the quick reply. I was hoping for this project to be still alive :) This is already possible. Just use the function "Add secondary bilayer to the model". The button you will find in the toolbar. With this option, you can add as many membranes or bilayers as you wish. And the col...

Hi, some things cross my mind: What about more complex formes of membranes like fusion events of lipsomes and membranes? Would it be possible to import a base mesh as template for placing lipids? Maybe a warning would be nice if you enter unreasonable small values for the semi-axis in the Vesicle Bu...

Hi, I am playing around with the Cm2 MembraneEditor and got stuck while trying to model micells and small liposomes. Everytime I try to create a micelle using the Vesicle Builder I get an error message (java.lang.NullPointer Exception). Lipids were assigned to EC. By assigning lipids to IC they are ...