Questions tagged [membrane-protein]
A protein comprising at least one hybdrophobic domain which attaches/anchors within the lipid bilayer of an animal cell. A chanel protein is a special case of a membrane protein.
3
questions
3
votes
1
answer
162
views
Gromacs molecular dynamic simulation throwing error during minimization
I am trying to investigate a membrane proteins influence on a lipid bilayer using molecular dynamics. I am new to MD and trying to run my first simulation. I have built the simulation input files ...
- 221
4
votes
1
answer
88
views
Is there a modern alignment tool tailored for transmembrane regions?
I am looking for a project or tool that allows programmatic pairwise alignments of proteins but that takes care with transmembrane regions of proteins. TM regions are traditionally too information ...
- 399
5
votes
0
answers
61
views
What is a sensible forcefield choice for membrane proteins when using PDB2PQR?
I am generating PQR files for a membrane protein that is almost entirely buried in the membrane. The goal is to calculate the electrostatic charge across the surface of the protein. There are no ...
- 399