Get OPM Database And PPM Web Server - Nucleic Acids Research - Nar Oxfordjournals

Hear this out loud PauseA transmembrane protein always has a unique orientation in the membrane. This reflects both the asymmetric manner in which it is synthesized and inserted into the lipid bilayer in the ER and the different functions of its cytosolic and noncytosolic domains.

Orientations of Proteins in Membranes (OPM) database provides spatial positions of membrane protein structures with respect to the lipid bilayer. Positions of the proteins are calculated using an implicit solvation model of the lipid bilayer.

Hear this out loud PauseThe principal method that has been used to determine membrane protein orientation is the 15N-based two-dimensional experiment, PISEMA, in which the N-H dipolar coupling and 15N chemical shift anisotropy (CSA) of a macroscopically aligned membrane protein are correlated.

PPM Server functionality: calculation of rotational and translational positions in membranes of transmembrane (polytopic and monotopic) and peripheral proteins and peptides using their 3D structures as input.

Hear this out loud PauseA database of membrane proteins embedded in lipid bilayers MemProtMD is a database of over 7000 intrinsic membrane protein structures identified in the Protein Data Bank, inserted into simulated lipid bilayers using Coarse-Grained Self Assembly Molecular Dynamics simulations.

Hear this out loud PauseMembrane proteins may extend partway into the plasma membrane, cross the membrane entirely, or be loosely attached to its inside or outside face. Carbohydrate groups are present only on the outer surface of the plasma membrane and are attached to proteins, forming glycoproteins, or lipids, forming glycolipids.