Question

If an adrenergic receptor is a GCPR. Which technique below would best one to confirm that? Hydropathy plot, FRAP analysis, or siRNA knock-down

Answer 1

Hydropathy plot is the best method. Helical amphiphilicity can be quantified by determining the effective hydrophobicities at different positions in helix. The effective hydrophobicity includes not only the hydrophobicity of the amino acid residue at that angle but also contributions from the hydrophobicities of all other residues in the helix. Individual amino acid residues that point towards the interior of the protein are responsible for ligand binding through a combination of covalent, electrostatic and van der waals interactions. A model of a GPCR should preserve these binding features and those that rationalize the protein's core. Once the transmembrane helical scaffold has been constructed, helices have to be rotated such that. Presumably, the hydrophilic side of the helix is pointed towards the interior of the protein i.e. where ligand binding is expected to take place. This positions the hydrophobic side of the helix towards the hydrophobic lipid bilayer.