title: Molecular dynamics simulations of GABA binding to the GABAC receptor: the role of Arg104.
abstract: GABA is the major inhibitory neurotransmitter in the nervous system and acts at a variety of receptors including GABAC receptors, which are a subclass of GABAA receptors. Here we have used molecular dynamics simulations of GABA docked into the extracellular domain of the GABAC receptor to explain the molecular interactions of the neurotransmitter with the residues that contribute to the binding site; in particular, we have explored the interaction of GABA with Arg104. The simulations suggest that the amine group of GABA forms cation-pi interactions with Tyr102 and Tyr198, and hydrogen-bonds with Gln83, Glu220, Ser243, and Ser168, and, most prominently, with Arg104. Substituting Arg104 with Ala, Glu, or Lys, which experimentally disrupt GABAC receptor function, and repeating the simulation revealed fewer and different bonding patterns with GABA, or the rapid exit of GABA from the binding pocket. The simulations therefore unveil interactions of GABA within the binding pocket, and explain experimental data, which indicate that Arg104 is critical for the efficient functioning of the receptor.
authors.affiliation: Physics Department, King's College London, London, United Kingdom. claudio.melis@kcl.ac.uk
authors.forename: Claudio
authors.initials: C
authors.lastname: Melis
authors.forename: Sarah C R
authors.initials: SC
authors.lastname: Lummis
authors.forename: Carla
authors.initials: C
authors.lastname: Molteni
mesh_terms: D000595:Amino Acid Sequence; D001120:Arginine / Q000378:metabolism*; D020134:Catalytic Domain; D005110:Extracellular Space / Q000378:metabolism; D008958:Models, Molecular; D008969:Molecular Sequence Data; D016296:Mutagenesis; D050505:Mutant Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D009154:Mutation; D011485:Protein Binding; D017434:Protein Structure, Tertiary; D018079:Receptors, GABA / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D015203:Reproducibility of Results; D017386:Sequence Homology, Amino Acid; D014867:Water / Q000378:metabolism; D005680:gamma-Aminobutyric Acid / Q000378:metabolism*
chemical_list: C087200:GABA-C receptor; D050505:Mutant Proteins; D018079:Receptors, GABA; D014867:Water; D005680:gamma-Aminobutyric Acid; D001120:Arginine