title: Conformation of gramicidin a in water: inference from analysis of hydrogen/deuterium exchange behavior by matrix assisted laser desorption ionization mass spectrometry.
abstract: Gramicidin A (the major component of gramicidin D) is a highly hydrophobic peptide with very little solubility in water. Hence, the conformation of this peptide has been extensively investigated in organic solvents and model membranes, but not in water. The peptide adopts a beta6.3-helical conformation in the monomeric and dimeric forms. We have investigated the conformation of gramicidin A in water by monitoring hydrogen-deuterium exchange by matrix-assisted laser desorption ionization-time-of-flight mass spectrometry. Our results indicate that gramicidin A is monomeric and exists in a highly folded conformation. The metal ion bound forms are clearly discernible in the monomers. The presence of the dimeric form is not observed. It is unlikely this is due to the operating conditions or the method used, as both hetero- and homodimers in gramicidin D are detected when methanol is used as a solvent. The present study also establishes that the linear gramicidins retain a history of solvent environment when ions are generated by matrix-assisted laser desorption ionization and analyzed by time-of-flight.
authors.affiliation: Centre for Cellular and Molecular Biology,Uppal Road,Hyderabad 500 007, India. jagan@ccmb.res.in
authors.forename: M V
authors.initials: MV
authors.lastname: Jagannadham
authors.forename: Ramakrishnan
authors.initials: R
authors.lastname: Nagaraj
mesh_terms: D000890:Anti-Infective Agents / Q000737:chemistry; D003903:Deuterium / Q000737:chemistry* / Q000378:metabolism; D041961:Deuterium Exchange Measurement; D006096:Gramicidin / Q000737:chemistry*; D006859:Hydrogen / Q000737:chemistry* / Q000378:metabolism; D017433:Protein Structure, Secondary; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; D014867:Water / Q000737:chemistry*
chemical_list: D000890:Anti-Infective Agents; D014867:Water; D006096:Gramicidin; D006859:Hydrogen; D003903:Deuterium