title: Ligand dynamics in myoglobin: calculation of infrared spectra for photodissociated NO.
abstract: We present molecular dynamics simulations of the photodissociated state of MbNO performed at 300 K using a fluctuating charge model for the nitric oxide (NO) ligand. After dissociation, NO is observed to remain mainly in the centre of the distal haem pocket, although some movement towards the primary docking site and the xenon-4 pocket can be seen. We calculate the NO infrared spectrum for the photodissociated ligand within the haem pocket and find a narrow peak in the range 1915-1922 cm(-1). The resulting blue shift of 1 to 8 cm(-1) compared to gas-phase NO is much smaller than the red shifts calculated and observed for carbon monoxide (CO) in Mb. A small splitting, due to NO in the xenon-4 pocket, is also observed. At lower temperatures, the spectra and conformational space explored by the ligand remain largely unchanged, but the electrostatic interactions with residue His64 become increasingly significant in determining the details of the ligand orientation within the distal haem pocket. The investigation of the effect of the L29F mutation reveals significant differences between the behaviour of NO and that of CO, and suggests a coupling between the ligand and the protein dynamics due to the different ligand dipole moments.
authors.affiliation: Department of Chemistry, University of Basel, Klingelbergstrasse 80, 4056 Basel, Switzerland.
authors.forename: David R
authors.initials: DR
authors.lastname: Nutt
authors.forename: Markus
authors.initials: M
authors.lastname: Meuwly
mesh_terms: D019943:Amino Acid Substitution; D003198:Computer Simulation; D008024:Ligands; D009211:Myoglobin / Q000737:chemistry*; D009569:Nitric Oxide / Q000737:chemistry*; D010782:Photolysis; D011487:Protein Conformation; D017434:Protein Structure, Tertiary; D013055:Spectrophotometry, Infrared / Q000379:methods
chemical_list: D008024:Ligands; D009211:Myoglobin; D009569:Nitric Oxide