Molecular dynamics studies on mutants of Cu,Zn superoxide dismutase: the functional role of charged residues in the electrostatic loop VII.
Molecular dynamics (MD) calculations have been performed on mutants of superoxide dismutase (SOD) on some residues present in the electrostatic loop. These calculations have provided the solution structures for the mutants Thr-137-->Ile and Arg; Lys-136-->Ala; Glu-132-->Gln; Glu-133-->Gln; Glu-132, Glu-133-->Gln-132, Gln-133 and-->Gln-132, Lys-133. The structural and dynamic properties of these mutants have been correlated with the catalytic properties and available spectroscopic data. The water molecule present in the active site close to the copper ion in wild type (WT) SOD is missing in the MD average structure of the Thr-137-->Ile mutant, while this molecule is present in the MD average structures of all the other mutants and of WT SOD. This agrees with the experimental data. This is an important result that shows the validity of our calculations and their ability to reproduce even subtle structural features. Addition of one or more positive charges on the 132 and/or 133 positions does not sizably perturb the structure of the active site channel, while the introduction of a positively charged residue (Arg) on position 137 has a large effect on the structure of the electrostatic loop. Analysis of the MD average structures of these mutants has pointed out that the simple electrostatic effects of charged residues in the channel are not the only factor relevant for enzymatic behavior but that the structure of the electrostatic loop and the location of the charged residues also contribute to the catalytic properties of SOD.
Banci
L
L
Department of Chemistry, University of Florence, Italy.
Carloni
P
P
Orioli
P L
PL
D001665:Binding Sites; D003198:Computer Simulation; D003300:Copper / Q000737:chemistry; D004560:Electricity; D006860:Hydrogen Bonding; D008958:Models, Molecular; D009154:Mutation; D011487:Protein Conformation; D013482:Superoxide Dismutase / Q000737:chemistry* / Q000235:genetics; D014867:Water / Q000737:chemistry
D014867:Water; D003300:Copper; D013482:Superoxide Dismutase