Ligand migration in human myoglobin: steric effects of isoleucine 107(G8) on O(2) and CO binding.
To investigate the ligand pathway in myoglobin, some mutant myoglobins, in which one of the amino acid residues constituting a putative ligand-docking site, Ile107, is replaced by Ala, Val, Leu, or Phe, were prepared and their structural and ligand binding properties were characterized. The kinetic barrier for the ligand entry to protein inside was lowered by decreasing the side-chain volume at position 107, indicating that the bulky side chain interferes with the formation of the activation state for the ligand migration and the free space near position 107 would be filled with the ligand in the activation state. Another prominent effect of the reduced side-chain volume at position 107 is to stabilize the ligand-binding intermediate state. Because the stabilization can be ascribed to decrease of the positive enthalpy, the enlarged free space near position 107 would relieve unfavorable steric interactions between the ligand and nearby amino acid residues. The side-chain volume at position 107, therefore, is crucial for the kinetic barrier for the ligand migration and free energy of the ligand-binding intermediate state, which allows us to propose that some photodissociated O(2) moves toward position 107 to be trapped and then expelled to the solvent.
Ishikawa
H
H
Department of Molecular Engineering, Graduate School of Engineering, Kyoto University, Kyoto 606-8501, Japan.
Uchida
T
T
Takahashi
S
S
Ishimori
K
K
Morishima
I
I
D000409:Alanine; D019943:Amino Acid Substitution; D001665:Binding Sites; D006418:Heme / Q000737:chemistry; D006801:Humans; D007532:Isoleucine; D007700:Kinetics; D007930:Leucine; D008024:Ligands; D008958:Models, Molecular; D016297:Mutagenesis, Site-Directed; D009211:Myoglobin / Q000737:chemistry* / Q000378:metabolism*; D010649:Phenylalanine; D011487:Protein Conformation; D011994:Recombinant Proteins / Q000737:chemistry / Q000378:metabolism; D013816:Thermodynamics; D014633:Valine
D008024:Ligands; D009211:Myoglobin; D011994:Recombinant Proteins; C018013:carboxymyoglobin; C017595:oxymyoglobin; D007532:Isoleucine; D006418:Heme; D010649:Phenylalanine; D007930:Leucine; D014633:Valine; D000409:Alanine