Oxymyoglobin

Structural Similarities of the Two Forms

Oxymyoglobin is shown with layers of water bound to its surface. This water is strongly attracted to the protein and is part of the structure of any crystalline protein. Hiding the reveals that the overall tertiary shape is much like a hockey puck. The is a prominent secondary structural component. The Myoglobin page gives more detail on the secondary structure. The а-helices can be shown to form , and myoglobin can be classified as an antiparallel α-helix type of globular protein. The shows most of the residues involved in an α-helix are clustered in the area of the plot where one would expect them to be. (Review Ramachandran Plot.) Many of the residues that are outside of the expected cluster are at the end of a helix, and it is not unusual for such residues to have ψ and φ values that are outside of the range for the α-helix. Also notice that many of the residues that are in the quadrants on the right are Gly. (Residues can be identified by hovering over the sphere with the cursor.) The prosthetic group of myoglobin is a , and as shown here it is inserted into a pocket which is nonpolar. Empty heme pocket lined with shows that except for some oxygen on the bottom and His 93 at the mid point of one side the pocket is lined with nonpolar carbon atoms. The mostly inserts into this pocket with the two carboxylate groups of the heme being on the molecular surface. Detailed description of heme structure. The shown in the pocket with the pocket's surface colored white so that the heme can be distinguished from the protein surface atoms. is the fifth ligand chelated to Fe²⁺ (the other four are the nitrogens in the pyrole rings), and it binds to one side of the heme. Show displayed as spacefill that are within 0.5 nm of the heme. These are the atoms which form the surface of the heme pocket and serve as a reminder that except for the ones on the surface of the molecule most of these atoms are carbon atoms and produce a nonpolar environment for the heme. This nonpolar, water-excluding environment is important for the function of myoglobin. Whenever Fe²⁺ is in an aqueous environment and it contacts O₂, Fe²⁺ is oxidized to Fe³⁺. Myoglobin with a heme containing Fe³⁺ (called metmyoglobin) can not fulfill its physiological function and therefore must be degraded.

Structural Differences of the Two Forms

The major difference is the chelation of to Fe²⁺ on the side of the heme opposite His 93. Fe²⁺ in oxymyoglobin is chelated with six ligands whereas in myoglobin Fe²⁺ has only five of the possible six positions occupied. Compare the displacement of Fe²⁺ in the two scenes below, oxymyoglobin (scene on the left) and myoglobin (scene on the right). In which scene is the center of Fe²⁺ displaced slightly more from the porphyrin plane?

is located on the same side of the heme as molecular oxygen and is close enough to the heme to make contact with the O₂ but is not close enough to the Fe²⁺ for its nitrogen to chelate with Fe²⁺.