Tutorial:How do we get the oxygen we breathe

This page, as it appeared on August 2, 2012, was featured in this article in the journal Biochemistry and Molecular Biology Education.

spinqualitylabelsall models Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D This tutorial is designed for high school and beginning college students (ages 14-19). A more detailed tutorial is available at Hemoglobin When we breathe, or respire, oxygen from the air is taken up by blood in our lungs and soon delivered to each of the cells in our body through our circulatory system. Among other uses, our cells use oxygen as the final electron acceptor in a process called aerobic respiration -- a process that converts the energy in food and nutrients into a form of energy that the cell can readily use (molecules of ATP, adenosine triphosphate). The cells of large organisms like humans use aerobic respiration because other forms of energy production are less efficient, and oxygen is plentiful. (THINK: Do fish use aerobic respiration?) But, although oxygen is transported in our blood to reach each of the cells in our body, oxygen does not dissolve well in blood. So how is oxygen transported in the blood? Hemoglobin, the oxygen taxi A protein called hemoglobin (Hb), seen on the right, is the answer to the challenge of transporting oxygen in the blood. The many molecules of hemoglobin in our blood serve as “taxis” for oxygen molecules: oxygen molecules bind to hemoglobin molecules in areas where oxygen is plenty, such as in the lungs, and oxygen molecules then dissociate from hemoglobin when they reach oxygen-poor areas, such as near cells far from the lungs. In this way the hemoglobin in our blood traffics oxygen to every cell in our body. Hemoglobin needs to bind to oxygen tightly in the oxygen-rich atmosphere of the lungs and to be able to release oxygen rapidly in the relatively oxygen-poor environment of the tissues. It does this in a most elegant and intricately coordinated way. The story of hemoglobin is a prototypical example of the relationship between structure and function in a protein molecule. The structure of hemoglobin Hemoglobin is a tetramer In the three-dimensional structure of hemoglobin to the right, you see two light-blue chains and two light-green chains. (Drag the hemoglobin structure with the mouse to rotate it. To zoom, use your scroll-wheel, or drag while holding shift.) These are the four monomers of the hemoglobin molecule, and they are shown in a cartoon-style representation where a single curved line connects the α-carbons in the amino acids of each chain and the secondary structure α-helices are shown as simplified cartoon helices. Because hemoglobin is composed of four monomers, it is called a tetramer. The two types of monomers that make up the hemoglobin tetramer are distinguished by their color: the two α-monomers in light-blue and the two β-monomers in light-green. Each α-monomer is a chain of 141 amino acids and each β-monomer is a chain of 146 amino acids. Be careful not to get confused with the context in which we use the label "α", or "alpha": remember that both the α- and the β-monomers contain α-carbons and α-helices. (THINK: How many amino acids does it take to build a molecule of hemoglobin?) This next view shows the tetramer in space-fill representation, with the alpha and beta chains coloured differently. Each monomer has a heme group Notice that each monomer, whether α or β, has a molecule associated with it that is represented by several multicolored, overlapping, small spheres. These molecules are called heme groups, and they are where oxygen binds to hemoglobin, which we will soon observe. Do the colors of the spheres represent the true colors of the heme group? No, they do not. Remember that we are looking at a representation of the real structure, and in this case we have artificially colored each atom in the heme according to a common color scheme called the Corey-Pauling-Koltun scheme ( C H O N S Fe ). Remember too that although we cannot change the positions of the atoms in our experimentally determined protein structure, we can freely choose different ways to show, color, and connect these atoms in order to best comprehend and convey the niceties of the complex 3D structure. We have previously represented the atoms of the heme group as individual spheres in what is called a spacefilling representation, but we could just as easily represent the atoms as very small spheres with thick lines connecting the bonded atoms in what is called a ball and stick representation. Notice that the positions and identities of the atoms do not change. (THINK: Earlier we learned that the α- and β-monomers have so far been shown in cartoon representation. Why can’t we show the heme groups in cartoon representation?) Capturing oxygen Hemoglobin captures oxygen and transports it through the bloodstream by binding oxygen to each of its four heme groups. These heme groups are prosthetic groups; they are non-protein chemical compounds that are associated with hemoglobin and are necessary for its function. Each heme is ring molecule made up of Carbon, Nitrogen, Oxygen and hydrogen, with a single Fe2+ (iron) ion at its center, coordinated by the four surrounding nitrogens. Each heme is roughly planar, and is held in place within the monomer by a hydrophobic interactions and a covalent bond between the iron ion and a nitrogen atom in the side chain of what is termed the proximal histidine. Another histidine, termed the distal histidine, helps in oxygen binding by preventing oxidation of the iron atom (which would prevent oxygen from binding) and by preventing other molecules from binding. When oxygen is abundant, an oxygen molecule binds to the iron in the heme group (Molecular oxygen (O2) is represented by two red spheres). (THINK: Are there other changes besides the oxygen binding to the iron ion? Why might there be other changes?) We can watch oxygen binding in the context of an entire monomer (colored in rainbow colors from the N terminus of the monomer to its C terminus) or in a close-up view of the heme group. When oxygen binds the heme, we notice a conformation change in the hemoglobin monomer holding the heme that bound oxygen -- in other words, when oxygen binds, the monomer changes shape. The difference in conformation between the oxygenated and deoxygenated monomer turns out to be crucial for the function of hemoglobin. Remember that hemoglobin does not exist as a monomer, but rather as a tetramer. As a result, when one monomer in a deoxygenated hemoglobin molecule binds oxygen, that monomer’s conformation change forces a similar conformation change in the remaining three monomers, causing them to adopt a conformation more favorable to oxygen binding. Said differently, as soon as one monomer in the tetramer of the hemoglobin molecule binds oxygen, the other three monomers are much more likely to bind oxygen than they were before. This mechanism of accelerated binding through monomer conformation propagation is called cooperative binding. Carbon monoxide also binds the heme Here is where the laws of chemistry present us with an interesting problem: The heme group has the chemical and structural capabilities to capture an oxygen molecule, but an oxygen molecule (O2) happens to be similar in shape and chemistry to a molecule of carbon monoxide (CO). The result is that carbon monoxide can also bind to the iron in the heme groups of hemoglobin, although the distal histidine helps prevent this. In fact, carbon monoxide binds to the heme with about 230 times the affinity of oxygen, meaning that if both gases are available, carbon monoxide will outcompete oxygen for heme binding sites. (THINK: We often install carbon monoxide detectors in our homes to alert us to high concentrations of this gas. Why might carbon monoxide gas pose a danger to human beings?) Mutated hemoglobin causes sickle-cell disease A mutation in the gene coding for hemoglobin causes a disease called sickle-cell anemia. The mutated hemoglobin results in red blood cells with a diseased, sickle shape instead of a healthy, disk shape. These sickle cells can block blood vessels due to their abnormal shape and cause damage to tissue and organs. (OBSERVE: Does the mutated hemoglobin look different than normal hemoglobin?) Sickle-cell hemoglobin, shown here in spacefilling representation, differs from normal hemoglobin at a single amino acid. In the mutant, the amino acid valine takes the place of glutamate as the sixth amino acid in the beta monomer chain. Glutamate, a hydrophilic amino acid, is replaced by valine, a hydrophobic amino acid, at a location on the surface of the protein, and this creates a hydrophobic spot. There is another relevant hydrophobic spot near the heme binding pocket in the beta-monomer that is present in both normal and sickle-cell deoxygenated hemoglobin. (OBSERVE: Can you find the two hydrophobic spots on the two beta-monomers in sickle-cell hemoglobin?) This second hydrophobic spot sticks to the first hydrophobic spot, present only in the mutant, causing the hemoglobin molecules to aggregate into long fibers. We show just two hemoglobin molecules stuck together, but this fiber can extend to include a large number of hemoglobin molecules in a long fiber. A closer look shows us the valine from the first, mutant, hydrophobic spot in hydrophobic interaction with the alanine and leucine from the second hydrophobic spot. (THINK: Why might these hemoglobin fibers cause sickle-cell red blood cell shape?)

See Also

• Hemoglobin
• PDB entry secondary structure (oxygenated, 2.1 Å)
• PDB entry Corey-Pauling-Koltun (deoxygenated, 2.1 Å)
• PDB entry 1hbs (deoxygenated, sickle cell mutant, 3.0 Å)

External Resources

• Hemoglobin in Wikipedia

• Hemoglobin Causes Net Diffusion of Oxygen (Interactive Demo) - Oxygen diffuses freely across oxygen-permeable membranes such as those found where capillaries (small blood vessels) in the lungs make contact with the air we breathe. When oxygen diffuses from the air in our lungs across the walls of these capillaries and into our blood, it is taken up by hemoglobin -- this causes even more oxygen to diffuse into the blood in order to balance the concentration (partial pressure) of free oxygen in our blood with that in the air in our lungs. Explore the interactive demonstration to see this diffusion in action.

Content Contributors

This page includes scenes, structures and ideas from Eric Martz, Frieda S. Reichsman and Angel Herraez.

Proteopedia Page Contributors and Editors (what is this?)

Jaime Prilusky, Eran Hodis, Michael Roberts, Angel Herraez, Joel L. Sussman, Eric Martz, Joseph M. Steinberger