CHAPTER 8 Membrane Pumps

Membrane Permeability: An Introduction

Although lipid bilayers provide a barrier to diffusion of ions and polar molecules larger than about 150 D, protein pores provide selective passages for ions, and other larger molecules across membranes. Integral proteins that control membrane permeability fall into three broad classes—pumps, carriers, and channels—each with distinct properties (Fig. 8-1). These proteins allow cells to control solute traffic across membranes, an essential feature of many physiological processes.

• Pumps are enzymes that utilize energy from adenosine triphosphate (ATP), light, or (rarely) other sources to move ions (generally, cations) and other solutes across membranes at relatively modest rates. They establish concentration gradients between membrane-bound compartments.

• Carriers are enzyme-like proteins that provide passive pathways for solutes to move across membranes down their concentration gradients from a region of higher concentration to one of lower concentration. Each conformational change in a carrier protein translocates a limited number of solutes across the membrane. Carriers use ion gradients as a source of energy to perform a remarkable variety of work. Some carriers use translocation of an ion down its concentration gradient to drive another ion or solute up a concentration gradient.

• Channels are ion-specific pores that typically open and close transiently in a regulated manner. When a channel is open, a flood of ions passes quickly across the membrane through the channel, driven by electrical and concentra-tion gradients. The movement of ions through open channels controls the electrical potential across membranes, so that changes in channel activity produce rapid electrical signals in excitable membranes of nerves, muscles, and other cells.

Figure 8-1 properties of the three types of proteins that transport ions and other solutes across membranes. The triangle represents the concentration gradients of Na⁺ (blue) and glucose (green) across the membrane.

This chapter and Chapters 9, 10, and 11 consider, in turn, the three classes of proteins that control membrane permeability. Pumps are discussed first because they create the solute gradients required for the function of carriers and channels. The concluding chapter in this section, Chapter 11, illustrates how pumps, carriers, and channels work together to perform a remarkable variety of functions. An impor-tant point is that differential expression of a subset of isoforms of these proteins in specific membranes allows differentiated cells to perform a wide range of complex functions.

Membrane Pumps

Protein pumps transport ions and other solutes across membranes up concentration gradients as great as 1 million-fold. Energy for this task can come from a variety of sources: light, oxidation-reduction reactions, or, most commonly, hydrolysis of ATP (Table 8-1). Energy is conserved in the form of transmembrane electrical or chemical gradients of the transported ion or solute. The potential energy in these ion gradients drives a variety of energy-requiring processes (Fig. 8-2). Most known biological pumps translocate cations. Although they could just as well move anions, cations were selected during the evolution of early life forms 3 billion years ago.

Table 8-1 DIVERSITY OF MEMBRANE PUMPS^*

Figure 8-2 cellular processes driven by the energy stored in ion gradients.

Pumps are also called primary active transporters because they transduce electromagnetic or chemical energy directly into transmembrane concentration gradients. Some carriers use ion gradients created by pumps to drive the uphill movement of other ions or solutes, so these are called secondary transporters (see Chapter 9). Channels are passive transporters, allowing net diffusion of ions and water only down their concentration gradients (see Chapter 10).

Diversity of Membrane Pumps

A vast array of integral membrane proteins can capture energy from an external source to pump ions and other solutes across biological membranes (Table 8-1). The protein families differ in their energy sources and transported materials. Fortunately, these pumps had a limited number of common ancestors, providing a relatively simple classification and generalizations about their structures and mechanisms. Given the importance of pumps in establishing transmembrane electrochemical gradients, the simplicity of this list is remarkable. Its brevity may be attributable to the fact that a single pump can drive a whole host of secondary reactions mediated by different carriers.

This chapter considers four representative pumps, emphasizing examples in which both high-resolution structures and detailed biochemical analysis of pathways are available. Chapter 19 provides additional details on H⁺ translocation by redox-driven cytochrome c oxidase and the role of F-type pumps in ATP synthesis by mitochondria and chloroplasts. Microbiology texts provide more information on pumps driven by decarboxylases and pyrophosphatases.

Light-Driven Proton Pumping by Bacteriorhodopsin

Owing to its simplicity, its small size, and the availability of a high-resolution structure (Fig. 8-3), more is known about light-driven transport of protons by bacteriorhodopsin than about any other pump. This pump allows the halophilic (salt-loving) Archaea Halobacterium halobium to convert light energy into a proton gradient across its plasma membrane. The 26-kD pump packs into two-dimensional crystalline arrays in the plasma membrane. The polypeptide is folded into seven α-helices that cross the lipid bilayer. The light-absorbing chromophore retinal (vitamin A aldehyde) is bound covalently to the side chain of lysine 216 (Lys216) via a Schiff base. This chromophore makes the protein and the membrane purple.

Figure 8-3 proton pathway across the membrane through bacteriorhodopsin. The atomic structure, together with analysis of a wide array of mutations, reveals the pathway for protons through the middle of the bundle of helices. Further insights come from analysis of reaction intermediates, which differ in light absorption. A cytoplasmic proton binds successively to Asp96, the Schiff base linking retinal to lysine 216 (Lys216) and Asp85 before release outside the cell. Absorption of light by retinal drives conformational changes in the protein that favor the transfer of the proton across the membrane up its concentration gradient.

Bacteriorhodopsin absorbs light and uses the energy to pump protons out of the cell. A proton-driven ATP synthase uses this proton gradient to make ATP (Fig. 8-5). The proton pathway includes the side chains of aspartate 96 (Asp96), aspartate 85 (Asp85), glutamate 204 (Glu204), and the Schiff base. Local environments give the two aspartates remarkably different ionization constant (p K_a) values. Asp96 has a very high p K_a of about 10, so it can serve as a proton donor. Asp85 has a low p K_a of about 2, so it serves as a proton acceptor. Absorption of a photon changes the conformation of the retinal and the p K_a of the Schiff base. These four groups work together to transfer a single proton from the cytoplasm to the extracellular space.

1. The mechanism starts with retinal in the all-trans configuration and protons bound to the Schiff base and Asp96 at the hydrophobic, cytoplasmic end of the proton pathway.

2. Absorption of a photon isomerizes retinal to the 13-cis configuration and changes the conformation of the protein, favoring transfer of the Schiff base proton to Asp85.

3. Asp85 transfers the proton to Glu204, which releases the proton outside the cell.

4. A further conformational change reorients the Schiff base toward Asp96. The p K_a of Asp96 is lower in this conformation, so a proton transfers from Asp96 to the Schiff base.

5. Asp96 is reprotonated from the cytoplasm.

6. The retinal reisomerizes to the all-trans configuration in preparation for another cycle.

Figure 8-5 A–C, Models of the mitochondrial F₀F₁–ATP synthase and the V₀V₁ pump based on the atomic structure of F₁-ATPase and electron micrographs of the whole enzyme. Colors code the homologous subunits. F₀ is the oligomycin-sensitive factor. F₁ is the ATPase. Proton transfer across the membrane can drive ATP synthesis, or ATP hydrolysis can pump protons across the membrane. The text explains the reversible ATPase reaction.

(Based on Elston T, Wang H, Oster G: Energy transduction in ATP synthesis. Nature 391:510–513, 1998.)

The net result of this cycle is rapid vectorial transport of a proton from the cytoplasm out of the cell. Steps 4 to 6 are rate limiting, occurring at a rate of about 100 s⁻¹. The other reactions are fast, provided that there is an adequate flux of light. Retinal not only captures energy by absorbing a photon but also acts as a switch that changes both the accessibility and affinities of the proton-binding groups in a sequential fashion.

In addition to bacteriorhodopsin, halobacterial plasma membranes contain two related proteins: halorhodopsin and sensory rhodopsin. Halorhodopsin absorbs light and pumps chloride into the cell. Interestingly, a single amino acid substitution can reverse the direction of pumping. Sensory rhodopsin couples light absorption by its bound retinal to phototaxis (swimming toward light) with a tightly coupled transducer protein. In the absence of this transducer, sensory rhodopsin transports protons out of the cell much like bacterial rhodopsin. The design of these seven-helix transporters is remarkably similar to that of the large family of seven-helix receptors, especially the photoreceptor proteins that vertebrates use for vision (see Fig. 24-2).

ATP-Driven Pumps

Three families of transport ATPases (Table 8-2) are essential for the physiology of all forms of life. F₀F₁-ATPases and P-type ATPases differ in structure, but both generate electrical and/or chemical gradients across membranes. ABC transporters not only produce ion gradients but also transport a much wider range of solutes across membranes. Chemical inhibitors have been useful in characterizing these pumps, and some are also used therapeutically (Table 8-3).

Table 8-2 ATP-DRIVEN TRANSPORT ATPASE PUMPS

Table 8-3 TOOLS FOR STUDYING PUMPS

Agent	Target
Cardiac glycosides^* (e.g., ouabain, digitalis)	Na⁺K⁺ -ATPase
Omeprazole^*	H⁺K⁺ -ATPase (parietal cell)
Oligomycin	F₀F₁-ATP synthase

* Used clinically as drugs.

Free energy released by ATP hydrolysis puts a limit on the concentration gradient that these pumps can produce. If transport is electrically neutral (i.e., if it does not produce a membrane potential; see Fig. 10-17), the maximum gradient is about 1 million-fold. Such an extraordinary gradient is actually created by the P-type, electrically neutral H⁺K⁺−ATPase of gastric epithelial cells, which acidifies the stomach down to a pH of 1.

F₀F₁-ATPase Family

The two major subdivisions of this family are called F₀F₁-ATPases (or F-type ATPases) and V₀V₁-ATPases (or V-type ATPases) (Figs. 8-4 and 8-5). V₀V₁-ATPases, named for their location in the vacuolar system of eukaryotes, pump protons into organelles and out of Archaea. F₀F₁-ATPases of Bacteria, mitochondria, and chloroplasts generally run in the opposite direction, using proton gradients generated by other membrane proteins to drive ATP synthesis. However, purified F₀F₁-ATPases are freely reversible, using ATP hydrolysis to pump protons or alternatively proton gradients to synthesize ATP. Hence, these enzymes are called both ATP-synthases and F-type ATPases.

Figure 8-4 CRYSTAL STRUCTURE AND MECHANICS OF MITOCHONDRIAL F₁. A, A ribbon diagram viewed from the membrane (bottom) side with α-subunits (red), β-subunits (yellow), and the γ-subunit (blue). All three α-subunits have a bound ATP. The β-subunits are empty or bind ATP or ADP. At the upper right is a space-filling bottom view of the parts of the α- and β-subunits forming the asymmetrical central channel for the γ-subunit (not shown). The electrostatic potential is blue for positive, red for negative, and gray for neutral.B, Oblique view of a ribbon diagram. The γ-subunit forms an antiparallel coiled-coil. At the bottom left is a space-filling model of the γ-subunit. Parts of the surrounding α- and β-subunits are shown as stick diagrams. Note that the surfaces of both the γ-subunit and the channel formed by the α- and β-subunits are hydrophobic and suitable to act as a molecular bearing. C, Drawing of the experimental set-up to show ATP-driven rotation of the γ-subunit relative to the α- and β-subunits. Streptavidin and biotin link the γ-subunit to a bead, which is observed to rotate by light microscopy.

(PDB file: 1BMF. Reference: Abrahams JP, Leslie AGW, Lutter R, Walker JE: Structure at 2.8 Å resolution of F₁-ATPase from bovine heart mitochondria. Nature 370:621–628, 1994.)

Phylogenetic analysis of the subunit polypeptides traces the origin of V-type ATPases to the precursor of all contemporary life forms (see Fig. 1-1

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