
8.3 The Electron Transport Chain: Protein Machines as Redox-driven Proton Pumps
387
release to the cytoplasmic side of the inner
mitochondrial membrane, and ubiquinone, Q,
receives both electrons from heme bn and
protons from the matrix side of the membrane.
Because QH2 is lipid soluble, it diffuses through
the lipid layer and functions simultaneously as
proton and electron carrier to provide tight
coupling of electron transport to proton
pumping.
The following consideration of cytochrome c
oxidase reviews (1) composition, (2) structure,
(3) overall reaction, (4) the electron transfer
steps of cytochrome c oxidase, (5) status of
proton translocation and proposed aqueous
D-
and K-channels for proton ingress, (6) the
redox Bohr effect and its correlation with elec-
trochemical transduction in elastic-contractile
model proteins, and (7) possible molecular
sources of protons for translocation with an
abundant and uniquely positioned functional
side chain that exhibits interesting parallels to
the states of QH2 with, however, single rather
than double proton changes and coordination
to a metal ion required for electron transfer
capability.
Although different molecular species and
arrangements of redox centers occur in
Complex III than in Complex IV, we proceed
with the perspective that the underlying physi-
cal process is the same, that is, the operative
apolar-polar repulsive free energy of hydra-
tion,
AGap,
aspect of the hydrophobic consilient
mechanism. In this view, a change in charge due
to electron transfer to or from a redox center
changes that centers contribution to AGap in a
way that can open or close aqueous channels
for proton ingress into, and egress from, the
inner mitochondrial membrane.
83.5.1 General Structural Description of
Complex IV: Cytochrome c Oxidase
8.3.5.1.1
Composition
Bovine cytochrome c oxidase contains 13
protein subunits, summing to a molecular
weight of
200
kDa. Three of the subunits,
encoded in the mitochondrial DNA, appear
common to all species, subunits I, II and III. In
all cases the four redox centers are localized to
subunits I and II. One redox center, a binuclear
copper center,
CUA,
occurs in subunit II. The
three other redox centers are found in subunit
I; these are a heme a, a heme aa, and a single
copper ion,
CUB,
closely associated with heme
aa
8.3.5.1.2
Molecular Structure
A cross-eye stereo view of the dimer of
Complex IV (cytochrome c oxidase) from
bovine heart mitochondria is shown in Figure
8.22. Figure
8.22A
shows the molecular struc-
ture in space-filling representation with neutral
residues in hght gray, the most hydrophobic
aromatic residues in black, other hydrophobic
residues in gray, and the charged residues in
white. With this shading, a dark hydrophobic
band surrounding the middle of the structure
positions the complex in the lipid (totally
hydrophobic) layer of the inner mitochondrial
membrane. The ribbon representation in Figure
8.22B
allows visualization of the transmem-
brane hehces within which are embedded the
redox centers of heme a, heme aa, and the
copper center,
CUB,
associated with heme aa.
The fourth redox center, CUA, resides just
outside of the lipid layer on the cytoplasmic
side of the membrane, as labeled in Figure
8.22B.
8.3.5.2 Phenomenology of Cytochrome c
Oxidation to Reduce Oxygen with
Net Proton Transport: Structural
Studies of Oxidase
8.3.5.2.1
Overall Reaction
As given, for example, by Schultz and Chan,"^^
the overall reaction of cytochrome c oxidase is
given in Equation (8.8) above. As the reduction
of one molecule of oxygen, O2, to water
requires four electrons, these are shown coming
from four molecules of ferrocytochrome c (4cyt
c^^), which become four molecules of ferricy-
tochrome c (4cyt c^^). Conversion of O2 to two
molecules of water, of course, also requires four
protons; these are indicated as 4H^ (scalar).The
fundamental purpose of the electron transport
chain, of course, is to produce an increased con-
centration of protons in the cytosol. In some as
yet not well-understood process, four protons