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DOI: 10.1002/anie.200902490
Molecular Recognition
What is Cooperativity?
Christopher A. Hunter* and Harry L. Anderson*
allosteric cooperativity · chelate cooperativity · Dedicated to Professor Jean-Marie Lehn
cooperative effects · self-assembly · on the occasion of his 70th birthday
supramolecular chemistry
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Essays
bound and free receptor, and [B] is the concentration of free
ligand.
½A B
K ¼ ð1Þ
½A ½B
½AA B
2 K1 ¼ ð2Þ
½AA ½B
1 ½AA B2
K2 ¼
2 ð3Þ
½AA B ½B
K2
a ¼ ð4Þ
K1
1
½AA Bþ ½AA B2
qA ¼ 2 ð5Þ
½AA0
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tration range than for the one-site reference receptor. The ligand concentrations, and only the second binding event at
intermediate AA·B is the dominant species at intermediate high ligand concentrations.
concentrations, and in the limit of a ! 1, the fully bound state The macroscopic behavior of systems of this type can also
is never populated. be characterized by the switching window cR [Eq. (6)], which
Positive cooperativity (a > 1, Figure 4 d). In this case, K1 <
K2 , and the interactions in the fully bound state are more ½B0 atqA ¼ 10=11
cR ¼ ð6Þ
favorable than in the intermediate. In the limit of a @ 1, the ½B0 atqA ¼ 1=11
intermediate is never populated, and all-or-nothing, two-state
behavior is observed. Assembly and disassembly of the is the factorial increase in ligand concentration required to
complex take place over a narrower range of concentrations change the bound/free receptor ratio from 1:10 to 10:1
than for the single-site reference system. (Figure 5 b).[16] In other words, cR is a measure of the
At the macroscopic level, cooperativity in allosteric sharpness of the bound–free transition. For the simple one-
systems is usually characterized by plotting log {qA/(1qA)} site reference receptor, log cR = 2, and any deviation from this
versus log [B]0 in a Hill plot.[15] The Hill coefficient nH is the value indicates cooperative behavior, as illustrated in Fig-
slope of this plot measured at 50 % saturation, that is, at ure 5 b for the examples from Figure 4. Positive cooperativity
log {qA/(1qA)} = 0. A simple reference receptor with one (blue line) reduces the value of cR, that is, the bound–free
binding site gives nH = 1; any deviation from this value switch takes place over a narrow concentration range. The
indicates cooperative behavior, as illustrated in Figure 5 a by opposite is true for negative cooperativity (red line), which
constructing Hill plots for the three regimes of Figure 4 b–d. leads to separation of the two binding events on the
Negative cooperativity (red line) gives a slope of less than 1 at concentration scale.
the origin (nH < 1), while positive cooperativity (blue line) The relationship between the molecular parameter a and
leads to a slope of more than 1 at the origin (nH > 1). At the the macroscopic parameters nH and cR is illustrated in
extremes of the Hill plot, the slope returns to 1, because Figure 6. At the non-cooperative reference point, a = 1,
changes in qA are caused by only the first binding event at low nH = 1, and log cR = 2. For systems that exhibit modest
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Essays
Essay, but in general, positive cooperativity can be achieved
either by making the first binding event less favorable or by
making subsequent binding events more favorable.
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Essays
Cooperativity in this system is expressed at the molecular
level, with all-or-nothing population of the cyclic complex in
the limit of strong chelate cooperativity. However, the
macroscopic parameters used to characterize allosteric coop-
erativity nH and cR do not provide an insight into cooperativity
in the c-AA·BB complex: nH = 1 and log cR = 2 for all of the
examples shown in Figure 10. Therefore it can be difficult to
recognize the cooperativity present in self-assembled systems.
The behavior of the two-site system shown in Figure 9 can
be extrapolated to a larger number (N) of interaction sites in a
variety of ways. Here we consider two architectures: firstly,
we keep the stoichiometry of the complex at 1:1 and increase
the number of binding sites on both components (Figure 11);
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1) Interaction of an oligomeric ligand with an oligomeric unfolding of a protein by addition of guanidine hydrochloride,
receptor. The number of possible partially bound inter- Figure 2 b). Again we start by considering the simplest
mediates increases with the number of binding sites. The possible system: the competition between a monovalent
population of each intermediate depends on the product ligand (B) and a divalent ligand (BB) for a two-site receptor
K EM for the relevant intramolecular interaction. How- (AA), Figure 13. This competition allows us to make a direct
ever, in the limit of K EM @ 1, no intermediates are
formed, and two-state all-or-nothing behavior is observed
(Figure 11). The overall stability of the complex increases
as N is increased, but the shape of the binding isotherm is
independent of N, because this case is simply a 1:1
complexation process (nH = 1 and log cR = 2). Here, the all-
or-nothing behavior is molecular but not macroscopic, and
the concentration dependence of the free-bound transi-
tion is no sharper than that for an isolated one-site
interaction. Macroscopic cooperativity can however be
observed by thermal or chemical denaturing of the c-
A···A·B···B duplex (see below).
2) Closed oligomeric assemblies of a self-complementary
molecule. These systems represent a special case of the
oligomerization of AB illustrated in Figure 8 a. Section 2.3
dealt with polydisperse open-chain aggregates of AB, but
if an oligomer of a particular size has a significant Figure 13. Competition between ligands with one and two binding sites
(B and BB respectively) for a two-site receptor (AA).[12] Many species
tendency to cyclize, then this cyclic oligomer can become
are possible, but if [BB]0 @ [AA]0 and K EM @ 1, then the only states of
a thermodynamic sink (Figure 12 a). In the limit of the receptor that are significantly populated are AA, c-AA·BB, AA·B,
K EM @ 1 (where EM is the effective molarity for and AA·B2.
cyclization of a specific linear oligomer o-(AB)N), the
system reduces to a two-state equilibrium (Figure 12 b).
Figure 12 c shows how the binding isotherm depends on N comparison between the two types of cooperativity discussed
in this regime when a = 1, that is, there is no allosteric in Sections 2.2–2.4. In the denaturation experiment, B is
cooperativity. For high values of N and K EM, the system added to the AA·BB complex to displace BB from the
displays both molecular and macroscopic all-or-nothing receptor. A large number of different states are possible, but
behavior. In the limit of strong chelate cooperativity we will consider the scenario where the ligand is present in a
(K EM @ 1), log cR tends to 1 + 2/(N1). In the limit of large excess relative to the receptor, such that [BB]0 @ [AA]0.
large values of N, a sharp nucleation point is observed and Under these conditions, only four states are populated to any
log cR = 1 (Figure 12 c green line). Although the distribu- significant extent (highlighted in the box in Figure 13).
tion of K values for the formation of discrete closed The behavior of the system depends on the values of the
oligomers is different from that for polydisperse open molecular parameters a and K EM, but we restrict ourselves
aggregates, the macroscopic cooperativity exhibited by the to the case of a = 1, where binding of B to AA is non-
open and closed systems is practically identical. For cooperative in the absence of BB. Two limiting regimes are
example, the binding isotherm for N = 8 in Figure 12 c illustrated in Figure 14.
(black line) is the same as that for a = 100 in Figure 8 b K EM ! 1 (Figure 14 a). Under these conditions, BB is not
(blue line). Thus for N > 2, chelate cooperativity in the strongly bound to AA, so formation of AA·B2 is unaffected by
self-assembly of a closed cyclic complex is indistinguish- the presence of BB. The speciation profile is identical to the
able, at the macroscopic level, from positive allosteric non-cooperative system (compare Figure 4 b and Figure 14 a).
cooperativity in the formation of polydisperse open It is possible to construct a Hill plot for the interaction of B
oligomers. with the AA·BB complex. Complexation is not cooperative
(nH = 1 and log cR = 2).
The behavior of these systems is not affected by increasing K EM @ 1 (Figure 14 b). Now only two states of the
the number of interaction sites per molecule, and this model receptor are present at significant concentrations: the cyclic
describes a wide variety of self-assembled architectures. complex c-AA·BB and the 1:2 complex AA·B2 . Binding of
Chelate cooperativity has been investigated in supramolec- the first molecule of B competes with the cooperative
ular systems such as helicates[7, 29] and ladders.[30] Fujitas cages intramolecular interaction between AA and BB in the doubly
illustrate the type of process described in Figure 12 b.[31] linked c-AA·BB complex, whereas binding of the second
molecule of B competes with the non-cooperative intermo-
lecular interaction between AA and BB in the singly linked
2.5. Denaturation B·AA·BB. The speciation profile for this system is identical to
the profile obtained for an allosteric system with positive
Finally, we consider processes in which a monovalent cooperativity (compare Figure 4 d and Figure 14 b). Under
ligand breaks up a supramolecular assembly (as in the these conditions, the denaturation system shows all the
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denaturants compete with intramolecular interactions. Thus, DGcAABB ¼ RT ln ð2EM K 2 Þ ð12Þ
the positive macroscopic cooperativity is a consequence of the
¼ 2DGAB RT ln ð2EMÞ ð13Þ
strong binding interaction with the final ligand.
Similar behavior is observed for the denaturation of any ¼ DGAB RT ln ð2K EMÞ ð14Þ
self-assembled structure held together by cooperative intra-
molecular interactions, regardless of the architecture. The apparent similarity of Equations (11) and (13) is
Denaturation is widely used to measure the stability of deceptive. Whereas a is the dimensionless ratio of two
biopolymer assemblies, such as proteins[32] and oligonucleo- bimolecular association constants, EM has units of concen-
tides.[33] Often these are two-state equilibria, and Hill tration, so the sign of ln(2EM) depends on the choice of
coefficients can be used to quantify their cooperativity. For standard state. The situation where 2EM = 1m has no special
example, the data for denaturation of lysozyme by guanidine significance. The dimensionless parameter that characterizes
hydrochloride plotted in Figure 2 b[11] gives a linear Hill plot cooperativity in self-assembled systems is the product K EM,
in the range 0.1 < qA < 0.9 with nH = 17. This result implies so Equation (13) should be rewritten as Equation (14). The
that each lysozyme molecule binds at least 17 molecules of significance of the situation where (2 K EM) = 1 is that it is the
guanidine hydrochloride on denaturation. However, there are threshold below which self-assembly does not perturb the
problems with the interpretation of protein denaturation in properties of the system. The thermodynamic analysis of
terms of binding models, because the protein does not have complexes with different numbers of components and inter-
discrete binding sites for the denaturant, and the activity of actions is a common source of confusion: cooperativity in self-
the denaturant may not be proportional to its concentra- assembled systems should be quantified by the dimensionless
tion.[34] In practice, the cooperativity of protein denaturation product K EM rather than EM.
is generally analyzed in terms of the empirical relationship in
Equation (9):[32, 35]
where RT ln {qA/(1qA)} is the free energy of protein folding In this Essay, we have examined the two distinct types of
at a concentration of denaturant of [B]0 , DG is the free energy cooperativity that determine the speciation in supramolecular
of folding in the absence of the denaturant, and m is a and biological systems: allosteric and chelate cooperativity.
macroscopic cooperativity parameter, which is found to be Chelate cooperativity is a feature of closed self-assembled
proportional to the change in the solvent-accessible surface structures and operates even when the microscopic affinities
area on unfolding.[35] of the binding sites for monovalent ligands are all identical.
Surprisingly few denaturation experiments have been We have shown that chelate cooperativity can lead to
reported for supramolecular systems. Whitesides and co- macroscopic behavior that is indistinguishable from that of
workers have studied cooperativity in self-assembled H- positive allosteric cooperativity. This is evident from the
bonded complexes using DMSO denaturation.[36] The coop- concentration dependence of the self-assembly of closed
erative formation of supramolecular ladders has been probed oligomers c-(AB)N (Figure 12) and from the denaturation of
by denaturation,[30] and binding curves for the displacement of self-assembled complexes c-AA·BB by addition of a denatur-
multivalent ligands from cyclic porphyrin oligomers with ant (Figure 14 and Figure 16). If one were only able to
pyridine match the simulated curves in Figure 16.[37] observe the overall fraction of bound receptor sites qA as a
function of the ligand concentration, then one would not be
able to distinguish chelate cooperativity from allosteric
3. Standard State Considerations cooperativity (compare Figure 8 b with Figure 12 c, Figure 4 d
with Figure 14 b, and Figure 7 with Figure 16 b). In the limit of
The relationship between allosteric and chelate coopera- strong positive cooperativity, a characteristic two-state speci-
tivity is illustrated by considering free energies. Here we ation profile with a stoichiometry-determined shape is
compare the free energy of formation of the complexes observed for allosteric ligand binding to a polytopic receptor,
AA·B2 and c-AA·BB (Figure 4 a and Figure 9). The free self-assembly of an oligomeric complex, and denaturation of a
energy of formation of AA·B2 is given by Equations (10) and structure held together by multiple intermolecular interac-
(11): tions.
Experimentally, both types of cooperativity can be
DGAAB2 ¼ RT lnða K2 Þ ð10Þ observed from the Hill coefficient nH and the concentration
switching window cR . At the molecular level, allosteric
¼ 2DGAB RT lnðaÞ ð11Þ cooperativity is characterized by the interaction parameter
a, while chelate cooperativity is characterized by product
Positive cooperativity (a > 1) arises when the free energy K EM. In allosteric systems, cooperativity can be either
of formation of the assembly is more than the sum of the free positive or negative, depending on the value of a, whereas
energies of the isolated interactions. Equations (12)–(14) chelate cooperativity can only be positive. Comparison of
describe the corresponding case for formation of c-AA·BB allosteric binding with denaturation of self-assembled com-
with a = 1: plexes reveals that the relationships of the macroscopic
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parameters nH and cR with a are very similar to the relation- identical macroscopic cooperative behavior. Furthermore,
ships with K EM. In the limit of strong positive cooperativity most natural and artificial examples of strong positive
(a @ 1 or K EM @ 1), the stoichiometry of the complex (N) cooperativity are cases of chelate cooperativity. Typical
can be determined from titration experiments, where nH tends microscopic association constants in supramolecular systems
to (N1) and log cR tends to 2/(N1), or from dilution are in the range 102–104 m 1 with typical effective molarities in
experiments, where log cR tends to 1 + 2/(N1). the range 103–101m,[39] which lead to K EM values of 101–
There are two cases in which the macroscopic parameters 105, whereas the value of a is typically 103–102.[10, 21] Many
nH and cR do not provide insight into the cooperativity that is apparent cases of strong positive allosteric cooperativity
present at the molecular level: unimolecular folding and actually involve chelation. For example, highly cooperative
bimolecular self-assembly. The former is independent of nucleation–growth of open linear aggregates usually involves
concentration, and because the stoichiometry of the latter is the formation of helical or multistrand oligomers with closed
two, the binding isotherms have the same form as non- loops of intramolecular chelate interactions.[22, 23, 40]
cooperative binding that involves only one intermolecular In reality, chelate and allosteric effects often exist
interaction. However, the presence of chelate cooperativity in together in the same system. When the cooperating inter-
both cases can be revealed by denaturation. action sites are far apart, cooperativity is easy to quantify, as
The link between allosteric and chelate cooperativity is discussed above. However, when the sites are close together,
exemplified by hemoglobin.[1] Chelate cooperativity in he- this analysis becomes difficult, because an appropriate single-
moglobin leads to formation of a self-assembled tetrameric site reference system may not be available. Consider a
protein (Figure 1 c). In mammalian hemoglobin, each part of guanine–cytosine base-pair for example. There is allosteric
the tetramer binds oxygen in an allosteric manner (Figures 1 a cooperativity, which arises from secondary electrostatic
and 2 a). In hemoglobin from lamprey fish, oxygen binding interactions between neighboring H-bond sites,[41] and chelate
causes the four subunits to dissociate, and cooperativity in cooperativity, which stabilizes the triply H-bonded state
ligand binding is associated with denaturation of the tetramer relative to partially bound intermediates. However, dissection
(Figure 17). In this case, the frame of reference determines of the contributions of K EM and a is problematic because of
whether the cooperativity is described as positive or negative: the difficulty in selecting the reference systems required to
as far as the ligand is concerned, the binding of one oxygen estimate K values for the individual H-bond sites.[42]
molecule increases the affinity of the receptor for other The recognition of chelate cooperativity, as similar to, but
oxygen molecules (positive homotopic cooperativity); as far as different from, allosteric cooperativity, has important impli-
the receptor is concerned, the binding of one oxygen molecule cations. For example, the realization that multivalent assem-
reduces the affinity of one hemoglobin monomer for another blies can be designed to exhibit sharp bound–free transitions
hemoglobin monomer (negative heterotopic cooperativity).[6] is useful in the creation of responsive materials, sensors, or
Tabushi exploited the link between allosteric and chelate drug delivery systems, where small changes in conditions lead
cooperativity by showing that hemoglobin-like cooperativity to an abrupt switch in binding. Cooperativity is also funda-
can be achieved using oxygen as a monovalent ligand to mental to understanding the operation of biological systems,
displace a chelated divalent ligand from a metalloporphyrin where coordinated switching of molecular species between
dimer (see Figure 13).[38] discrete states is the key to managing complexity.
Allosteric cooperativity is widely recognized, and its
definition is unambiguous.[5] However, there has been a
tendency to define cooperativity in such a way as to exclude Abbreviations
chelate effects. At the molecular level, chelate and allosteric
effects are completely different, but they can result in a allosteric interaction parameter
[A] concentration of species A (free)
[A]0 total concentration of A, including free and
A bound to other species.
cR concentration switching window
EM effective molarity
K association constant
K’ normalized association constant[14]
log decadic logarithm
ln natural logarithm
nH Hill coefficient
N number of binding sites
R gas constant
T temperature
Figure 17. Lamprey hemoglobin forms a self-assembled tetramer (top),
DG free energy change of equilibrium
but oxygen binding (right) competes with subunit interactions. The
monomer has a higher affinity for oxygen than the tetramer, so the
qA site occupancy of receptor A
species that dominate are the free tetramer and bound monomer. The
chelate cooperativity that stabilizes the tetramer leads to positive Received: May 11, 2009
allosteric cooperativity in oxygen binding. Published online: September 10, 2009
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