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Received 25 January 2002; received in revised form 21 March 2002; accepted 21 March 2002
Abstract
Protein–protein interactions have been measured for a mutant (D101F) lysozyme and for native lysozyme in
concentrated solutions of ammonium sulfate at pH 7 and sodium chloride at pH 4.5. In the mutant lysozyme, a
surface aspartate residue has been replaced with a hydrophobic phenylalanine residue. The protein–protein interactions
of D101F lysozyme are more attractive than those of native lysozyme for all conditions studied. The salt-induced
attraction is correlated with a solvation potential of mean force given by the work required to desolvate the part of
the protein surfaces that is buried by the protein–protein interaction. This work is proportional to the aqueous surface-
tension increment of the salt and the fractional non-polar surface coverage of the protein. Experimental measurements
of osmotic second virial coefficients validate a proposed potential of mean force that ascribes the salt-induced
attraction between protein molecules to an enhancement of the hydrophobic attraction. This model provides a first
approximation for predicting the protein–protein potential of mean force in concentrated aqueous electrolyte solutions;
this potential is useful for determining solution conditions favorable for protein crystallization.
䊚 2002 Elsevier Science B.V. All rights reserved.
Keywords: Intermolecular interactions; Potentials of mean force; Lysozyme; Salting-out; Salts; Hydrophobic effect
0301-4622/02/$ - see front matter 䊚 2002 Elsevier Science B.V. All rights reserved.
PII: S 0 3 0 1 - 4 6 2 2 Ž 0 2 . 0 0 0 7 1 - 6
250 R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265
activity coefficients, protein diffusion coefficients addition to the salting-out effect of non-polar
and free energies. However, the interaction groups, there is a salting-in effect due to an
between protein molecules in a concentrated salt electrostatic interaction between the salt ions and
solution is not well understood. Since protein the peptide group w5,6x. Here, we determine the
solubility typically decreases as salt concentration salt-induced protein–protein attraction and corre-
rises, protein–protein interactions become more late this attraction with the effect of the salt on
attractive with increasing salt concentration. Mod- the solvation energetics of the non-polar and polar
els based on DLVO theory w1x fail to predict this surface of the protein. We compare protein–protein
behavior. The only ionic-strength-dependent term interactions between native lysozyme molecules
in DLVO theory is the electric double-layer poten- with those of a mutant lysozyme as a function of
tial, which is negligible at the salt concentrations salt type and salt concentration. In the mutated
where salting-out is observed. Although protein lysozyme molecule, a surface aspartate residue is
solubility is a strong function of the type of salt, replaced with hydrophobic phenylalanine. The pro-
following the lyotropic series, in the DLVO theory tein–protein interaction is measured by static light
all ions are point charges and the theory does not scattering to determine an osmotic second virial
distinguish between different types of ions of coefficient, B22, that is related to an integral over
identical charge. separation and angles of the potential of mean
In addition to the forces reflected in the standard force w7x. The potential of mean force is the free
DLVO potentials, there are water-mediated forces energy of the system when two protein molecules
between protein molecules; these forces, called are held at a fixed separation relative to when they
solvation forces, include both hydration forces and are infinitely far apart, averaged with respect to
hydrophobic forces. When the solvent structure orientation of the two protein molecules and with
adjacent to the protein surface is perturbed, the respect to orientation of all molecules in the
solvation force is determined by the change in free medium separating the two protein molecules.
energy associated with this perturbation w2x.
Charged or polar surfaces adsorb water molecules; 1.2. Protein–protein interactions in protein
these surfaces are hydrophilic and the forces crystallization
between them are called hydration forces. Hydra-
tion forces are repulsive because as the distance George and Wilson w8x have shown the impor-
between two hydrated protein molecules decreases, tance of the pair potential of mean force for
free energy is required to remove the intervening predicting solution conditions favorable for protein
water molecules around the polar or charged sur- crystallization; they have shown a B22 crystalliza-
face groups. Hydrophobic interactions occur tion window for protein solutions. As a necessary
between non-polar protein surfaces; these forces (but not sufficient) condition for protein crystalli-
are attractive because as the distance between two zation, B22 should lie between y2=10y4 and y
non-polar protein surfaces decreases, the overall 8=10y4 ml molyg2. For B22 more positive than
free-energy change associated with desolvating y2=10y4 ml molyg2, the protein–protein attrac-
non-polar residues is negative. tion is usually not sufficiently strong to form stable
In concentrated salt solutions, solvation forces protein crystals. For solutions where B22 is more
are significantly altered from those in dilute elec- negative than y8=10y4 ml molyg2, amorphous
trolyte solutions because salt ions change the precipitation is likely to occur because protein–
structure of the intervening water w3x. From solu- protein attractions are sufficiently strong so that
bility studies of non-polar organic solutes, it is the protein molecules do not have adequate time
known that the hydrophobic interactions between to orient themselves into a crystal lattice. Guo et
non-polar residues increase with addition of salt, al. w9x have extended the George and Wilson work
leading to the well-known salting-out effect w4x. to show that there is a relationship between protein
Studies on the solubilities of model peptides in solubility and B22 which has been correlated with
concentrated salt solutions have shown that in a simple phase equilibrium theory w10x. More
R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265 251
in protein folding where the scaling factor is given the pmf from short-ranged forces acting over a
by the solvation free energy of the part of the surface-to-surface separation, rc, which is chosen
surface that is buried during folding. In protein to be approximately one solvent diameter. A dis-
folding studies, the free energy of burying part of advantage of this pmf model is discontinuities at
the non-polar protein surface is set equal to the a surface-to-surface separation equal to d2 and
free energy to transfer the same surface from water equal to d2qrc. However, if desired, the model
to an organic phase mimicking the protein interior can be reparameterized so that the sum of the
w17–19x. Because the SASA potential we employ DLVO potentials and the SASA potential is con-
here is spherically symmetric, we assume that the tinuous; as shown by Asthagiri et al. w20x, a scaling
protein surface has averaged characteristic non- parameter can be used to connect a short-ranged
polar and polar areas. Consequently, the scaling form and a long-ranged form of the dispersion
factor includes contributions from the free energy potential. For separations where the solvent is
to desolvate the non-polar and the polar part of excluded from the region between the two proteins,
the protein surface. A positive contribution to the Asthagiri et al. employ an all-atomistic calculation
scaling factor results from attractive hydrophobic for the dispersion potential, whereas the longer-
interactions that are attributable to desolvating the range contribution to the dispersion potential was
non-polar part of the protein surface. A negative determined using a Lifshitz–Hamaker method.
value of the scaling parameter indicates that the The main advantage of the model proposed here
protein–protein interaction is repulsive. Repulsive is that the model provides a simple approximation
forces may occur because there is an electrostatic for separating the salt-dependent potentials in con-
desolvation penalty for excluding water in the centrated electrolyte solutions from those in dilute
vicinity of polar or charged surface groups. Forces electrolyte solutions, as shown in Fig. 2a,b. In Fig.
of this nature are hydration forces. 2a, the contribution of the protein excluded volume
When the DLVO and the SASA potentials are B22,ex and that of the DLVO potential B22,DLVO are
incorporated into the potential-of-mean-force plotted vs. ionic strength. In the calculation, the
(pmf) model, the osmotic second virial coefficient Hamaker constant is set to 8 kbT which is similar
is given by: to the value reported for lysozyme w21x. As the
ionic strength rises, B22,DLVO as-symptotically
2
B922s pd23 approaches a constant value as the electric double
3 layer potential is screened out. In typical salting-
d qr
1 2 c
q
2 d2 |Ž1yeybWSASA(r).4pr2dr out conditions, the ionic strength is greater than
0.5 molal and the proposed crystallization window
1
` suggests that B22 should be less than y2=10y4
q
2 | Ž1yeybWDLVO(r).4pr2dr
d2qrc
(3) ml molyg2 to crystallize proteins. For lysozyme,
the repulsive part of the potential B22,ex approxi-
Here B922 is related to the experimentally-deter- mately cancels the attractive contribution from the
mined osmotic second virial coefficient B22 by DLVO potential B22,DLVO indicating that protein–
NavB922 protein attraction cannot be described by a model
B22s (4) containing only DLVO potentials. For example,
M22
Velev et al. w22x have fit lysozyme–lysozyme
where Nav is Avogadro’s number and bs(kBT)y1. interactions using a more exact electrostatic model
WDLVO is the sum of the electric-double-layer and found that a high Hamaker constant of 13.8
repulsion and Hamaker-dispersion potentials. The kBT gives the best fit to data obtained in solutions
first term is the contribution to B22 from the of 0.005 to 0.5 molar sodium–chloride solutions.
protein-excluded volume effect. The contribution Velev et al. proposed that the difference between
to B22 from the SASA potential and that from the the fit Hamaker constant and the expected value
DLVO potentials are separated by recognizing that of 3–5 kBT was due to the neglect of a small
the SASA potential contains the contributions to number of highly attractive configurations. It is
R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265 253
Fig. 2. (a) Contribution of the DLVO potentials B22,DLVO and the contribution of the protein excluded volume B22,ex plotted vs. ionic
strength (molal). (b) Contribution of the SASA potential B22,SASA as a function of scaling parameter k.
these anisotropic interactions that determine the and ks is the salting-out constant. For conditions
protein orientation in the crystal. where the solubility of the protein is sufficiently
Here, we correlate the SASA potential with the low that protein–protein interactions are negligi-
change in the protein–protein attraction as salt ble, it follows from the Cohn equation that the
concentration rises. In Fig. 2b, the contribution of solvation free energy of the protein is proportional
the SASA potential B22,SASA is plotted as a function to the salt molality if the protein crystal is assumed
of the scaling parameter, k. In the model described to be a pure phase w24x. Thus,
by Eq. (3), B22,SASA is given by the difference
between the measured B22 and B22,DLVO, which g2 g2,o
s ybqksm3 (7)
would correspond to a range of k between 5 and kBT kBT
9 calymolA ˚ 2 according to Fig. 2b.
Here, we propose that the scaling factor is a where g2 and g2,o are the solvation free energy of
linear function of the salt molality, m3 the protein in the salt solution and that in salt-free
water, respectively. As a first approximation, we
ksgm3qko (5) propose that the scaling factor, k, is given by the
where ko is a hypothetical value of the scaling free energy per unit area to desolvate that part of
factor at a salt molality of zero. g is a proportion- the protein surface that is made inaccessible to the
ality constant defined by Eq. (5) with units of solvent due to the proximity of the two protein
surface energy per molal. The motivation for using surfaces. Because the solvation free energy is
Eq. (5) derives from the classical salting-out equa- proportional to salt molality according to Eq. (7),
tion w23x where we also expect that the scaling parameter is pro-
portional to salt molality.
S2
ln sbyksm3 (6) The approximation that the protein crystal is a
S2,o pure phase may lead to significant error because
Here, S2 is the solubility of a protein in a solution it is known that protein crystals contain a signifi-
containing salt at a molality of m3; S2,o is the cant amount of salt and water w25x. Arakawa and
solubility of the protein in salt-free water; b is a Timasheff w26,27x have determined the solvation
hypothetical protein solubility at zero salt molality; free-energy increment, dg2 ydm3, independent of
254 R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265
Fig. 3. The mutated residue is modeled as a circular patch on the surface of the sphere. The patch–patch interaction is given by the
non-polar surface free energy multiplied by the surface area of the patch that is within a cut-off separation, rc , of the second sphere.
Here, this area is given by the total area of the two patches that is enclosed by the box. See text for description of the angles of
rotation, a1, a2, w1 and w2; rc is the cut-off surface-to-surface separation approximated as a solvent diameter and d2 is the protein
diameter.
the assumption of a pure protein crystal from provided by comparing the results for native lyso-
protein-salt preferential-interaction-parameter zyme with those for D101F lysozyme. The D101F
measurements indicating that the molal surface- lysozyme is modeled as a sphere with a hydropho-
tension increment of the salt provides a first bic circular patch on the surface with an area given
approximation for determining the effect of salt on by the approximate solvent-exposed surface area
the solvation free energy. The molal surface-ten- of the phenylalanine residue. The difference in the
sion increment of the salt is correlated with the B22 values of native and of D101F lysozyme is
position of the salt in the lyotropic series that was related to an angle-averaged form of the virial
originally developed to describe the salting-out coefficient. The angle-dependent solvation free
effectiveness of various ions for globular proteins energy of the circular patch mimicking the hydro-
w28x. For anions, the series is given in decreasing phobic mutation is given by:
order of the molal surface-tension increment
GpŽr,w1,w2.sykaApŽr,w1,w2. (8)
by SO2y y y y
4 )F )Cl )Br )NO3 )CLO4 )
y y
y y
I )SCN ; the corresponding series for cations is The geometry is shown in Fig. 3. Ap is the
given by Mg2q)Naq)Kq)Liq)NHq 4 )Cs .
q combined surface area of the two patches that is
High-lyotropic-series salts are called kosmotropes, within a cut-off surface–surface separation, rc, of
whereas low-lyotropic-series salts are called chao- the second sphere; w1 and w2 are the angles of the
tropes. In addition to increasing the surface free spheres with respect to the axis connecting their
energy of the protein, salt ions interact favorably centers that denote the orientation of the patch,
with exposed polar and charged surface groups. and ka is a characteristic scaling parameter for the
Favorable protein-salt interactions are associated patch. We denote this parameter with subscript a
with a negative surface-free-energy increment. In because the value of this parameter is expected to
this work, we correlate g with the molal surface- be given by a non-polar surface free energy. The
tension increment of the salt. corresponding form of Eq. (5) is given by:
kasgam3qka,o (9)
1.4. Potential-of-mean-force model for anisotropic
interactions The patch is approximated as circular such that
the orientation of the patch is independent of
Information on the effect of salt on the hydro- rotation about the axis connecting the center of
phobic interaction between protein molecules is the patch and the center of the sphere. The poten-
R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265 255
tial is invariant to rotations of the spheres about repressed excess-glycerol batch phase. After the
the axis connecting the centers of the two spheres, glycerol is exhausted, a glycerol feed is initiated
a1 or a2. For this case, the angle-averaged poten- at a limiting rate further to increase cell density
tial of mean force is given by: and to allow derepression of the AOX1 promoter.
1
p The glycerol-fed batch stage is followed by a
eybWp(r)s
4 |
0
eybGp(r,w1,w2)sinŽw1.sinŽw2.dw1dw2 methanol-fed batch stage where the flow rate of
the methanol is slowly increased by 10% every 30
(10) min until the maximum feed rate rises to 10 mly
where the orientation dependence of the buried hØl. At this time, the fermenter is run in a contin-
patch surface area is discussed in Appendix A. uous phase for 24 h with yields of approximately
The contribution from the patch–patch interaction 100 mgyl D101F lysozyme.
to B922 is:
d2qrc
1 2.2. Lysozyme purification
B922,D101FyB922,natives
2 |
d2
Ž1yeybWp(r).4pr2dr
Fig. 4. On the left is the space-filling structure of D101F lysozyme, where the mutated residue is shown in dark gray. The blow-up
of the region is shown on the bottom right and the analogous representation for the native form is shown on the top right.
Fig. 5. Experimental B22 for lysozyme in solutions of sodium chloride at pH 4.5 or ammonium sulfate at pH 7 vs. salt molality.
same molality. It is possible that the effect of ion shown in Fig. 6a,b. For the ammonium–sulfate
binding on the protein–protein interactions is not and sodium–chloride solutions, the fit values of k
significant for the conditions studied here. As and g are insensitive to the choice of the Hamaker
reported by Curtis et al. w34x, B22 becomes more constant. The fit values of ko are approximately 6
positive as pH is lowered in concentrated ammo- calymolA ˚ 2 for both salt solutions. For the solutions
nium–sulfate solutions. This effect is attributed to of sodium chloride, the ratio of g to the molal
the formation of soluble lysozyme–sulfate com- surface-tension increment is 0.40, similar to the
plexes at low pH. In this work, the experiments in value 0.68 obtained for the ratio of the measured
ammonium sulfate solutions are at pH 7 where surface free-energy increment to the molal surface-
sulfate–ion binding is minimal because lysozyme tension increment from experiments in 1.0 molal
has a low net positive charge at this pH. In solutions of sodium chloride w26x. The data
sodium–chloride solutions, because the slightly obtained for ammonium–sulfate solutions exhibit
chaotropic chloride ion binds to the slightly chao- considerable scatter about the best-fit line. Conse-
tropic imidazolium ion, the protein surface chem- quently, the corresponding value of g is approxi-
istry is not significantly altered; consequently, the mate although it is of the same order of magnitude
protein–protein interactions might not change as that obtained from solutions of sodium chloride.
upon chloride–ion binding. Fig. 7 compares osmotic second virial coeffi-
The surface-free-energy parameter, k, is fit to cients for D101F lysozyme to those of native
the values of B22 using the pmf in Eq. (3). In Fig. lysozyme. The difference in B22 is due to hydro-
6a,b, we plot k vs. salt molality for the case where phobic interactions of the mutated residue. The
the pmf does not include the Hamaker dispersion contribution to the potential of mean force from
potential and the case where the Hamaker constant the mutation is reproduced by our model for the
is set to 8 kBT. The values of g wsee Eq. (5)x and patch–patch interaction in Eq. (11). Fig. 8 shows
ko are obtained from the slopes and the intercepts the results of fitting the non-polar surface free-
on the vertical axis of the best-fit lines to the data energy parameter, ka using this model. The fit
R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265 259
Fig. 6. Surface free energy of lysozyme in solutions of sodium chloride at pH 4.5 determined from fitting B22 to the potential-of-
mean-force model described by Eq. (3), with rcs3 A. ˚ For Hs8.0 kBT, the slope of the plot, gs0.93 (calymolA ˚ 2) (kgymole) or
˚ 2
for Hs0.0 kBT, the slope of the plot, gs0.94 (calymolA ) (kgymole). Surface free energy of lysozyme in solutions of ammonium
sulfate, pH 7, determined from fitting B22 to the potential-of-mean-force model described by Eq. (3), with rcs3 A. ˚ For Hs8.0
kBT, the slope of the plot, gs1.9 (calymolA˚ 2 ) (kgymole) or for Hs0.0 kB T, the slope of the plot, gs1.5 (calymolA˚ 2 ) (kgymole).
Fig. 7. Experimental B22 for D101F lysozyme or for native lysozyme in solutions of sodium chloride, pH 4.5, vs. salt molality.
260 R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265
Fig. 8. Hydrophobic surface free energy for D101F lysozyme in solutions of sodium chloride at pH 4.5 calculated from the pmf
model wEq. (11)x vs. salt molality.
values of ka vary between 30 and 34 calymolA ˚2 polar part of the protein surface. Most likely, the
and increase with rising salt concentration indicat- interaction between salt ions and proteins is spe-
ing that the non-polar patch is salted-out by addi- cific for each system; basic proteins have very
tion of sodium chloride. The fit values of ka are strong interactions with chaotropic anions, but not
significantly greater than the corresponding values with kosmotropic anions. On the other hand, no
of k because the patch is non-polar whereas the corresponding trend between acidic proteins and
protein surface contains polar and charged groups cations is observed.
that lead to a negative contribution to the scaling Fig. 9 gives the apparent molecular weights for
parameter. D101F lysozyme in solutions of ammonium sulfate
The slope of the best-fit line given in the plot, or of sodium chloride. The experimental results
ga, is equal to 3.6 calymolA ˚ 2-kgymole, larger than as-symptotically approach 16 000 gymol some-
the value of g (see Fig. 6a). If the primary effect what larger than the molecular weight of the
of salt is to raise the surface free energy of the monomer, 14 600 gymol, indicating that there is
non-polar groups, we expect that the ratio of ga to either a small degree of pre-aggregation or a high-
g is given by the inverse of the ratios of the molecular-weight impurity in all the solutions.
fractional non-polar surface coverage of the patch, High-molecular-weight impurities were not detect-
f a, to that of the protein surface, f . The fraction ed in SDS-gel electrophoresis; it is therefore more
of the solvent accessible surface area of lysozyme likely that there is a small degree of irreversible
that is carbon is approximately 0.49. Because the aggregation. For concentrated ammonium–sulfate
patch is predominantly non-polar, ga y f as3.6, in solutions, the large apparent molecular weights
semi-qualitative agreement with the ratio, gy f s indicate that there is strong association at low
1.8. protein concentrations. The concentration depend-
Given the scatter of the data and the simplifying ence of the association could not be examined
geometric assumption contained in the pmf model, because the sensitivity of the experiment was
we cannot draw any conclusions regarding the insufficient at protein concentrations less than 1
effect of salt on the solvation free energy of the gyl for solutions of lysozyme. The apparent molec-
R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265 261
Fig. 9. Apparent molecular weights for D101F lysozyme in solutions of ammonium sulfate, pH 7, or sodium chloride, pH 4.5, vs.
salt molality.
ular weights of D101F lysozyme in solutions of potential. Because decreasing the scaling parame-
ammonium sulfate are greater than those in solu- ter raises the protein–protein repulsion, we expect
tions of sodium chloride indicating that the patch– that our value for k should be less than that
patch interaction is more attractive in the presence reported by Elcock and McCammon w36x. Accord-
of ammonium sulfate, as expected because the ing to the model for the patch–patch interaction,
molal surface-tension increment of ammonium sul- ka should reflect the solvation energetics of only
fate is larger than that of sodium chloride. the mutated residue. The electrostatic desolvation
Elcock and McCammon w36x use a similar pmf potential should be less for the D101F lysozyme
model to describe protein–protein interactions for than that for the native form because a charged
lysozyme in sodium chloride solutions. These group has been replaced by a non-polar residue.
authors use more precise calculations for determin- The fit value of ka should reflect the non-polar
ing a SASA potential, an electrostatic double-layer solvation of the phenylalanine residue minus the
potential, and an electrostatic desolvation potential; unfavorable electrostatic desolvation penalty
the solvent-accessible surface area is calculated described above. Thus, we expect that our fit value
using a probe molecule rolled over the protein of ka is similar to or slightly larger than the scaling
surface using the protein structure determined from parameter reported by Elcock and McCammon.
crystallization data. The electrostatic desolvation The difference between these values may also be
potential or hydration force is included in this due to the simplifying assumptions of our model
model to account for the unfavorable removal of where we have neglected the shape of the protein.
water in the vicinity of charged surface groups.
Using that model, Elcock and McCammon obtain 4. Conclusions
a fit value of the scaling parameter for the SASA
potential equal to 24 calymolA ˚ 2. We assume that The primary goal of this work is to probe the
the hydration force is contained in the SASA protein–protein interaction in concentrated salt
262 R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265
solutions and to propose a simple potential of the dominant protein–protein interactions are
mean force that can be used in phase-equilibrium short-ranged, consistent with the proposed poten-
calculations and as a protein-crystallization diag- tial of mean force. It is possible that the contri-
nostic. Previous salting-out studies of model com- butions of the non-polar groups and of the polar
pounds and of proteins have shown that the groups to the SASA potential can be separated in
primary effect of salt is to increase the non-polar a manner similar to the empirical separation of the
surface free energy of the protein. Generally, pro- dispersion force and the SASA potential given in
tein salting-out occurs because the non-polar part our model. Thus, we expect that the proposed
of the solvent-accessible surface area is reduced in potential of mean force may be useful for describ-
the crystal due to the formation of protein–protein ing the hydrophobic interaction between proteins
contacts. To incorporate this effect into our model, in concentrated salt solutions.
we relate the scaling parameter of a SASA poten-
tial with the surface free energy of the protein Acknowledgments
molecule.
The scaling parameter is expressed as a linear The authors are grateful to the Office for Basic
function of the salt molality where g is the linear Energy Sciences of the US Department of Energy
coefficient that is determined from the slope of a and to the National Science Foundation (Grant
plot of scaling parameter vs. salt molality. We have 噛CTS-9530793) for financial support and to Prof.
determined g from fitting the interaction between J. Kirsch for providing the D101F lysozyme and
two protein surfaces and ga from fitting the con- to Professor P. Curtis for help with cloning gene
tribution to the protein–protein interaction from a into P. Pastoris.
non-polar patch on the protein surface. For sodi-
um–chloride solutions, the ratio of g to the molal
surface-tension increment of the salt is similar to Appendix A: Calculation of the area of patch
that reported by Arakawa and Timasheff w26x for buried during protein–protein interaction
the ratio of the surface free energy increment to
the same molal surface-tension increment. There The effect of the mutation on protein–protein
is considerable scatter in the data obtained from interactions is included in the model by placing
ammonium–sulfate solutions, although it appears circular hydrophobic patches on the surfaces of
that the fit value of g for these solutions is similar the spheres. The two-body potential is obtained
to that obtained in sodium chloride. In further from the combined area contained on the patches
support of the proposed potential of mean force, that is within a separation, rc, of the opposing
the obtained value of ga is within a factor of 2 for sphere multiplied by the negative of the non-polar
gy f where f is the fraction of the protein surface surface free energy. The interaction is referred to
that is non-polar. as the patch–patch interaction, although the inter-
The fit values of the scaling parameters for the action includes all configurations where either
patch–patch interaction are significantly greater patch is at least partially desolvated. Subsequently,
than the corresponding values for the protein– non-local interactions of a patch and the uniform
protein interaction indicating that hydration forces surface are also included in the overall potential.
make a significant contribution to the overall This appendix derives the area of a patch within
protein–protein potential of mean force. Because a separation, rc of a second sphere as illustrated in
these forces are most likely longer-ranged than a Fig. 10. The area is determined by calculating the
solvent diameter, we do not expect that the SASA common arc length between the patch and concen-
potential provides a truly realistic description for tric circles that are everywhere equidistant from
these forces. However, recent work has shown that the opposing sphere. The concentric circles are
protein–protein interactions under crystallizing given by the dashed lines in Fig. 10. Integration
conditions are accurately modeled using an adhe- of the common arc lengths to the cut-off separation
sive potential w11x. Subsequently, we conclude that gives the buried surface area.
R.A. Curtis et al. / Biophysical Chemistry 98 (2002) 249–265 263
Fig. 10. The patch–patch interaction is calculated by summing the area of both patches that is within the cut-off separation rc given
by the area enclosed in the box. The variables are explained in Appendix A. The inset shows the coordinate system for the calculation
along with that denoting the orientation of the patch given by the primed variables.
The centers of the concentric circles are at a where subscript p refers to the coordinates of the
distance xo from the center of the spheres in which boundary of the patch. The coordinate transfor-
they are contained, and a distance ry2xo from the mation is calculated from the matrix, C, for a
opposing sphere. The radii, h, are given by the rotation given by w1.
chord theorem:
Zcosw1 sinw1 0Z
hŽxo.swŽRqxo.ŽRyxo.x1y2
Subscript o refers to the coordinates of the con-
(A.1)
Z Z
CsZysinw1 cosw1 0Z (A.5)
centric circles. The patch is approximated as cir-
cular with an area given by the surface area
calculated from the crystal structure given in Table
Z
Z 0
Z
0 1Z
1. The solid angle of the patch, u is determined
from fitting the area of the patch, Ap where
u Zx9Z ZxZ
Aps2pR2 | 0
sinu9du9 (A.2)
Z Z ZZ
Zy9ZsCZyZ
The projected radius of the patch, Rp, is: (A.6)
RpsRsinu (A.3) Z Z ZZ
Zz9 Z Zz Z
The equation of the boundary of the patch needs
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