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Citation: The Journal of Chemical Physics 141, 22D517 (2014); doi: 10.1063/1.4898711
View online: http://dx.doi.org/10.1063/1.4898711
View Table of Contents: http://scitation.aip.org/content/aip/journal/jcp/141/22?ver=pdfcov
Published by the AIP Publishing
Effect of hydrophobic mismatch on domain formation and peptide sorting in the multicomponent lipid bilayers in
the presence of immobilized peptides
J. Chem. Phys. 141, 074702 (2014); 10.1063/1.4891931
More than the sum of its parts: Coarse-grained peptide-lipid interactions from a simple cross-parametrization
J. Chem. Phys. 140, 115101 (2014); 10.1063/1.4867465
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THE JOURNAL OF CHEMICAL PHYSICS 141, 22D517 (2014)
GALA is a 30 amino acid synthetic peptide consisting of a Glu-Ala-Leu-Ala repeat and is known
to undergo a reversible structural transition from a disordered to an α-helical structure when chang-
ing the pH from basic to acidic values. In its helical state GALA can insert into and disintegrate
lipid membranes. This effect has generated much interest in GALA as a candidate for pH triggered,
targeted drug delivery. GALA also serves as a well-defined model system to understand cell penetra-
tion mechanisms and protein folding triggered by external stimuli. Structural transitions of GALA in
solution have been studied extensively. However, cell penetration is an interfacial effect and poten-
tial biomedical applications of GALA would involve a variety of surfaces, e.g., nanoparticles, lipid
membranes, tubing, and liquid-gas interfaces. Despite the apparent importance of interfaces in the
functioning of GALA, the effect of surfaces on the reversible folding of GALA has not yet been stud-
ied. Here, we use sum frequency generation vibrational spectroscopy (SFG) to probe the structural
response of GALA at the air-water interface and IR spectroscopy to follow GALA folding in bulk
solution. We combine the SFG data with molecular dynamics simulations to obtain a molecular-
level picture of the interaction of GALA with the air-water interface. Surprisingly, while the fully
reversible structural transition was observed in solution, at the water-air interface, a large fraction of
the GALA population remained helical at high pH. This “stickiness” of the air-water interface can
be explained by the stabilizing interactions of hydrophobic leucine and alanine side chains with the
water surface. © 2014 AIP Publishing LLC. [http://dx.doi.org/10.1063/1.4898711]
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22D517-2 Schach et al. J. Chem. Phys. 141, 22D517 (2014)
A. Synthesis
All Fmoc-protected L-amino acids and preloaded
resin (Fmoc-Gly-Wang resin, 100–200 mesh, low loaded
0.30 mmol g−1 ) for solid phase peptide synthesis were
purchased by Novabiochem (Merck). The purity of the
commercial amino acids was ≥98%. N-[(1H-benzotriazol-
1-yl)(dimethylamino)methylene]-N-methyl-methanaminium
hexafluoro-phosphate N-oxide (HBTU, Novabiochem), ethyl
cyano-glyoxylate-2-oxime (Oxyma Pure, Merck, ≥98%),
N,N-diisopropyethylamine (DIEA, Fluka, ≥98%), trifluo-
roacetic acid (TFA, Acros, 99%), triisopropylsilane (TIS,
SCHEME 1. (Left) GALA in the folded state with protonated (neutral) glu- Alfa Aesar, 99%), N-methyl-2-pyrrolidone (NMP, BDH,
tamic acid side chains and (right) in the unfolded state with deprotonated
(charged) glutamic acid side chains. The charged side chains are spatially 99%), piperazine (Merck, ≥99%), and all solvents were used
separated while the neutral ones can safely interact with each other. Glutamic as received.
acid side chains are shown in red. Lipophilic leucine, alanine, and trypto- The peptide sequences were prepared using standard
phane residues are shown in white and histidine in blue. The backbone col- solid-phase Fmoc chemistry with a microwave assisted au-
oring corresponds to α-helices shown in blue, and coil and turn in white and
yellow, respectively. tomated peptide-synthesizer (Liberty, CEM). Tryptophan
was used as Fmoc-L-Trp(Boc)-OH, Histidine as Fmoc-L-
His(Trt)-OH, and Glutamic acid as Fmoc-L-Glu(OtBu)-OH.
self-associates into oligomers with the ability to penetrate the The parameters used for the coupling and deprotection steps
hydrophobic core of lipid membranes, form pores and in- are given below and relate to 0.1 mmol of peptide. Cou-
duce leakage.13–15 Along those lines, multiple investigations pling was achieved under 300 s of microwave heating, with
of GALA as a vector for drug or gene delivery have been a temperature reaching and stabilized at 75 ◦ C after around
conducted.9 What remains to be clarified is how hydropho- 90 s, with Oxyma Pure as activator (5 equivalents), DIEA
bic surfaces—for example, drug loaded polymeric nanopar- as base (10 equivalents), and amino acid (5 equivalents).
ticles, biochips, and biotechnical equipment—may influence Then a first deprotection stage of 30 s (temperature reach-
GALA’s pH-driven helix-coil transitions. Folding (and ag- ing around 50 ◦ C at the end) was followed by a second cy-
gregation) at the (hydrophobic) air-water interface has been cle of 180 s (temperature 75 ◦ C) with a 20 wt. % solution of
investigated in the context of understanding the conforma- piperazine in dimethyl formamide. The resin was washed 3
tional equilibrium of several protein systems that are report- to 5 times between each coupling or deprotection step. Be-
edly intrinsically disordered in solution, undergo transitions fore cleavage the resin was dispersed in dichloromethane and
to helical structures when in contact with membranes or hy- filtered. Cleavage of peptide from the resin was performed
drophobic interfaces, but are also able to from β-sheet rich using a mixture of TFA/TIS/H2 O (95%/2.5%/2.5%) for 6 h at
(amyloid) aggregates at higher protein concentrations. Ex- ambient temperature. After filtration, the peptides were pre-
amples include amyloid-beta-peptide, α-synuclein and LK cipitated and centrifuged three times in cold diethyl ether,
peptides.16–18 and dried over vacuum at 30 ◦ C. To exchange the TFA with
The aim of the present study is an improved understand- DCl counterions, 10 mg of the GALA were solubilized in
ing of how GALA interacts with aqueous-hydrophobic inter- 20 μl deuterated 2,2,2-trifluoroethanol (TFE) with 40 μl of
faces and how binding to such surfaces affects the folding of D2 O (pH = 2.3, DCl) while being placed in an ultrasonic bath
GALA. As the easiest accessible water-hydrophobic interface for 15 min. To support the deuteration of the N–H groups of
we have chosen the air-water interface for this investigation. the peptide bonds the vial was heated up to 38 ◦ C in a tempera-
We probed the pH-dependent secondary structure by a com- ture controlled shaker for 2 h. After deep-freezing the solution
bination of surface sensitive vibrational sum frequency gener- in liquid nitrogen the peptide was placed in a freeze-drying
ation (SFG) spectroscopy, infrared spectroscopy, and molec- system. After one night of freeze drying the procedure was
ular dynamics (MD) simulations of GALA in solution and at repeated three more times. The Glu side chains in the purified
the air-water interface. state can be considered fully deuterated yielding the state of
GALA0 .
pH = 3 and pH = 12) were used for each measurement. The stant before the SFG measurements were performed. To fully
sample chamber was purged with dry air for 10 min before protonate or deprotonate the Glu at the air-water interface we
every measurement. The software OPUS was used to display, added a certain amount of DCl or NaOD to the subphase to
record, and analyze the spectra. From all spectra we sub- yield pHs of 3 or 12, respectively. The amount of DCl and
tracted the spectrum of the BG recorded in the same mea- NaOD needed was determined independent of the SFG ex-
surement session since residual superposition of the amide periment using a pH-electrode.
bands with the broad D2 O bending mode band at 1555 cm−1 The spectra were corrected for the background and nor-
did not allow comparing the spectra without this treatment. malized through a reference spectrum generated by the non-
The exact peak positions were identified by the minimum po- resonant SFG signal of a silver surface. Spectra were recorded
sitions in the second derivative spectra, which were calcu- in ssp (s-polarized SFG, VIS, and p-polarized IR beams) and
lated by means of the Savitzky-Golay algorithm (degree 2) sps polarization with 600 s of acquisition time. The back-
allowing a concomitant smoothing (9 smoothing points). The ground signal was also recorded with 600 s of acquisition time
amide I region was fitted with a sum of profiles consisting of while blocking the IR pulse.
50% Lorentzian shape and 50% Gaussian shape20 using the
Levenberg-Marquardt algorithm.21 The resonance positions
obtained from the second derivative spectra were fixed and
E. Molecular dynamics simulations
the full width at half maximum (FWHM) as well as the band
area were iterated. To check and further improve the quality of Two sizes of GALA peptides were studied by MD
the fit we also compared the second derivative spectra of the simulations: the full-length peptide consisting of 30
fit with the original second derivative spectra. The resonance residues and a shorter version with only 16 residues
positions are reported with an error margin of ±2 cm−1 . (WEAALAEALAEALAEH) corresponding to the first half
of the repetitive sequence, from now on denoted as half-
GALA. The latter was chosen to more extensively study the
C. Tensiometry folding/unfolding equilibrium and the partitioning process be-
tween the bulk water phase and the air-water interface at dif-
Surface pressure curves were taken simultaneously with
ferent pH conditions, i.e., protonation states of the peptide.
SFG measurements using a Kibron DeltaPi tensiometer,
Simulations were performed with the GROMACS simula-
which was calibrated to air and the pure buffer solution first.
tion package22 using the GROMOS 57a7 force field23 and the
The constant baseline measured at the beginning in absence
SPC water model.24 The peptide was solvated in a rectangu-
of the peptide was set to zero.
lar box for the simulations with an air-water interface or in a
dodecahedral box for the bulk-solution simulations. The sys-
tem was neutralized by sodium ions depending on the peptide
D. SFG
charge (GALA0 , GALA7− , half-GALA0 , and half-GALA4− ).
For the SFG experiments we used broadband infrared The initial box size was chosen such that the minimum dis-
pulses generated by an OPG/OPA (TOPAS, Light Conver- tance between the box edge and the protein was larger than
sion), which was pumped by ∼1.7 W average power of 1.5 nm. Non-bonded interactions were calculated with a twin-
800 nm pulses from a Spitfire Ace (Spectra Physics) am- range cutoff scheme, with an update of the short range van
plified laser system (1 kHz, ∼40 fs FWHM). In addition, der Waals and the real-space Coulomb interactions (<1.0 nm)
∼1 W of the laser output was branched off and directed every time step, and an evaluation of the van der Waals inter-
through an etalon to generate the narrow band visible pulse actions between 1.0 and 1.4 nm together with the neighbor
(FWHM bandwidth of ∼15 cm−1 , 20 μJ). The broadband in- list every 10 time steps. The long-range Coulomb interactions
frared pulse (∼3.5 μJ) provided a 200 cm−1 spectral window were calculated by the particle mesh ewald method25, 26 with
centered at 1700 cm−1 in the amide I region. The visible and a grid spacing of 0.12 nm. All bonds were constrained by the
infrared beams were spatially and temporally overlapped at LINCS algorithm27 and a time step of 2 fs was used. The sol-
the solution surface. The incident angles of the visible (VIS) vated and neutralized systems were energy-minimized with
and infrared (IR) beam were ∼35◦ and ∼40◦ with respect to position restraints on the protein atoms (1000 kJ mol−1 nm−2 )
the surface normal. The VIS beam was focused down to a di- and subsequently without restraints by the steepest descent
ameter of approximate 400 μm. The SFG light was spectrally and then by the conjugate gradient algorithm. In the next
dispersed by a monochromator and detected by an Electron- step, several 200 ps long equilibration simulations were per-
Multiplied Charge Coupled Device (EMCCD, Andor Tech- formed with position restraints on a decreasing number of
nologies). peptide atoms: initially all peptide atoms were restrained,
A trough (70 × 40 × 5 mm) was filled with 4 ml D2 O then only the backbone atoms and finally only the alpha car-
containing 10 mM K2 HPO4 . The initial pH was set to 11– bon atoms. During the equilibration phase the Bussi velocity
12. 20 μl of the same solution containing 0.14 mg of GALA0 rescale method28 was used to keep the temperature at 298 K
was sonicated for twenty minutes and added to the subphase (with a coupling time of τ T = 0.1 ps). The interface simula-
of the solution in the trough to achieve a final concentration tions were performed under constant volume conditions while
of 9 μM, which is below the concentration at which self- for the bulk systems the pressure was maintained at 1 bar us-
association occurs in bulk solution.9 The samples were al- ing the Berendsen weak coupling method29 with a coupling
lowed to equilibrate until the surface pressure remained con- time of τ P = 0.5 ps. For the production simulations (total
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04:28:36
22D517-4 Schach et al. J. Chem. Phys. 141, 22D517 (2014)
FTIR absorbance
ing the Hamiltonian obtained in this way, we calculate the IR
transition-dipole moments and Raman tensors of the amide
I normal modes from the eigenvalues and eigenvectors, and
we take their tensor product to calculate the vibrational SFG
response.
ify that the GALA peptides used in this study are fully func-
tional and show the expected helix-coil transition in solution.
pH 12
FTIR absorbance
TABLE I. Frequencies, widths, and assignments of the bands obtained from mational equilibrium is accessible to molecular simulations.
fits to the amide I FTIR spectra.a Due to the repetitive sequence of GALA, these simulations of
half-GALA should permit conclusions on the conformational
Band (cm−1 ) HWHM (cm−1 ) Percent full area Assignment
preferences of the full-length peptide, which will then be used
GALA7− to guide the interpretation of the IR and SFG data.
1630 17.8 15 (0.5) β-sheet Figure 2(a) summarizes the results of the folding simula-
1644 28.4 53 (1.6) Random tions of half-GALA in bulk aqueous solution. The left panel
1653 28.9 27 (0.8) α-helix displays the evolution of the secondary structure as a func-
1673 11.9 4 (0.1) β-turn/-sheet
tion of simulation time and residue number, while on the
GALA0 right-hand side representative snapshots at different simula-
1630 29.8 28 (0.8) β-sheet tion times are shown. The first row corresponds to a simula-
1653 27.8 70 (2.1) α-helix
tion of half-GALA0 in the protonated state, which was started
1674 10.1 2 (0.1) β-turn/-sheet
from an α-helical structure. The core of the helix remained
a
The error margin for the band position is ±2 cm−1 . The experimental error of the peak stable for most of the simulation time, with some unfold-
areas is given in parentheses. ing and refolding occurring from the N-terminal side. After
1900 ns the helix unfolded entirely, and from this simulation
alone it is not possible to draw conclusions on the thermody-
band at 1644 cm−1 indicates random structures and accounts namic stability of the α-helix compared to other conforma-
for 53%. From these results, we can confirm the majority tional states, this will be discussed in more details below. As
of GALA molecules adopt random structures in the depro- a next step, half-GALA4− was simulated, i.e., the molecule
tonated state, whereas in the protonated state GALA adopts in its charged/deprotonated state—again starting from an ini-
mostly α-helical structures. tially α-helical structure, to mimic the effect of pH-induced
To obtain a detailed picture of pH induced helix-coil tran- unfolding (see Figure 2(a), second row). As expected, the he-
sitions of GALA in solution we have performed MD sim- lix unfolded rapidly, and a highly dynamic equilibrium of a
ulations of GALA in its protonated and deprotonated state. multitude of structures was observed, including conforma-
Due to the relatively large size of the full GALA peptide tions with bends, β-sheets, but also transient partial α-helical
it is unfeasible to explore the full folding equilibrium at all folds. From this ensemble of unfolded structures, one struc-
different states of interest by MD simulations. We there- ture (at 400 ns, indicated by the black bar) was used to start
fore decided to study half-GALA: a peptide consisting of another simulation in bulk aqueous solution—after reproto-
the first 16 amino acids of the full sequence starting from nating the Glu side chains. The results of this simulation,
the C-terminus (WEAALAEALAEALAEH). This allowed us which mimics refolding induced by decreasing the pH, are
to run longer simulations and reach timescales where fold- shown in the third row of Figure 2(b). Within 1300 ns of
ing/unfolding takes place and an assessment of the confor- simulation time the half-GALA0 molecule folded back into
(a)
(b)
FIG. 2. MD simulations of the folding/equilibrium of half-GALA in different protonation states (a) in bulk aqueous solution (top row: half-GALA0 from α-
helical initial structure; middle row: half-GALA4− from α-helical initial structure; third row: half-GALA0 from initially unfolded structure after reprotonation)
and (b) at the air-water interface (upper row: half-GALA0 from initially unfolded structure; lower row: half-GALA4− from unfolded initial structure).
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22D517-6 Schach et al. J. Chem. Phys. 141, 22D517 (2014)
-1
/ mN m
15
To study how the pH driven refolding of GALA is af-
DCl
fected by the presence of a hydrophobic surface, we combined 10 DCl addition DCl
SFG experiments and MD simulations of GALA at the air- GALA
addition DCl
water interface. Figure 2(b) summarizes the MD simulations 5
of half-GALA, again showing the secondary structure evolu-
0
tion as a function of time together with a few representative
0 100 200 300 400 500
snapshots. The first row of Figure 2(b) shows the simulation
time / minutes
of half-GALA0 , i.e., the molecule in its protonated state with
uncharged Glu side chains, while the second row shows the FIG. 3. (a) Schematic drawing of the experimental setup for combined SFG
simulation of half-GALA4− , i.e., the molecule in its depro- and tensiometry measurements at the air-water interface. (b) Surface pres-
tonated state with charged Glu side chains. Both simulations sure recordings during GALA adsorption to the air-water interface and pH
changes. SFG spectra were recorded at times a, b, c, and d.
had been started from an unfolded conformation (the same
conformation which had already been used in the simulation
depicted in the third row of Figure 2(a)). In both cases, the
half-GALA molecule rapidly moved to the air-water inter- tein and peptide secondary structures in the past. In those
face and remained there for the rest of the simulation time. In SFG studies α-helix,35–37 β-sheet,35, 37 310 -helix,38 and pro-
both cases, the molecule folded into α-helices within roughly tein aggregates39–41 have been identified.
1000 ns, and remained in the α-helical state, irrespective of Figure 3(a) shows a scheme of the experimental setup.
the protonation state of the side chains. Inspection of the In parallel with the SFG measurements we recorded the sur-
obtained structures revealed that the hydrophobic Leu side face pressure throughout the experiment to follow the inter-
chains are oriented towards the vapor phase while the hy- face activity of GALA. The surface tension data are shown
drophilic Glu sites are pointing towards the water phase. Due in Figure 3(b) along with the times of GALA injection, acid
to this partitioning of hydrophobic and hydrophilic residues, and base titration as well as the time points of SFG spectra
the helical conformation is stabilized, to an extent that even measurements. The surface tension data show that, after the
overcomes the charge repulsion between deprotonated Glu addition of solubilized GALA7− (at pH 12) to the subphase
side chains, which drives the unfolding of the GALA helix of D2 O (at pH 12), the surface pressure increases and levels
that had been observed in the bulk solution case. off after 160 min. The increase and saturation of surface ten-
This—in its extent somewhat surprising—stabilization sion indicates GALA7− is surface active and forms a layer at
of the α-helical state of GALA at a hydrophobic surface the air-water interface. This result is in good agreement with
was examined experimentally using SFG spectroscopy at the the observation in the simulations that GALA peptides show
air-water interface. In analogy to other vibrational spectro- a strong affinity to the surface. The amide I SFG spectrum
scopies, amide modes observed in SFG spectra can be used recorded using the ssp polarization combination (s-polarized
to identify secondary structure motives. However, the selec- SFG, s-polarized visible, p-polarized IR) after GALA7−
tion rules of SFG dictate that an SFG response will only injection (“a” in the surface tension curve) is shown in
be visible from an interface where inversion symmetry is Figure 4. The spectrum consists of a resonance near 1645–
broken.32, 33 As a result of these selection rules we can ex- 1650 cm−1 , which can be attributed to α-helices.34, 42, 43
pect that any amide vibrational mode observed within the In complete agreement with the MD simulations, charged
spectra will only originate from ordered secondary struc- GALA—disordered in solution state—binds to the air-water
tures at the air-water interface. Unbound peptides in the water interface and folds into a helical structure.
subphase—even if close to the surface—will not contribute to After 200 min the pH was decreased to 3. The surface
the signal.34 SFG has been successfully used to probe pro- pressure increased and stabilized after 300 min (Figure 3,
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04:28:36
22D517-7 Schach et al. J. Chem. Phys. 141, 22D517 (2014)
FIG. 5. Secondary structure evolution and representative structures from MD simulations of the full-length GALA sequence at the air-water interface in the
protonated (upper row) and the deprotonated (lower row) state.
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04:28:36
22D517-8 Schach et al. J. Chem. Phys. 141, 22D517 (2014)
FIG. 6. Comparison of experimental ssp and sps polarization SFG spectra (orange) and spectra calculated from the 100 ns GALA snapshots (blue) for high and
low pHs shown in Figure 5.
that the unfolding of the GALA sequence is inhibited at the in- Soc. Rev. 42, 1147 (2013).
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surfaces are “sticky” for GALA peptides. This result strongly 8 K. Narayanan, S. K. Yen, Q. Dou, P. Padmanabhan, T. Sudhaharan, S.
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