| Elucidating Protein Thermodynamics from the Three-Dimensional Structure of the Native State Using Network Rigidity Biophysical Journal, Volume 88, Issue 2, 1 February 2005, Pages 903-915 Donald J. Jacobs and Sargis Dallakyan Abstract Given the three-dimensional structure of a protein, its thermodynamic properties are calculated using a recently introduced distance constraint model (DCM) within a mean-field treatment. The DCM is constructed from a free energy decomposition that partitions microscopic interactions into a variety of constraint types, i.e., covalent bonds, salt-bridges, hydrogen-bonds, and torsional-forces, each associated with an enthalpy and entropy contribution. A Gibbs ensemble of accessible microstates is defined by a set of topologically distinct mechanical frameworks generated by perturbing away from the native constraint topology. The total enthalpy of a given framework is calculated as a linear sum of enthalpy components over all constraints present. Total entropy is generally a nonadditive property of free energy decompositions. Here, we calculate total entropy as a linear sum of entropy components over a set of independent constraints determined by a graph algorithm that builds up a mechanical framework one constraint at a time, placing constraints with lower entropy before those with greater entropy. This procedure provides a natural mechanism for enthalpy-entropy compensation. A minimal DCM with five phenomenological parameters is found to capture the essential physics relating thermodynamic response to network rigidity. Moreover, two parameters are fixed by simultaneously fitting to heat capacity curves for histidine binding protein and ubiquitin at five different pH conditions. The three free parameter DCM provides a quantitative characterization of conformational flexibility consistent with thermodynamic stability. It is found that native hydrogen bond topology provides a key signature in governing molecular cooperativity and the folding-unfolding transition. Abstract | Full Text | PDF (362 kb) |
| The Effect of Branching on the Critical Concentration and Average Filament Length of Actin Biophysical Journal, Volume 89, Issue 1, 1 July 2005, Pages 130-140 A.E. Carlsson Abstract The dependences of the steady-state critical concentration and average filament length of actin solutions, on the filament branching and capping rates, are calculated using a rate methodology based on the total number of actin filaments. The methodology generalizes calculations of the “treadmilling” actin concentration at which an average filament has net zero growth rate. The predictions of the rate methodology are validated by comparison with stochastic-growth simulations that track the positions of all filament subunits over time. For side branching, the critical concentration drops proportionally to the square root of the branching rate; for end branching the drop is linear. The polymerization response to branching has a maximum as a function of the capping-protein concentration. The average filament length drops with increasing branching, because the critical concentration drops. Even small rates of filament uncapping have a large impact on the average filament length in vitro. The potential significance of these phenomena for cell behavior is evaluated. Abstract | Full Text | PDF (161 kb) |
| Theory of Optical Spectra of Photosystem II Reaction Centers: Location of the Triplet State and the Identity of the Primary Electron Donor Biophysical Journal, Volume 88, Issue 2, 1 February 2005, Pages 986-998 Grzegorz Raszewski, Wolfram Saenger and Thomas Renger Abstract Based on the structural analysis of photosystem II of , a detailed calculation of optical properties of reaction-center (D1–D2) complexes is presented applying a theory developed previously. The calculations of absorption, linear dichroism, circular dichroism, fluorescence spectra, all at 6K, and the temperature-dependence of the absorption spectrum are used to extract the local optical transition energies of the reaction-center pigments, the so-called site energies, from experimental data. The site energies are verified by calculations and comparison with seven additional independent experiments. Exciton relaxation and primary electron transfer in the reaction center are studied using the site energies. The calculations are used to interpret transient optical data. Evidence is provided for the accessory chlorophyll of the D1-branch as being the primary electron donor and the location of the triplet state at low temperatures. Abstract | Full Text | PDF (282 kb) |
Copyright © 1999 The Biophysical Society. All rights reserved.
Biophysical Journal, Volume 76, Issue 2, 889-895, 1 February 1999
doi:10.1016/S0006-3495(99)77252-8
Membranes
Jens A. Lundbæk*, #,
,
and Olaf S. Andersen*
* Department of Physiology and Biophysics, Weill Medical College of Cornell University, New York, New York 10021 USA
# Department of Neuroendocrine Pharmacology, Novo-Nordisk A/S, Måløv, DK-2760, Denmark
Address reprint requests to Dr. Jens August Lundbæk, Department of Neuroendocrine Pharmacology, Novo Nordisk, Novo Nordisk Park, Måløv, DK-2760, Denmark. Tel.: 45-44-434775; Fax: 45-44-663939.The hydrophobic coupling between integral membrane proteins and the bilayer acyl chains (Owicki et al) causes protein conformational changes that involve the protein-bilayer interface (Unwin and Ennis, 1984,Unwin et al) to perturb the structure of the surrounding bilayer (Israelachvili, 1977) (Fig. 1). (See Mouritsen and Andersen, 1998 for recent overviews of membrane structure and function.) The energetic cost (ΔGtot0) associated with a protein conformational change thus will include a contribution from the associated bilayer deformation energy (ΔGdef0), and the bilayer material constants are among the determinants of protein conformational preference and function (Owicki et al,Mouritsen and Bloom, 1984,Gruner, 1985,Gruner, 1991,Huang, 1986,Andersen et al,Keller et al,Brown, 1994,Lundbæk and Andersen, 1994,Lundbæk et al,Lundbæk et al).
The bilayer material constants vary as a function of the bilayer lipid composition (Evans and Needham, 1987); the associated changes in ΔGdef0 may provide a mechanism for the control of protein function by the membrane lipid composition. Changes in bilayer composition, for example, affect the distribution among different functional states of integral membrane proteins (Brown, 1994,Chang et al,Chang et al,Lundbæk et al) as well as their catalytic activity (Caffrey and Feigenson, 1981,Johannsson et al,Navarro et al,Starling et al). The changes in protein function usually occur in the absence of specific lipid-protein interactions (e.g., Devaux and Seigneuret, 1985,Bienvenüe and Marie, 1994), and they can be induced pharmacologically by compounds that alter the bilayer’s phase propensity (e.g., McCallum and Epand, 1995).
The quantitative contribution of ΔGdef0 to ΔGtot0 remains poorly understood. Studies using model peptides suggest that ΔGdef0 can be substantial (Huang, 1986,Keller et al,Lundbæk and Andersen, 1994,Lundbæk et al,Lundbæk et al). The extrapolation of these results to integral membrane protein function has been difficult, however. First, the theory of inclusion-induced bilayer deformations (Huang, 1986,Helfrich and Jakobsson, 1990,Dan et al,Nielsen et al) is complex, as ΔGdef0 is the sum of three contributions: a compression-expansion component, a splay-distortion component, and an interfacial energy/surface tension component (Fig. 1). The (relative) magnitudes of these contributions to ΔGdef0 vary as a function of the underlying material constants, as well as the choice of boundary conditions at the protein/lipid interface (Nielsen et al). Second, it is not clear whether the quadratic approximation used in elastic (liquid crystal) theories of bilayer behavior (Helfrich, 1973,Huang, 1986) is valid when the curvature radii are comparable to the membrane thickness or whether macroscopic material constants can be used to describe such systems (Helfrich, 1981). This latter concern is accentuated because the contributions to ΔGdef0 are interdependent: a change in the splay-distortion modulus will change not only the splay-distortion component but also the compression-expansion component of ΔGdef0, and vice versa (Nielsen et al).
A potentially important simplifying feature was identified by Nielsen et al, who showed that ΔGdef0 in many cases can be quantified using a linear spring description, where the bilayer material constants are lumped together in a single phenomenological spring constant whose magnitude scales with the dimensions of the imbedded membrane inclusion (protein). In this article we use results of previous experimental studies (Kolb and Bamberg, 1977,Elliott et al) to show that ΔGdef0 indeed can be described by a linear spring model. We further provide numerical estimates for the phenomenological spring constants in hydrocarbon-containing and hydrocarbon-free bilayers. The spring constant in nominally hydrocarbon-free bilayers is in good agreement with predictions based on macroscopic material constants (Nielsen et al), which provides justification for the use of elastic liquid crystal theories to describe protein-induced bilayer deformations.
Gramicidin (gA) channels are miniproteins, formed by the transmembrane dimerization of two monomers, one from each monolayer of a bilayer (O’Connell et al) (Fig. 2). The nonconducting monomers are inserted into monolayers as β6.3 helices (He et al).
There is no evidence for specific interactions between gA channels and their host bilayer (Providence et al,Girshman et al). Furthermore, the helical pitch of the gA channel is not affected by lipid phase transitions or acyl chain length (Katsaras et al), meaning that the channel length can be considered invariant with respect to the extent of the bilayer deformation (but see Mobashery et al). When the length of the channel’s hydrophobic exterior differs from the bilayer hydrophobic thickness, channel formation will perturb the surrounding bilayer. This bilayer deformation has an associated ΔGdef0. Channel dissociation is associated with a corresponding bilayer relaxation and a ΔGdef0 of equal magnitude but opposite sign. The average channel lifetime (τ) therefore depends on the magnitude of ΔGdef0, and gA channels can be used as force transducers (Lundbæk et al,Andersen et al) to evaluate the membrane deformation energy.
The relation between the depth of the deformation in each monolayer (u0) and the bilayer deformation energy (ΔGdef0(u0)) is described using the linear spring approximation (Nielsen et al):
![]() | (1) |
To proceed, we make the standard assumption of strong hydrophobic coupling between the channel and the bilayer core, meaning that the bilayer deformation, 2u0, is given by
![]() | (2) |
When the channel dissociates, the monomers separate a distance δ before the transition state is reached. The dissociation rate constant (kdis) can be described as
![]() | (3) |
![]() |
![]() |
![]() | (5) |
![]() | (6) |
Fig. 3 shows the experimental dependence of τ on d0 for gA channels in monoglyceride bilayers (Kolb and Bamberg, 1977,Elliott et al). The results are shown as −ln{τ} (= ln{kdis}) versus d0. d0 was varied by changing the acyl chain length of the monoglyceride using monopalmitolein (16:1), monoolein (18:1), monoeicosenoin (20:1), monoerucin (22:1), or mononervonin (24:1). (In very thick bilayers (C24:1/n-hexadecane, d0=6.9nm) the gA single-channel conductance is reduced more than 10-fold compared with thinner bilayers, suggesting that the channel structure is altered (Kolb and Bamberg, 1977). Thickness-related changes in gA channel structure do, in fact, occur in very thick bilayers (Mobashery et al); we therefore exclude the C24:1/n-hexadecane results from the quantitative analysis. We further note that strong hydrophobic coupling, meaning that Eq. (2) is obeyed, is expected to fail for monoglyceride/n-hexadecane bilayers with d0>6.0nm (see Discussion).) The hydrocarbon solvent was either n-decane, n-hexadecane, or squalene. Bilayers formed using squalene are virtually hydrocarbon-free (Simon et al,White, 1978). For all three systems, ln{kdis} (or −ln{τ}) is a linear function of d0 over bilayer thickness changes that vary between ∼0.7nm (relative change, ∼25%) for monoglyceride/squalene bilayers, ∼2.0nm (relative change, ∼40%) for monoglyceride/n-hexadecane bilayers, and ∼1.7nm (relative change, ∼30%) for monoglyceride/n-decane bilayers. (The relative changes in u0 are even larger: >10-fold in monoglyceride/squalene bilayers, ∼3-fold in monoglyceride/n-hexadecane bilayers, and ∼2-fold in monoglyceride/n-decane bilayers.) Each line is determined by only three (or four) data points, but the large relative variations in d0 (and u0) allow us to conclude that the relation between kdis (and thus ΔGdef0) and u0 can be described by a linear spring model over a (surprisingly) large range of u0 (or d0).
The slopes of the ln{kdis} versus d0 plots vary with the hydrocarbon solvent: d(ln{kdis})/dd0 in bilayers formed from monoglyceride/squalene solutions is four- or ninefold larger than in monoglyceride/n-hexadecane bilayers or monoglyceride/n-decane bilayers (Table 1). Using Eq. (6), H can be estimated knowing δ, the distance the monomers has moved apart before reaching the transition state for channel dissociation. The transition state reflects the breaking of some of the hydrogen bonds that stabilize the dimer. Removing a single hydrogen bond at the join between the monomers decreases the channel stability 500-fold (Durkin et al). The alternating l-d sequence of gA (Sarges and Witkop, 1965), however, means that the monomers can be connected only by two, four, or six hydrogen bonds, as the two monomers rotate relative to each other; we therefore assume the transition state is reached when two hydrogen bonds are broken, i.e., when the monomers have moved 0.16nm apart. The ensuing estimates of H are summarized in Table 1.
The present analysis shows that the dependence of gA channel lifetime on bilayer thickness can be described by a phenomenological elastic spring model, which is applicable to both solvent-containing and solvent-free bilayers, over a quite large range of thickness variations. gA channels form by the transmembrane association of two monomers, which causes channel formation to be associated with a well defined change in bilayer thickness (when the channel length is less than the bilayer thickness). gA channels therefore should be suitable for quantitative in situ estimates of the bilayer deformation energy associated with a change in the match between bilayer thickness and the hydrophobic length of an integral membrane protein (cf. Gruner, 1991).
We first compare the magnitude of the spring constant in nominally hydrocarbon-free bilayers with predictions based on the theory of elastic liquid crystal deformations using macroscopic, continuum values for the material moduli. We then show that the assumption of strong hydrophobic coupling should be valid under the conditions used to determine the spring constant. We finally comment on previous attempts to analyze ΔGdef0 associated with a gA channel-induced deformation of hydrocarbon-containing bilayers.
Our estimate for the spring constant for the solvent-free gA/monoglyceride system, 69±6kJ/(mol nm2), is independent of the channel’s hydrophobic length because the slope of the ln{kdis} versus d0 relation is independent of the channel length (Eq. (6)). The magnitude of H, however, depends on our choice of δ (Eq. (6)), which we take to be 0.16nm based on the alternating l-d sequence and experimental results on the effects of removing a single residue at the join between the monomers that form the channel (Durkin et al). The value of δ is unlikely to be larger than 0.16nm, but could be smaller, in which case H would be larger than indicated in Table 1. Given this uncertainty, the estimates for H compares well with predictions based on a continuum theory of liquid crystal deformations, as detailed below.
When the area compression-expansion modulus (Ka) and the splay-distortion modulus (Kc) for the bilayer are known, one can predict H using the following expression, which can be derived from the scaling relations in Nielsen et al:
![]() | (7) |
For pure monoolein bilayers, Kc is estimated to be 36±4pNnm (Chung and Caffrey, 1994). Ka has been estimated to be 140±50pN/nm for nominally hydrocarbon-free monoolein/squalene bilayers (White, 1978,Hladky and Gruen, 1982) and 210±20pN/nm for monoolein bilayers formed from pentane (Alvarez and Latorre, 1978). (The uncertainties in Ka were estimated using Monte Carlo methods (Alper and Gelb, 1990), assigning a 30% uncertainty to the electrocompression coefficient reported by White, 1978.) Using these values for Ka and Kc, and approximating the gA channel as having a cylindrical shape, H is predicted to be between 68±15kJ/(molnm2) and 89±6kJ/(molnm2) if the boundary conditions were constrained (Figure 2b), and between 23±6kJ/(molnm2) and 31±2kJ/(molnm2) if the boundary conditions were free (Figure 2c). The experimental estimate for H is in good agreement with predictions based on the constrained boundary condition, and two- to threefold larger than predictions based on the relaxed boundary condition. (The theoretical predictions for H depend on the gA channel radius, which is known only with some uncertainty (cf. Woolf and Roux, 1996; Table 2). Our predictions were based on a channel radius (r0) of 1nm, which could be an overestimate by up to 0.2nm. Such an overestimate of r0 would entail that the predicted H would be too large, by 10% or more, which would only strengthen the agreement between the experimental estimate and the predictions based on the constrained boundary conditions.) If δ were less than 0.16nm, the discrepancy between the experimental estimate for H and the prediction(s) based on the relaxed boundary conditions would be even larger.
Considering the number of parameters involved when predicting ΔGdef0 (or H) using the theory of liquid-crystal deformations (Huang, 1986,Nielsen et al), the agreement between the observed and predicted H (for the constrained boundary condition) could be due to a fortuitous cancellation of errors. Although that possibility cannot be excluded, we consider the agreement to provide considerable support for using the theory of liquid crystal elastic deformations to describe membrane protein-induced perturbations of lipid bilayers (even though the extension to biological membranes may be complicated by their heterogeneous, asymmetric lipid composition). With that proviso, the agreement between our estimate for H in nominally hydrocarbon-free monoglyceride/squalene membranes and the prediction based on the constrained boundary conditions indicates that the lipid organization at the protein/lipid interface (in hydrocarbon-free bilayers) should be described using the constrained boundary condition, in agreement with the conclusion of Huang, 1986.
In hydrocarbon-containing bilayers, the free boundary conditions should prevail, as the lipid packing problem at the protein/bilayer interface will be reduced because the hydrocarbon can fill any void created at the protein/lipid interface when the angle between the lipid director and the protein surface differs from zero (cf. Figure 2c). Hydrocarbons thus exert a similar effect on protein/bilayer interactions as they do on bilayer↔nonlamellar phase transitions in pure lipids (Kirk and Gruner, 1985). In addition, for either boundary condition, the compression and splay contributions to ΔGdef0 are reduced because the hydrocarbon can be squeezed out from between the acyl chains, which reduces H further, to below predictions based on the free boundary conditions (in a hydrocarbon-free bilayer), as is observed (cf. Table 1).
An implicit assumption in the above analysis, and all previous work on membrane protein/lipid bilayer interactions, is that the hydrophobic coupling between the channel’s exterior surface and the bilayer is sufficiently strong to ensure that Eq. (2) is valid. The range of membrane thickness variations that were used in the experiments of Kolb and Bamberg, 1977 and Elliott et al is so large, however, that it is necessary to validate the assumption of strong hydrophobic coupling. Following Andersen et al, strong hydrophobic coupling should prevail, and Eq. (2) remain valid, as long as
![]() | (8) |
Previously, Helfrich and Jakobsson, 1990 evaluated the deformation energy in hydrocarbon-containing bilayers. In their analysis the ΔGdef0 associated with gA channel formation in hydrocarbon-containing bilayers was evaluated using a sandwich approximation in which the hydrocarbon was assumed to be localized in a separate phase in the membrane interior. A bilayer-compressing force therefore would work on two springs in series: one spring denotes thinning the bilayer to the hydrocarbon-free thickness and is characterized by an area compression-expansion modulus Ka1; another spring denotes compression of the hydrocarbon-free bilayer and is characterized by an area compression-expansion coefficient Ka2 · Ka2 is expected to be ∼1000 · Ka1 (Helfrich and Jakobsson, 1990). Thus, when the bilayer thickness is varied by changing the acyl chain length, thinning the bilayer to the hydrocarbon-free thickness would be an almost constant minor contribution to ΔGdef0 (Helfrich and Jakobsson, 1990,Durkin et al). The hydrocarbon should not influence the membrane thickness dependence of ΔGdef0. The solvent dependence of H (Fig. 3 and Table 1) does not support the sandwich approximation. This finding could have been predicted from the results of McIntosh et al, who found that the longer hydrocarbons are interdigitated parallel to the acyl chains and not positioned in the middle of the bilayer.
In conclusion, gA channels can be used to measure the phenomenological spring constant that describes the membrane deformation energy associated with an imposed change in bilayer lipid packing. The spring constant in nominally hydrocarbon-free bilayers is in good agreement with the value predicted using an elastic liquid-crystal theory of bilayer deformations, which provides support for the use of macroscopic material constants when evaluating membrane protein-bilayer interactions and for the neglect of the higher-order terms in the expression for the membrane deformation energy (Helfrich, 1973,Helfrich, 1981). Moreover, the energetics of channel-bilayer interactions can be described by a linear spring model even in hydrocarbon-containing bilayers, which suggests that gA channels can be used to evaluate the mechanical properties of bilayers of arbitrary chemical composition (including the bilayer component of biological membranes). Thus, because the spring constant scales as an approximately linear function of protein radius (Nielsen et al), one should be able to use experimentally determined spring constants to evaluate the bilayer deformation energy associated with protein conformational changes in many different membrane environments.
This work was supported in part by a grant from the Danish Medical Research Council (J. A. Lundbæk) and by NIH grant GM21342 (O. S. Andersen).
We thank A. M. Maer and C. Nielsen for helpful discussions about lipid bilayer mechanics and comments about the manuscript and the reviewers for insightful comments that helped improve the manuscript.
Alper and Gelb, 1990 (1990). Standard errors and confidence intervals in nonlinear regression: comparison of Monte Carlo and parametric statistics. J. Phys. Chem. 94, 4747–4751. CrossRef | PubMed
Alvarez and Latorre, 1978 (1978). Voltage-dependent capacitance in lipid bilayers made from monolayers. Biophys. J. 21, 1–17. Abstract | | CrossRef | PubMed
Andersen et al., 1998 (1998). Gramicidin channels: molecular force transducers in lipid bilayers. Biol. Skr. Dan. Vid. Selsk. 49, 75–82. PubMed
Andersen et al., 1992 (1992). Modulation of channel function by the host bilayer. In Biomembrane Structure and Function. Gaber, B.P., Easwaran, K.R.K., eds. (Schenectady, NY: Adenine Press), pp. 227–244. PubMed
Benz et al., 1975 (1975). Electrical capacity of black lipid films and of lipid bilayers made from monolayers. Biochim. Biophys. Acta 394, 323–334. PubMed
Bienvenüe and Marie, 1994 (1994). Modulation of protein function by lipids. Curr. Top. Membr. 40, 319–354. PubMed
Brown, 1994 (1994). Modulation of rhodopsin function by properties of the membrane bilayer. Chem. Phys. Lipids 73, 159–180. CrossRef | PubMed
Caffrey and Feigenson, 1981 (1981). Fluorescence quenching in model membranes. III. Relationship between calcium adenosinetriphosphatase enzyme activity and the affinity of the protein for phosphatidylcholines with different acyl chain characteristics. Biochemistry 20, 1949–1961. PubMed
Chang et al., 1995a (1995). Lipid-ion channel interactions: increasing phospholipid headgroup size but not ordering acyl chains alters reconstituted channel behavior. J. Membr. Biol. 145, 13–19. PubMed
Chang et al., 1995b (1995). Attenuation of channel kinetics and conductance by cholesterol: an interpretation using structural stress as a unifying concept. J. Membr. Biol. 143, 51–63. PubMed
Chung and Caffrey, 1994 (1994). The curvature elasticity-energy function of the lipid-water cubic mesophase. Nature 368, 224–226. CrossRef | PubMed
Dan et al., 1994 (1994). Membrane-induced interactions between inclusions. J. Phys. II. 4, 1713–1725. PubMed
Devaux and Seigneuret, 1985 (1985). Specificity of lipid-protein interactions as determined by spectroscopic techniques. Biochim. Biophys. Acta 822, 63–125. PubMed
Durkin et al., 1993 (1993). Energetics of heterodimer formation among gramicidin analogues with an NH2-terminal addition or deletion: consequences of a missing residue at the join in channel. J. Mol. Biol. 231, 1102–1121. CrossRef | PubMed
Elliott et al., 1983 (1983). The effects of bilayer thickness and tension on gramicidin single-channel lifetime. Biochim. Biophys. Acta 735, 95–103. PubMed
Evans and Needham, 1987 (1987). Physical properties of surfactant bilayer membranes: thermal transitions, elasticity, rigidity, cohesion, and colloidal interactions. J. Phys. Chem. 91, 4219–4228. CrossRef | PubMed
Girshman et al., 1997 (1997). Gramicidin channels in phospholipid bilayers with unsaturated acyl chains. Biophys. J. 73, 1310–1319. Abstract | | CrossRef | PubMed
Gruner, 1985 (1985). Intrinsic curvature hypothesis for biomembrane lipid composition: a role for nonbilayer lipids. Proc. Natl. Acad. Sci. U.S.A. 82, 3665–3669. CrossRef | PubMed
Gruner, 1991 (1991). Lipid membrane curvature elasticity and protein function. In Biologically Inspired Physics. Peliti, L., ed. (New York: Plenum Press), pp. 127–135. PubMed
He et al., 1994 (1994). Closed state of gramicidin channel detected by x-ray in-plane scattering. Biophys. Chem. 49, 83–89. CrossRef | PubMed
Helfrich, 1973 (1973). Elastic properties of lipid bilayers: theory and possible experiments. Z. Naturforsch. 28C, 693–703. PubMed
Helfrich, 1981 (1981). Amphiphilic mesophases made of defects. In Physique Des Défauts (Physics of Defects). Balian, R., Kléman, M., Poirier, J.-P., eds. (New York: North-Holland Publishing Co.), pp. 716–755. PubMed
Helfrich and Jakobsson, 1990 (1990). Calculation of deformation energies and conformations in lipid membranes containing gramicidin channels. Biophys. J. 57, 1075–1084. Abstract | | CrossRef | PubMed
Hladky and Gruen, 1982 (1982). Thickness fluctuations in black lipid membranes. Biophys. J. 38, 251–258. Abstract | | PubMed
Huang, 1986 (1986). Deformation free energy of bilayer membrane and its effect on gramicidin channel lifetime. Biophys. J. 50, 1061–1070. Abstract | | PubMed
Israelachvili, 1977 (1977). Refinement of the fluid-mosaic model of membrane structure. Biochim. Biophys. Acta 469, 221–225. PubMed
Johannsson et al., 1981 (1981). The effect of bilayer thickness on the activity of (Na+, K+)-ATPase. Biochim. Biophys. Acta 641, 416–421. PubMed
Katsaras et al., 1992 (1992). Constant helical pitch of the gramicidin channel in phospholipid bilayers. Biophys. J. 61, 827–830. Abstract | | CrossRef | PubMed
Keller et al., 1993 (1993). Probability of alamethicin conductance states varies with nonlamellar tendency of bilayer phospholipids. Biophys. J. 65, 23–27. Abstract | | CrossRef | PubMed
Kirk and Gruner, 1985 (1985). Lyotropic effects of alkanes and headgroup composition on the Lα-HII lipid crystal phase transition: hydrocarbon packing versus intrinsic curvature. J. Phys. 46, 761–769. PubMed
Kolb and Bamberg, 1977 (1977). Influence of membrane thickness and ion concentration on the properties of the gramicidin A channel: autocorrelation, spectral power density, relaxation and single-channel studies. Biochim. Biophys. Acta 464, 127–141. PubMed
Lundbæk and Andersen, 1994 (1994). Lysophospholipids modulate channel function by altering the mechanical properties of lipid bilayers. J. Gen. Physiol. 104, 645–673. CrossRef | PubMed
Lundbæk et al., 1996 (1996). Membrane stiffness and channel function. Biochemistry 35, 3825–3830. PubMed
Lundbæk et al., 1997 (1997). Lipid bilayer electrostatic energy, curvature stress, and assembly of gramicidin channels. Biochemistry 36, 5695–5701. PubMed
McCallum and Epand, 1995 (1995). Insulin receptor autophosphorylation and signaling is altered by modulation of membrane physical properties. Biochemistry 34, 1815–1824. PubMed
McIntosh et al., 1980 (1980). The organization of n-alkanes in lipid bilayers. Biochim. Biophys. Acta 597, 445–463. PubMed
Mobashery et al., 1997 (1997). The conformational preference of gramicidin channels is a function of lipid bilayer thickness. FEBS Lett. 412, 15–20. CrossRef | PubMed
Mouritsen and Andersen, 1998 Mouritsen, O. G., and O. S. Andersen, Eds. 1998. In Search of a New Biomembrane Model. Biol. Skr. Dan. Vid. Selsk, Munksgaard, Copenhagen. 49..
Mouritsen and Bloom, 1984 (1984). Mattress model of lipid-protein interactions in membranes. Biophys. J. 46, 141–153. Abstract | | CrossRef | PubMed
Navarro et al., 1984 (1984). Effect of lipid composition on the calcium/adenosine 5′-triphosphate coupling ratio of the Ca2+-ATPase of sarcoplasmic reticulum. Biochemistry 23, 130–135. PubMed
Nielsen et al., 1998 (1998). Energetics of inclusion-induced bilayer deformations. Biophys. J. 74, 1966–1983. Abstract | Full Text | PDF (326 kb) | PubMed
O’Connell et al., 1990 (1990). Kinetics of gramicidin channel formation in lipid bilayers: transmembrane monomer association. Science 250, 1256–1259. PubMed
Owicki et al., 1978 (1978). Theoretical study of protein-lipid interactions in bilayer membranes. Proc. Natl. Acad. Sci. U.S.A. 75, 1616–1619. CrossRef | PubMed
Providence et al., 1995 (1995). Gramicidin channel function does not depend on phospholipid chirality. Biochemistry 34, 16404–16411. PubMed
Sarges and Witkop, 1965 (1965). Gramicidin A. V. The structure of valine- and isoleucine-gramicidin A. J. Am. Chem. Soc. 87, 2011–2019. CrossRef | PubMed
Sharp et al., 1991 (1991). Reconciling the magnitude of the microscopic and macroscopic hydrophobic effects. Science 252, 106–109. PubMed
Simon et al., 1977 (1977). The noneffect of a large linear hydrocarbon, squalene, on the phosphatidylcholine packing structure. Biophys. J. 19, 83–90. Abstract | | CrossRef | PubMed
Starling et al., 1995 (1995). Evidence that the effects of phospholipids on the activity of the Ca2+-ATPase do not involve aggregation. Biochem. J. 308, 343–346. PubMed
Unwin and Ennis, 1984 (1984). Two configurations of a channel-forming membrane protein. Nature 307, 609–613. CrossRef | PubMed
Unwin et al., 1988 (1988). Arrangement of the acetylcholine receptor subunits in the resting and desentisitized states, determined by cryoelectron microscopy of crystallized Torpedo postsynaptic membranes. J. Cell. Biol. 107, 1123–1138. CrossRef | PubMed
White, 1978 (1978). Formation of “solvent-free” black lipid bilayer membranes from glyceryl monooleate dispersed in squalene. Biophys. J. 23, 337–347. Abstract | | CrossRef | PubMed
Woolf and Roux, 1996 (1996). Structure, energetics, and dynamics of lipid-protein interactions: a molecular dynamics study of the gramicidin A channel in a DMPC bilayer. Proteins Struct. Funct. Genet. 24, 92–114. PubMed