| Glycerol Conductance and Physical Asymmetry of the Escherichia coli Glycerol Facilitator GlpF Biophysical Journal, Volume 85, Issue 5, 1 November 2003, Pages 2977-2987 Deyu Lu, Paul Grayson and Klaus Schulten Abstract The aquaglyceroporin GlpF is a transmembrane channel of that facilitates the uptake of glycerol by the cell. Its high glycerol uptake rate is crucial for the cell to survive in very low glycerol concentrations. Although GlpF allows both influx and outflux of glycerol, its structure, similar to the structure of maltoporin, exhibits a significant degree of asymmetry. The potential of mean force characterizing glycerol in the channel shows a corresponding asymmetry with an attractive vestibule only at the periplasmic side. In this study, we analyze the potential of mean force, showing that a simplified six-step model captures the kinetics and yields a glycerol conduction rate that agrees well with observation. The vestibule improves the conduction rate by 40% and 75% at 10-M and 10-mM periplasmic glycerol concentrations, respectively. In addition, neither the conduction rate nor the conduction probability for a single glycerol (efficiency) depends on the orientation of GlpF. GlpF appears to conduct equally well in both directions under physiological conditions. Abstract | Full Text | PDF (407 kb) |
| Orientation and Interaction of Oblique Cylindrical Inclusions Embedded in a Lipid Monolayer: A Theoretical Model for Viral Fusion Peptides Biophysical Journal, Volume 87, Issue 2, 1 August 2004, Pages 999-1012 Yonathan Kozlovsky, Joshua Zimmerberg and Michael M. Kozlov Abstract We consider the elastic behavior of flat lipid monolayer embedding cylindrical inclusions oriented obliquely with respect to the monolayer plane. An oblique inclusion models a fusion peptide, a part of a specialized protein capable of inducing merger of biological membranes in the course of fundamental cellular processes. Although the crucial importance of the fusion peptides for membrane merger is well established, the molecular mechanism of their action remains unknown. This analysis is aimed at revealing mechanical deformations and stresses of lipid monolayers induced by the fusion peptides, which, potentially, can destabilize the monolayer structure and enhance membrane fusion. We calculate the deformation of a monolayer embedding a single oblique inclusion and subject to a lateral tension. We analyze the membrane-mediated interactions between two inclusions, taking into account bending of the monolayer and tilt of the hydrocarbon chains with respect to the surface normal. In contrast to a straightforward prediction that the oblique inclusions should induce tilt of the lipid chains, our analysis shows that the monolayer accommodates the oblique inclusion solely by bending. We find that the interaction between two inclusions varies nonmonotonically with the interinclusion distance and decays at large separations as square of the distance, similar to the electrostatic interaction between two electric dipoles in two dimensions. This long-range interaction is predicted to dominate the other interactions previously considered in the literature. Abstract | Full Text | PDF (200 kb) |
| Simple, Robust Linkage Tests for Affected Sibs The American Journal of Human Genetics, Volume 62, Issue 5, 1 May 1998, Pages 1228-1242 Alice S. Whittemore and I-Ping Tu Abstract Parametric-linkage analysis applied to large pedigrees with many affected individuals has helped in the identification of highly penetrant genes; but, for diseases lacking a clear Mendelian inheritance pattern or caused by several genes of low to moderate penetrance, a more robust strategy is nonparametric analysis applied to small sets of affected relatives, such as affected sib pairs. Here we show that the robustness of affected-sib-pair tests is related to the shape of the constraint set for the sibs' identity-by-descent (IBD) probabilities. We also derive a set of constraints for the IBD probabilities of affected sib triples and use common features of the shapes of the two constraint sets to introduce new nonparametric tests (called “minmax” tests) that are more robust than those in current use. Asymptotic-power computations support the robustness of the proposed minmax tests. Abstract | Full Text | PDF (1475 kb) |
Copyright © 2006 The Biophysical Society. All rights reserved.
Biophysical Journal, Volume 91, Issue 9, 3359-3369, 1 November 2006
doi:10.1529/biophysj.106.082289
Muscle and Contractility
David Smith*,
,
and John Sleep†
* Department of Physiology, Monash University, Clayton, Victoria, Australia
† Randall Centre, King’s College London, London, United Kingdom
Address reprint requests to David Smith, Dept. of Physiology, Monash University, Clayton, Victoria 3800, Australia.It is generally believed that myosin makes force and movement in muscle by a working stroke when bound to actin; the kinetics of this transition is governed by the difference in elastic strain energies of the initial and final states and therefore depends on the initial strain. In this article, we suggest how the kinetics of the stroke can be explored with optical-trap experiments.
To this end, we first derive expressions for the rate constants from the reaction-energy profile first suggested by Huxley and Simmons 1, which is broadly consistent with the atomic structures of myosin with stereospecific positions of its neck region for prestroke and poststroke states 2,3,4. In the absence of a load, the lever arm is assumed to swing freely on a flat energy plateau between sharp potential wells for the prestroke and poststroke states. Under isometric conditions, where the distal end of the neck and the actin filament are both held fixed, the stroke may be inhibited by the energy cost of bending the lever, and the plateau region becomes a parabolic function of lever-arm orientation, the angle of minimum energy being determined by the position of the tethering point. The strain-dependent stroke rate of this “flat landscape” model is then calculated from Kramers’ theory of unimolecular reactions in the limit of overdamping. Other scenarios, in which all strain dependence has been assigned to the forward or the backward rate, have been used as discussed below. All scenarios must comply with the strain-dependent equilibrium constant of the stroke transition prescribed by the change in strain energy.
Turning now to single-myosin experiments with an optically trapped actin filament, we have shown previously 5 that the determination of the working stroke from these experiments is complicated by strain-dependent mechanochemistry. A statistical treatment is necessary because the prestroke bound state is not observed in nonprocessive myosins such as myosin II. The conventional method of analysis uses the event-averaged displacement of the actin filament, which is the unweighted average of the mean displacements in each period of attachment after a binding event 6,7: after a small correction for the stiffness of the traps, this mean displacement is equated with the working stroke. This result is expected if the myosin always makes a stroke, or strokes with the same probability, after binding to different sites on the actin, in which case the forward stroke rate must be strain-independent. This assumption is contraindicated by length-step experiments in the muscle fiber, where the rate of phase-2 tension recovery is a strongly decreasing function of the size of the step 1,8; this recovery has been modeled by putting all the strain dependence in the forward rate. Thus, it is desirable to have a first-principles model of the kinetics of the working stroke.
To establish terminology, it is convenient to use the same kinetic scheme throughout for actin-myosin-nucleotide states, namely
where state 1 is M.ADP.Pi, states 2 and 3 are the prestroke and poststroke A.M.ADP.Pi states, and state 4 is the rigor state A.M. The detachment step 4→1 requires ATP binding. For simplicity, A.M.ADP states and states with bound ATP are omitted. This omission is justified for trap experiments at micromolar levels of ATP.
This scheme has been analyzed for application to low-frequency trap data 5, where the minimum duration between detectable events (minimum resolving time) is ≥5ms. The event-averaged mean displacement was predicted by assuming that the only detectable bound state was the rigor state A.M. Under these conditions, the event-averaged displacement is controlled by the strain-dependent equilibrium constant of the stroke, not the rate constants of the forward and backward transitions. Testing this model is difficult because the predicted deflation factor (mean bound-state displacement/working stroke) varies substantially with kinetic parameters such as the equilibrium constant of the stroke and the rate of prestroke detachment from actin, which are not under experimental control. Consequently, the observed mean displacement is a lower bound for the working stroke. In the discussion section, we suggest ways around this problem.
High-frequency trap data, in which the minimum resolving time is ≤1ms, should reveal the initial short-lived poststroke state A.M.ADP.Pi, as well as the downstream states A.M.ADP and A.M, but there appears to be no obvious way of detecting the former if no additional stroke is associated with the release of phosphate. A possible handle for this problem is the use of two types of averaging in analyzing displacement data. The conventional method uses event averaging, which assigns unit weight to each binding event: one can also construct the time-averaged displacement, which assigns unit weight to each displacement in a uniformly sampled time recording. The fundamental significance of time averaging is that, under equilibrium conditions when the ergodic theorem applies, time averaging is equivalent to ensemble averaging as used in statistical mechanics. Note that time averaging is equivalent to a weighted form of event averaging where the mean displacement in each period of attachment is weighted by its lifetime, provided that the mean displacement in detached periods is zero. If the lifetime of the detected bound states is strain-independent, as for A.M in Scheme 1, then the same lifetime applies to all actin sites and the two averaging methods give the same result. At higher time resolution, where the A.M.ADP.Pi state is detected, the two averages are not expected to be the same because the lifetime of this state depends on the rate of stroke reversal, which can be strain-dependent. Thus, different scenarios for the strain dependence of the stroke rate control the difference between event-averaged and time-averaged displacements in high-frequency data, even though the ratio of the strain-dependent forward and backward rates is determined from detailed balancing. Using both kinds of averaging should give information on the strain dependence of stroke kinetics, and also shed more light on the relation between these average displacements and the true working stroke.
To demonstrate these relationships, event-averaged and time-averaged mean displacements have been calculated from Scheme 1 as a function of different kinetic scenarios and the time resolution of the event detector. For high-frequency data, these average displacements are numerically different, the difference being an increasing function of how much of the strain dependence of stroke equilibrium is assigned to the rate of stroke reversal. As detection is degraded by increasing the resolving time of the event detector, this difference reduces smoothly to zero for resolving times >5ms, where the influence of the strain-dependent lifetime of the A.M.ADP.Pi state is negligible, as modeled previously.
To apply stroke-kinetic scenarios to trap data, consider how actomyosin transition rates are affected when the actin filament is weakly tethered by the traps. In this case, working-stroke events are far from isometric; as the lever arm swings, the actin-beads dumbbell is pulled smoothly out of the traps and any large strain-energy barrier associated with the isometric transition is avoided. To analyze this effect, note that the working stroke is driven not only by thermal fluctuations in the myosin but also by thermally generated displacement fluctuations of the actin-beads assembly. The effective stroke rate then depends on the relative timescales of filament fluctuations and the stroke. If filament fluctuations are more rapid than the working stroke, the initial distribution of displacements is in Boltzmann equilibrium; we then show that the stroke rate is obtained from its isometric form by replacing myosin stiffness by the stiffness of myosin and the traps connected in series. This limit is realized experimentally; the damping frequency of the actin-beads “dumbbell” with myosin bound is of the order of 105s−1 whereas the fastest measured stroke rate is <104s−1.
The above “Brownian-averaged” reaction rates are then applied to kinetic models of trap displacement data. With high-frequency data, the event-averaged mean displacement is controlled by the strain dependence of the stroke rate, and a model with binding and stroke transitions is sufficient. Predictions at finite time resolution are made using Scheme 1, by inserting the probability that the lifetime of the poststroke states exceeds the resolving time.
In this section the strain-dependent rate constant of the working stroke is calculated from the reaction-energy profile of the flat-landscape model. Evidence for this model derives from known atomic structures of myosin-ligand complexes. The crystallized poststroke state was the near-rigor state A.M.ADP 2. Under ATP-cycling conditions, the prestroke state is the products state A.M.ADP.Pi, which readily releases the products of hydrolysis, so a vanadate analog was used for crystallization 3. In these two states, the orientations of the neck region of the myosin heavy chain are stable, at 110° and 40°, respectively, to the plus-end of the actin filament; these observations are consistent with those obtained from cryo-electron microscopy in insect flight muscle 4, and spin-label and fluorescent probes 9,10. Between these states, the C-terminus of the neck region is displaced by 10–11nm. A recent molecular-dynamics simulation of the return stroke 11 suggests that the neck region of detached myosin does swing freely between these limits, thus acting as a lever arm. This lever arm, including its converter connection to the motor domain, exhibits elastic compliance and bends by 2nm under isometric tension in the muscle fiber 12. This compliance may be distributed along the lever arm, but there is evidence that at least part of it is localized in the converter 13.
The flat-landscape model is summarized in Fig. 1. If the distal end of the lever arm is unconstrained, the lever arm swings on a flat energy surface
between the orientational potential wells of the prestroke and poststroke states, at angles
and
This situation is almost realized for myosin-S1 bound to a weakly trapped actin filament, as in the three-bead trap experiment. Weak restoring forces generated by the traps allow large-scale movements of the actin-beads dumbbell relative to the tethered myosin; nevertheless, there will be a small additional energy cost to the stroke reaction when the stroke pulls the dumbbell out of the traps. In striated muscle, the positional constraints are much stronger and limited by the elasticity of the filaments.
between narrow potential wells at the prestroke and poststroke angles
(B) When the distal end of the lever arm is fixed, the stroke works against the elastic energy
of bending the arm, and the energy landscape
is a function of myosin-site distance x, plotted for x=0 (unstrained before stroking),
(unstrained after stroking), and
(no change in strain). For clarity, strained states are depicted by distributed curvature in the lever arm. Parabolic strain-energy curves were generated with
and
Energies (in pN.nm) are measured from the plateau.It is convenient to calculate the stroke rate under isometric conditions, where the actin filament and the C-terminus of the neck region are held fixed. In this case, the bound myosin must stroke against the elastic energy of its own deformation, commonly assumed to be a bending of the lever arm. The energy cost will be considerably in excess of thermal energy unless the lever arm is initially bent in the opposite direction, in which case that strain would be relieved by the stroke (Figure 1B). Let x be the longitudinal distance from myosin to actin site, such that x is also the bending strain of the bound myosin in its prestroke state. Then the Gibbs energy is
where
for bending stiffness k, and the working stroke is
, where R is the length of the lever arm. The strain energies of the initial and final states are
and
which differ by
thus the working stroke is energetically favorable when
and subject to an extra energy barrier of this amount when
If the reaction rate is limited only by the highest energy in the pathway, then the isometric stroke rate as a function of x would in the first case be flat, and in the second case reduced by the factor
where
Rates of tension recovery in fibers after a length step can be reproduced in this way 14,15.
However, the above result cannot be used under trap conditions, which are far from isometric. When the stroke pulls the actin filament out of the traps, the highest strain-energy barrier barely exceeds thermal energy and the “highest-energy-barrier” approximation breaks down. Then a more sophisticated kinetic model is required. In the next subsection, the isometric stroke rate is calculated from first principles, giving a formula valid for all positive values of k. With this result to hand, the kinetics of the working stroke can be derived under conditions of weak elastic tethering, as required for analyzing weak-trap displacement data.
The flat-landscape model of the working stroke exhibits inversion symmetry between the forward and backward transitions, but at different values of the prestroke strain. Mathematically,
where
and
This symmetry is reflected in the kinetics:
where C is a constant. Detailed balancing in the form
can be used to eliminate the backward rate, giving
Replacing x by
gives
Hence
and inversion symmetry for the isometric stroke rate is expressed by the identity
![]() | (1) |
This symmetry alone is sufficient to predict the mean displacement of trap displacement experiments in the limit of perfect time resolution.For application to trap data, it is necessary to go beyond the “highest-energy-barrier” approximation for the strain-dependent stroke rate. Specific predictions can be made from Kramers’ theory of unimolecular reactions 16, using the reduction to Smoluchowski’s equation, which is valid in the limit of high damping 17. This approximation is appropriate for a concerted transition in a large protein.
The Kramers-Smoluchowski formula for the forward stroke rate
is
![]() | (2) |
![]() | (3) |
D is the rotational diffusion constant of the swinging lever arm. In this context,
neglecting the variation in elastic energy over the width of the prestroke potential well in
The integral in Eq. (2) is dominated by the region between wells, in which the integration reduces to standard functions. Thus,![]() | (4) |
and
. Here
is the stroke rate for the unloaded filament, obtained by setting k=0, and
is Dawson’s integral. Inversion symmetry in the form of Eq. (1) is satisfied because F(x) is an odd function of x.The predicted stroke rate is shown in Figure 2A, plotted against scaled strain
. The “highest-energy-barrier” formula, in which
is constant for
and exponentially decaying with decay constant
for
is approached when
. Similar statements apply to the backward rate (Figure 2B). The highest-barrier formula is an approximation, valid only to logarithmic accuracy (neglect of a power-law variation outside the exponential); Fig. 2 shows that the forward rate rises linearly above
as x falls below
and the backward rate also rises linearly above
as x increases above
Thus, Kramers’ theory provides improved stroke-rate formulae for trap experiments
and the muscle fiber 
The family of curves is generated by the scaled working stroke
in multiples of 0.5. Both rates are shown as fractions of the solution rate, obtained by setting k=0.Kramers’ theory predicts that
if
and
with
D is obtained via Einstein’s relation from the rotational damping constant of the swinging lever arm in solution, for which crude estimates can be made 18. The quantity B2 is the depth of the prestroke energy well in
which is probed by the temperature dependence of the stroke rate. The above value of B2 gives
for the fractional rise in rate over 10°C, which is similar to values observed in fibers 19. Thus, the model can account numerically for the expected stroke rate.
In the last section, strain-dependent reaction rates for the actomyosin working stroke were derived under isometric conditions. If the actin filament is moving relative to myosin, strain-dependent transition rates are smoothed in a way that depends on the extent and speed of motion. In particular, we wish to calculate effective transitions rates for a weakly trapped actin filament, as in optical-trap experiments. It is sufficient to consider the actin-binding and working-stroke transitions. Suppose that the actin-binding constant
and the equilibrium constant
and rate constant
of the working stroke, are known functions of x for a fixed filament (the isometric case). We now show that the corresponding quantities
,
and
for a weakly trapped filament undergoing rapid Brownian motion are obtained by replacing myosin stiffness k by the stiffness
of myosin and traps acting in series.
For binding to actin, let
and
be the rate constants for a given initial filament displacement u (in opposition to x). The elastic energies in states 1 and 2 of Scheme 1 are respectively
and
In state 2,
is the mean displacement and myosin and the traps act in parallel. Averaging over the corresponding Boltzmann distributions gives
![]() | (5) |
![]() | (6) |
Detailed balancing says that
where
is the strain-free affinity. Hence
![]() | (7) |
The same line of reasoning, with the appropriate Boltzmann factor for state 3 with mean displacement
can be used to establish the Brownian-averaged equilibrium constant of the working stroke, namely
![]() | (8) |
The stated rule for generating
from
can be demonstrated within the flat-landscape model, provided that filament Brownian motion is faster than the stroke rate. Then the distribution of displacement fluctuations equilibrates to a Boltzmann distribution at each stage of the stroke reaction. A formal method for motional averaging is Gardiner’s adiabatic elimination procedure 20, which replaces the strain energy
of myosin and traps with the average potential
![]() | (9) |
The first term in this equation is just as for an isomeric filament, but with k replaced by κ. It describes the variation of strain energy along the valley floor of
as a function of u and θ (Fig. 3), which follows the pathway
.
(see main text) as a function of lever-angle θ and filament displacement u for x=0 (A) and
(B). The surfaces are drawn for a load stiffness of 0.05pN/nm, as in an optical trap, with values of h and k as in Fig. 1. Arrows indicate the valley path of least energy; the highest energy barrier on this pathway is limited by the stiffness of the load and is much smaller than in Fig. 1.Fig. 2 shows that under trap conditions
0.02–0.08pN/nm,
0.5–1.0), the strain dependence of the stroke rate is much smoother than in the muscle fiber
1–3pN/nm,
4–6), even after scaling the prestroke strain x to its dimensionless form. Thus the high-barrier formula is simply not applicable to the weakly trapped actin filament.
Our analysis requires that the corner frequency of Brownian filament motion with myosin bound is faster than the rates of detachment and stroking. The upper roll-off frequency of the noise spectrum is
(rad/s), where ζ is the viscous drag coefficient of the actin-beads assembly. Thus,
for two 1-μm-diameter beads,
and weak traps. This frequency is higher than the values of
and
used in the last section, justifying the assumption of rapid Brownian motion.
We now seek to show how the strain-dependent stroke rate
might be studied experimentally from high-frequency optical-trap displacement data (minimum resolving time ≤1ms, such that most poststroke events present in the data are detected). In this limit, modeling shows that the mean displacement is sensitive to the kinetics of the stroke and the initial binding event. Hence, more diagnostic tools are needed to characterize experimental records. More information can be obtained by working with event-averaged and time-averaged mean displacements in bound periods: experimentally, both kinds of averages can be calculated after detection of binding events.
To demonstrate sensitivity to the functional form of
, we use two alternatives to the flat-landscape model (Scenario I). Length-step data in muscle fibers is qualitatively consistent with the formula
for all x, so that the rate of stroke reversal is strain-independent (Scenario II). Finally, suppose that
is independent of x (Scenario III), so that myosin strokes with equal probability on all binding sites. These alternatives are generated by reaction-energy landscapes that differ from the flat-landscape model (Fig. 1); scenario II requires a large repulsive barrier protecting the poststroke state even at negative strains, and scenario III a similar repulsive barrier for the prestroke state. Such barriers would drastically alter the kinetics of the stroke transition on detached myosin.
We now discuss the interpretation and analysis of low-frequency and high-frequency trap data in terms of Scheme 1, with x-dependent rate constants replaced by their Brownian averages. Assuming that only poststroke states are detected, the event-averaged and time-averaged bound-state displacements defined in the introduction are given by the expressions
![]() | (10) |
is the flux into state 3 and
is the probability of the poststroke states. These formulae apply to high-resolution trap data, such that all arrivals in the first poststroke state 3 are detected. The ratios
and
are deflation factors. Simple formulae can be obtained in the limit in which all transitions are in equilibrium, as expected in the complete absence of ATP; these results are a useful starting point for understanding the behavior predicted under cycling conditions.Setting g=0 gives state populations in equilibrium, such that
and so on. Then
which is proportional to
for scenario II
and for scenario III (Fig. 4). These forms give event-averaged displacements
and
respectively. The flat-landscape model (scenario I) gives
regardless of the way in which the kinetics is derived. This somewhat magical result is a consequence of inversion symmetry. Equations (1) (with k replaced by κ) and 7 imply that
thus, the entry rate is an even function about the point
where states 2 and 3 have the same strain energy (Fig. 4). If trap experiments could be made under these conditions, a mean displacement of 5–6nm would indeed correspond to the 10- to 12-nm working stroke required by the crystal structures.
of entry to the first poststroke state 3 (arbitrary vertical scale) under equilibrium conditions, against filament displacement x+h as a fraction of the working stroke h. Here x is the myosin-site distance along the resting filament. For scenarios I, II, and III for the stroke rate
, the uncorrected mean displacements are respectively h/2, 0, and h. For scenario I (the flat-landscape model), Eq. (4) was used for the stroke rate, but any rate function satisfying inversion symmetry (Eq. (1)) will give the same mean displacement.In equilibrium, the time-averaged displacement is zero; no mechanical work is obtained as expected from thermodynamics. To check, note that
independently of any kinetic scenarios.
Previous calculations for low-resolution trap data were made with Scheme 1, assuming that only state 4 could be detected 5. They showed that the irreversibility of the poststroke product-release transitions was sufficient to drive the binding step out of equilibrium even at micromolar levels of ATP. Hence the equilibrium results are not expected to apply under the conditions commonly used for trap experiments with ATP. The state probabilities under steady-state cycling can be expressed in terms of pseudoequilibrium constants
and
respectively, where
and
From these expressions, the two kinds of mean displacement can be calculated in terms of the kinetic parameters and the dimensionless working stroke 
The deflation factors were calculated with parameter values about the standard set,
and
used in Sleep et al. 5. Fiber experiments with M.ATPγS give
21, and values of 10–40 for
can be estimated from length-step data 15. The value of
is obtained from a stopped-flow experiment 22, which shows that myosin achieves rapid equilibrium with actin and that phosphate release is the rate-limiting poststroke transition to rigor. As the stroke transition is close to equilibrium
hence
which suggests that
in solution. The above value of
applies for 1mM Pi and micromolar levels of ADP, and g is for 5μM ATP 7. Fig. 5 shows the transition from equilibrium to irreversible cycling as a function of g, which is proportional to [ATP]. The equilibrium results are recovered in the limit
which requires subnanomolar ATP concentrations. However, the lifetime
of state 4 would then be ∼
requiring excessively long experimental records. In the opposite limit,
the poststroke transitions are irreversible and the deflation factors approach asymptotic values. Here the event-averaged deflation factors vary significantly with the kinetic model of the working stroke, namely 0.82, 0.52, and 1.23 for scenarios I, II, and III, respectively. However, the time-averaged factors for the three scenarios are very similar and cluster around 0.5. For scenario II, event-averaged and time-averaged deflation factors are identical, because the rate
of stroke reversal, which affects the lifetime of state 3, is independent of x.
and
(uncorrected mean displacement/working stroke) for high-resolution trap data and kinetic Scheme 1, as a function of the rate g of ATP-induced detachment from rigor. All curves were generated with standard values of the remaining parameters. Event averaging was used in graph A and time averaging in graph B. The former depend markedly on different scenarios for the strain-dependent stroke rate (see main text). As g increases, the extent of departure from equilibrium is determined by the rate
of reversing the product-release transitions, here set at
.At high time resolution, the deflation factors also vary with the size of the stroke and the stiffness of the traps, through the dimensionless stroke as shown in Fig. 6. As described previously for low resolution data, the amount of deflation is sensitive to the detachment rate
and the stroke equilibrium constant
. These variations are shown in Fig. 7. Despite these uncertainties, the major result of this modeling exercise is that event-averaged and time-averaged displacements for high-frequency data are generally different. Also, both quantities are slowly decreasing functions of trap stiffness and resolving time, variables which are under experimental control. Both effects are a function of the strain-dependent kinetics of the stroke rate. In this way, it may be possible to test the different scenarios proposed here by optical-trap experiments.
, using (A) event averaging and (B) time averaging. Typical values for
in trap experiments lie between 0.5 and 1.0. In this region, the event-averaged factor is particularly sensitive to the different stroke-rate scenarios I, II, and III.
(strain-free equilibrium constant of the working stroke) and
(detachment rate of the prestroke state), for stroke-rate scenarios I–III with (A) event averaging and (B) time averaging. (C) Graphs show the ratio of event-averaged to time-averaged deflation factors. The behavior shown in A is similar to that presented in Sleep et al. 5 for low-resolution data.The time resolution of detected attachment events in current trap displacement data (sampling frequency ∼10KHz) is currently limited by the need to construct a running variance record 6,7, and is typically ∼5ms. In this interval, the myosin may escape from state 3 by a reverse stroke at ∼
rather than by release of phosphate and ADP. We now generalize the previous treatment of Scheme 1 to data in which events have been detected with an arbitrary resolving time s. In the process, the previous results obtained with event averaging 5 are recovered when 
For a given resolving time, exact formulae can be obtained in terms of the probability
that myosin arriving in state 3 survives in either state 3 or state 4 over time t. This object can be calculated from modified rate equations for these states, in which
is set equal to zero 23. The required solution is
![]() | (11) |
![]() | (12) |
![]() | (13) |
For event-averaging, we require the frequency of detected events at time resolution s, which is obtained by inserting the filtering function
For time averaging, each detected event must be weighted with its lifetime, which must exceed the resolving time. The mean lifetime is
![]() | (14) |
is the distribution of the lifetime t. Hence![]() | (15) |
Thus, event-averaged and time-averaged displacements at finite time resolution are given by Eq. (10), with
and
replaced by their filtered counterparts
![]() | (16a) |
![]() | (16b) |
When s=0, the right-hand side of Eq. (16a) reduces to
and that of Eq. (16b) to an expression proportional to
These formulae were used to calculate both deflation factors as a function of resolving time (Fig. 8). The results of the previous section for high-frequency data, which discriminate between the three stroke-rate scenarios and between event-averaging and time-averaging, are reproduced when s=0, and approximately so when
The low-frequency limit is achieved when
in this case, the three stroke-rate scenarios give almost identical results and there is no difference between event-averaged and time-averaged displacements. The critical resolving time
separating high-frequency and low-frequency data is estimated by
for the standard parameter set, 
For low-frequency data, the above predictions correspond to those obtained by assuming that only state 4 could be detected 5. The two methods of calculation are not mathematically equivalent, but closely related for realistic values of kinetic parameters. To demonstrate this relationship, we simplify Eqs. (12) by setting
a limit which can be taken when
The eigenvalues in Eq. (12) are then the lifetimes of states 3 and 4:
and
As s increases from zero, the filtering function
drops from unity to a plateau of height
in a range of resolving times such that
which defines the range of low-frequency data. This range exists if
which is satisfied experimentally. Then
the rate
of entry to state 4, which validates the simpler approach used in 5 to calculate the event-averaged displacement.
Time-averaging of low-frequency data gives the same mean displacement as event averaging, because the mean lifetime
reduces to
which is independent of x. This result can also be understood in terms of the previous treatment, which assumed that only state 4 could be detected. In that case,
is proportional to
because the ratio
is also x-independent.
The true strain dependence of the stroke rate of bound myosin can be tested through experiments on the muscle fiber or on a single myosin-S1. With intact fibers, length-step experiments rule out scenario III
constant) and can in principle discriminate between scenarios I (flat-landscape model) and II
constant) through the variation of the rate of phase-2 tension recovery on the size of the release step 15. In practice, the differences would appear only for large releases (>5nm) and may be obscured by experimental artifacts.
For single-myosin displacement data from weak-trap experiments with ATP, our predictions for the three scenarios of the strain-dependent stroke rate are summarized in Figure 6 and Figure 7 and Figure 8. The different scenarios are manifest only in high-frequency data, where the minimum resolving time is <1ms; in this limit, the event-averaged displacement during bound periods is much more sensitive than the time-averaged displacement to the details of stroke kinetics (Fig. 7). This occurs because the three scenarios affect averaged displacements through their effect on the strain dependence of the stroke rate, which affects the populations of poststroke states on different actin sites. Complementary effects on the rate of the backward stroke may generate strain-dependent lifetimes for these states, which generate numerical differences between event-averaged and time-averaged displacements in bound periods. Such experiments could also confirm that myosin exists in a poststroke state during the observed bound periods.
Consider three aspects of the problem from an operational standpoint. How could we tell that a particular data set lies in the high-frequency range? What method of analysis would best reveal which stroke-rate scenario fits the data? How can such measurements provide estimates for the myosin working stroke, given that both kinds of deflation factor (mean displacement/working stroke) are still sensitive to the parameters of the model?
The first question is addressed by noting that high-frequency data should display some correlation between the displacements and the lifetimes of (poststroke) bound states. This information could be obtained from a scatter plot, which would reflect fluctuations in the mean displacement and Poisson fluctuations in the lifetime of each bound period in the data. No such correlation has been observed in existing data (minimum resolving time ∼5ms) from the trap group at King’s College London. The scale of the effect to be expected can be judged from Fig. 9, which presents the variation of the mean lifetime of poststroke states 3 and 4 as a function of displacement/working stroke; there is a large variation of lifetime with displacement for scenarios I and III, but none for scenario II. However, the range of observed displacements is proscribed by the population curves in Fig. 4, which have a half-width of about unity in the ordinate; thus, a fivefold variation in mean lifetime could be expected from the scatter diagram if scenarios I or III apply. This procedure should provide a simple test of stroke kinetics from high-frequency data.
If the data is thought to be of sufficient time resolution, we then require analyses that discriminate between these scenarios, given that the size of the stroke cannot easily be extracted from the data. For example, event-averaged displacements could be measured over a wide range of values of trap stiffness; the event-averaged deflation factor (Figure 6A) increases according to the amount of strain dependence assigned to the rate of the reverse stroke. More information is obtained from the ratio of event-averaged and time-averaged displacements, which is also the ratio of the deflation factors. For time-averaging, the deflation factor for all stroke scenarios is close to 0.5 (Figure 6B), so that the ratio of event-averaged to time-averaged deflation factors at very low trap stiffness
is ∼2, 1, and 3 for scenarios I, II, and III, respectively. Exact ratios can be obtained from the figures for higher values of
Lastly, high-frequency displacement-time records can be analyzed over a range of resolving times for event detection. Figure 8A shows that these values are reproduced by the ratio of event-averaged displacements at high and low time resolution, since the corresponding deflation factors of all scenarios are the same in the low-resolution limit.
In practice, these methods should not be regarded as exact, because the predicted deflation factors vary significantly with the kinetic parameters
and
(see Fig. 7). However, the ratio of event-averaged and time-averaged factors shows much less variation (Figure 7C) and should therefore be used in preference when values of the associated parameters are not known.
Do these methods of analysis help us to estimate the myosin working stroke from high-frequency trap displacement data? At first glance, we appear to be in the same situation pertaining to low-frequency data 5; both kinds of mean displacement are predicted to vary widely with kinetic parameters. The ability to measure two kinds of mean displacements as functions of trap stiffness and time resolution might permit a global fit to the model as a function of
and
particularly if the kinetics of the working stroke is known.
Our predictions are tied to a particular model of actin-myosin kinetics, which includes the assumption that no second stroke is associated with ADP release. Until recently 24, there has been no substantive evidence for a second stroke in myosin II. If a second stroke of 1–2nm does occur after Pi release, its strain-dependent kinetics should be largely washed out by Brownian averaging, and the predictions of our current model should be qualitatively correct apart from the different mean displacements associated with states before and after the second stroke. The model could easily be amended in this way.
The model also applies to trap displacement data under conditions where no ATP is present. In the absence of an energy source, the data should sample attachment events under conditions of thermodynamic equilibrium and the time-averaged displacement should be zero. The equilibrium case of the model predicts nonzero event-averaged displacements of h/2 and h for scenarios I and III respectively and high-frequency data, where all post-stroke states are detected. In this case, the event-averaged displacement is indifferent to the presence of the phosphate-release step after the working stroke, and the same results hold at any time resolution for a three-state model defined just by binding and stroking transitions. Previous observations of zero mean displacement for myosin complexed with various nonhydrolyzable nucleotide analogs (AMPPNP, ATPγS, PPi) can be assessed in the light of these predictions, without changing the conclusions drawn 25. If these complexes did make a working stroke after actin-binding and scenario I applies as expected, then the size of the stroke must have been <2nm. Most of these complexes are thought to have an open nucleotide pocket, for which the lever arm is in a poststroke configuration; thus, these complexes bind without changing the orientation of their lever arm. A complete discussion is given in the original article.
Finally, note that none of the above analysis would be necessary if the prestroke state could be detected directly in trap experiments. The inverse lifetime of the strained prestroke state is
, which varies from
at large positive x to values in excess of
at large negative x (Fig. 2). Thus resolution times of 0.1ms or less would be required to see this state on all sites. There are two possible developments that might allow detection of submillisecond events. One is to use considerably smaller beads (diameter <0.2μm), so that the corner frequency (the upper roll-off of the power spectrum of Brownian filament motion) is raised to the required value. Single-bead experiments are being carried out on kinesin with beads of this size 26, but dumbbell experiments present extra problems to be solved to facilitate experiments with such small beads. If changes in the variance of bead position are to be used to detect attachment events on a millisecond timescale, then the corner frequency of the trapped bead must be raised by a combination of smaller beads and stiffer traps. An alternative approach is to detect binding events directly from the position-time records of the beads, rather than from constructed running-variance records. This approach requires that the relative positions of the free dumbbell and the myosin-bearing fixed bead remain constant at the level of 1nm for the duration of the experiment, and is a realistic goal for the near future.
We thank Dr. Justin Molloy and Prof. Robert Simmons for comments on an earlier version of this article.
D.A.S. acknowledges financial support from National Institutes of Health grant R01 AR048776-01A1, and J.S. from the Medical Research Council.
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