Discrete state Markov models have proven useful for describing the gating of single ion channels. Such models predict that the dwell-time distributions of open and closed interval durations are described by mixtures of exponential components, with the number of exponential components equal to the number of states in the kinetic gating mechanism. Although the exponential components are readily calculated (Colquhoun and Hawkes, 1982, *Phil. Trans. R. Soc*. *Lond*. *B*. 300:1–59), there is little practical understanding of the relationship between components and states, as every rate constant in the gating mechanism contributes to each exponential component. We now resolve this problem for simple models. As a tutorial we first illustrate how the dwell-time distribution of all closed intervals arises from the sum of constituent distributions, each arising from a specific gating sequence. The contribution of constituent distributions to the exponential components is then determined, giving the relationship between components and states. Finally, the relationship between components and states is quantified by defining and calculating the linkage of components to states. The relationship between components and states is found to be both intuitive and paradoxical, depending on the ratios of the state lifetimes. Nevertheless, both the intuitive and paradoxical observations can be described within a consistent framework. The approach used here allows the exponential components to be interpreted in terms of underlying states for all possible values of the rate constants, something not previously possible.

## Introduction

Ion channels are ubiquitously distributed proteins that control the passive flux of ions through cell membranes by opening and closing (gating) their pores (Hille, 2001). As gatekeepers, ion channels play key roles in many physiological processes, including generation and propagation of action potentials, synaptic transmission, and sensory reception (Hille, 2001). Ion channels gate their pores by passing through a series of conformational states (Jiang et al., 2002; Blunck et al., 2006; Tombola et al., 2006; Purohit et al., 2007). The gating can be described in terms of kinetic reaction schemes that give the number of open and closed states entered during gating, the transition pathways among the states, the rate constants for the transitions, and the voltage and ligand modulation of the rate constants (Colquhoun and Hawkes, 1982, 1995b). Such discrete state Markov models have proven highly useful for describing the underlying gating mechanisms (Horn and Vandenberg, 1984; Zagotta et al., 1994; Cox et al., 1997; Schoppa and Sigworth, 1998; Horrigan et al., 1999; Cox and Aldrich, 2000; Rothberg and Magleby, 1998, 2000; Gil et al., 2001; Zhang et al., 2001; Sigg and Bezanilla, 2003; Chakrapani et al., 2004), and critical tests of single-channel gating for BK channels (McManus and Magleby, 1989) and NMDA receptors (Gibb and Colquhoun, 1992) are consistent with Markov gating.

Single channel recordings from ion channels indicate transitions between open and closed states by characteristic step changes in the single-channel current level. Ion channels can also make transitions among states with the same conductance, such as transitions among closed states and transitions among open states. Connected states of the same conductance are referred to as compound states, and transitions among compound states are hidden because the current level does not change. Nevertheless, information about these hidden transitions is contained in the interval durations, which are lengthened by such transitions.

A standard method used to display data recorded from single channels is to plot the number of observed intervals against their durations, giving open and closed dwell-time histograms, also referred to as dwell-time distributions, or open and closed period distributions. Normalizing the area of the distribution to 1.0 by dividing by the number of intervals in the distribution gives a probability density function, where the area under the curve between any two time values gives the probability of observing an interval with a lifetime (dwell time) between those values (Colquhoun and Hawkes, 1994, 1995b).

Markov models used to describe single channel kinetics predict that the open and closed dwell-time distributions are comprised of the sums of exponential components (more correctly mixtures because the areas sum to 1.0), with the total number of open and closed exponential components equal to the number of open and closed states, respectively (Colquhoun and Hawkes, 1982, 1995b). Consequently, the experimentally observed dwell-time distributions are typically fit with sums of exponential components to describe the data, such that

where *f(t)* is the dwell-time distribution, *w*_{i} and τ_{i} are the magnitude and time constant of each exponential component *i*, respectively, and *t* is interval duration. The area of each component, *a*_{i}, which gives the number of intervals in that component, is given by *a*_{i} = *w*_{i}τ_{i}. It is the exponential components that are typically listed in tables and discussed in papers on single channel kinetics, and the exponential components are often the output (solutions) of gating mechanism calculated with analytical or Q matrix methods (Colquhoun and Hawkes, 1981, 1982, 1995a).

In spite of the emphasis on the exponential components and the many hundreds of papers published with plotted dwell-time distributions and tables of exponential components, there is little practical understanding of how the components relate to specific states in kinetic gating mechanisms (Colquhoun and Hawkes, 1994, 1995b). The reason for this is that all of the rate constants that determine the lifetimes of any of the states in a compound state also contribute to each of the exponential components generated by those states (Colquhoun and Hawkes, 1982, 1995b). Consequently, it is well known for gating mechanisms with compound states that the time constants of the exponential components cannot simply be interpreted as the mean lifetimes of certain states and that the areas of the components cannot be interpreted as the numbers of sojourns to those states (Colquhoun and Hawkes, 1994, 1995b). The problem is further compounded because the methods used to calculate the exponential components from gating mechanisms give little practical information about the relationships between specific components and states. For analytic solutions, which can be derived for models with a limited number of states, the relationship between components and states is obscured in the equations, as shown in the Appendix and Covernton et al., (1994) for a three state model, and in Colquhoun and Hawkes (1977, 1981), Magleby and Pallotta (1983), and Jackson (1997) for more complex models. For the numeric methods that can be used to solve any gating mechanism (Colquhoun and Hawkes, 1981, 1982), there is even less practical information about the contributions of specific states to the various exponential components because of the matrix methods used in the calculations (Horn and Lange, 1983; Colquhoun and Hawkes, 1995a; Colquhoun et al., 1996; Qin et al., 1997).

Hence, the standard dogma is that it is not possible to place physical interpretations on the time constants and magnitudes of the exponential components (Colquhoun and Hawkes, 1995b) except in special cases with extreme differences in some of the rate constants (Colquhoun and Hawkes, 1994), although it should be mentioned that some information relating observed exponentials in experimental data to the underlying states can be obtained when the starting state is known, by examining either first latencies to the next opening/shutting interval or the rise times of macroscopic currents following step changes in agonist concentration or voltage (Edmonds and Colquhoun, 1992; Colquhoun et al., 1996; Wyllie et al., 1998; Horrigan and Aldrich, 2002).

We now present an approach to resolve the relationship between components and states for a model with one open and two closed states in series. We examine simulated gating to determine directly the contributions of the various states to the exponential components, and quantify the contributions in terms of linkage. Our systematic analysis reveals both intuitive and highly paradoxical relationships between components and states, depending on the lifetime ratios of the closed states. Nevertheless, both the intuitive and paradoxical results can be described within a consistent framework.

Our observations should facilitate an understanding of single channel data by providing a physical basis for the origins of the exponential components and of the relationship between components and states. Our observations should also provide sufficient insight to prevent incorrect conclusions when interpreting dwell-time distributions in terms of underlying states and transition probabilities.

Commonly used abbreviations are listed in Table I.

O_{1} | Open state O_{1} |

C_{1}, C_{2} | Closed states C_{1} and C_{2} |

t_{C1}, t_{C2} | Mean lifetimes of closed states C_{1} and C_{2} |

E_{1}, E_{2} | Exponential components E_{1} and E_{2} |

τ_{E1,} τ_{E2} | Time constants of exponential components E_{1} and E_{2} |

a_{E1,}a_{E2} | Areas of exponential components E_{1} and E_{2} |

{C_{1}} | Distribution of all closed intervals arising from all sojourns to C_{1} in the gating sequence: O_{1}-C_{1}-O_{1} (see Table II, gating sequence 0). This distribution is a single exponential. |

{C_{1}C_{2}} | Distribution of all closed intervals arising from all possible sojourns through both C_{1} and C_{2} in the gating sequences: O_{1}-C_{1}-(C_{2}-C_{1}-)n-O, for _{1}n = 1 to infinity (see Table II and Eq. 6). This distribution is 0 at zero time, rises with an inflection to a peak, and then decays exponentially at longer times. |

τ_{{C1}} | Time constant of the {C_{1}} distribution, which is given by t_{C1} |

τ_{{C1C2}} | Time constant of the decaying phase of the {C_{1}C_{2}} distribution at long times |

a_{{C1}} | Area of {C_{1}} |

a_{{C1C2}} | Area of {C_{1}C_{2}} |

O_{1} | Open state O_{1} |

C_{1}, C_{2} | Closed states C_{1} and C_{2} |

t_{C1}, t_{C2} | Mean lifetimes of closed states C_{1} and C_{2} |

E_{1}, E_{2} | Exponential components E_{1} and E_{2} |

τ_{E1,} τ_{E2} | Time constants of exponential components E_{1} and E_{2} |

a_{E1,}a_{E2} | Areas of exponential components E_{1} and E_{2} |

{C_{1}} | Distribution of all closed intervals arising from all sojourns to C_{1} in the gating sequence: O_{1}-C_{1}-O_{1} (see Table II, gating sequence 0). This distribution is a single exponential. |

{C_{1}C_{2}} | Distribution of all closed intervals arising from all possible sojourns through both C_{1} and C_{2} in the gating sequences: O_{1}-C_{1}-(C_{2}-C_{1}-)n-O, for _{1}n = 1 to infinity (see Table II and Eq. 6). This distribution is 0 at zero time, rises with an inflection to a peak, and then decays exponentially at longer times. |

τ_{{C1}} | Time constant of the {C_{1}} distribution, which is given by t_{C1} |

τ_{{C1C2}} | Time constant of the decaying phase of the {C_{1}C_{2}} distribution at long times |

a_{{C1}} | Area of {C_{1}} |

a_{{C1C2}} | Area of {C_{1}C_{2}} |

## Materials And Methods

### Using Simulation to Determine the Constituent Dwell-Time Distributions Arising from Designated Gating Sequences for a Three State Model

Colquhoun and Hawkes (1982, 1994, 1995b) have presented detailed methods for calculating the exponential components that sum to describe the dwell-time distributions generated by discrete state Markov models (Colquhoun and Hawkes, 1982, 1994, 1995b). We use their Q-matrix methods (Colquhoun and Hawkes, 1995a) and also their analytical approach (equations in the Appendix) to calculate the exponential components for the models examined. The first step we use to examine the relationship between the exponential components and the underlying states is to determine the specific contributions of the individual states and compound states to the distribution of all closed intervals. Whereas such information can be obtained by the Laplace transform, convolution, and Q matrix methods of Colquhoun and Hawkes (1982), we have chosen to obtain this information by simulating the process by which a hypothetical channel gates, as we found this approach more transparent for revealing the underlying physical basis for the various intervals. This section describes how the constituent dwell-time distributions that sum to form the dwell-time distribution of all intervals were generated.

The probability for a given gating sequence among states in a kinetic scheme is the product of the probabilities for each of the individual gating steps in the sequence. The probability of a transition from state *i* to state *j*, P_{ij}, is given by

where *k*_{ij} is the rate constant from state *i* to state *j* (Colquhoun and Hawkes, 1995b).

Consider the following gating mechanism

where the rate constants in this scheme (and all following schemes) are in units of per second, and C_{2}, C_{1}, and O_{1} represent two closed and one open state connected in series, with C_{2}-C_{1} forming a compound state. From this scheme and Eq. 2 the probabilities of various gating transitions and sequences can be calculated. P_{O1-C1}, the probability of the transition from O_{1} to C_{1} is 1, as there is only one possible route away from O_{1,} P_{C1-O1} is 0.5, P_{C1-C2} is 0.5, and P_{C2-C1} is 1.0 Thus, the probability of the gating sequence O_{1}-C_{1}-O_{1} is 1 × 0.5 = 0.5. The probability of the gating sequence O_{1}-C_{1}-C_{2}-C_{1}-O_{1} is: 1.0 × 0.5 × 1.0 × 0.5 = 0.25. Because closed intervals are always initiated by transitions from O_{1} to C_{1} and always terminate by transitions from C_{1} back to O_{1}, the general case for any gating sequence in the closed states can be abbreviated as _{C1-(C2-C1-)n}, where *n* indicates the number of transitions from C_{2} to C_{1}. The probability of a gating sequence with *n* transitions from C_{2} to C_{1}, referred to as gating sequence *n*, is

where *n* can have integer values ranging from 0 to infinity. For a sample size of N intervals for all possible gating sequences, each specific constituent distribution {C_{1}-(C_{2}-C_{1})* _{n}*} for

*n*= 0 to effectively infinity (see below) was simulated with N×(P

_{C1-C2})

^{n}×P

_{C1-O1}random intervals of duration

where *d*_{C1} and *d*_{C2} are random dwell times described by

where *t*_{C1} and *t*_{C2} are the mean lifetimes of states C_{1} and C_{2}, and *Rnd* is a random number between 0 and 1. N is typically 10^{7} for the simulations.

When *n* = 0, the constituent distribution includes all unitary sojourns to C_{1} and is designated {C_{1}}; there are no transitions to C_{2}. In contrast, for values of *n* between 1 and infinity, each interval results from the sum of 2n+1 exponentially distributed dwell times. Consequently, the constituent distribution {C_{1}-(C_{2}-C_{1}-)* _{n}*} for each value of

*n*is described by the convolution of 2n+1 exponential distributions. (Convolutions are discussed in Colquhoun and Hawkes (1995b).) Unlike exponentials, which have a maximum amplitude at zero time, convolutions have a zero magnitude at zero time, increase to a maximum, and then decay (Colquhoun and Hawkes, 1995b).

The sum of all the constituent distributions for values of *n* from 1 to infinity will be designated as {C_{1}C_{2}}, as all intervals in this distribution arise from one or more sojourns to both C_{1} and C_{2}. {C_{1}C_{2}} is calculated with an algorithm that sums all of the constituent distributions.

Because the {C_{1}} and {C_{1}C_{2}} constituent distributions include the closed intervals from all possible gating sequences, the sum of {C_{1}} and {C_{1}C_{2}} will give the dwell-time distribution for all observed closed intervals. This is the frequency histogram that would be observed experimentally, assuming that all closings are detected. Dividing the number of intervals in each constituent distribution by N, the total number of closed intervals in all constituent distributions, gives the fraction of all intervals in each constituent distribution. Dividing the number of intervals in each bin of the distribution of all closed intervals by N converts the distribution to a probability density function with an area of 1.

In theory, *n* should go to infinity in Eq. 6, but in practice, to include all gating sequences with a probability of occurrence of >10^{−9}, the maximum needed value of *n* is given by: −9/(log10(P_{C1-C2})). When P_{C1-C2} = 0.5, n_{max} ∼30. Note the parallel between the analytical Eqs. 149 and 150 of Colquhoun and Hawkes (Colquhoun and Hawkes, 1995b) and the approach described above to generate the various distributions by simulation. The above example of simulating the dwell-time distributions of intervals for each specific gating sequence for a three-state model is also extended to a four state model and could be extended to any gating sequence. The methods used to simulate the single channel current records have been described previously (Blatz and Magleby, 1986).

## Results

### For a Two-State Model there Is Exact Linkage between Exponential Components and Kinetic States

To approach the question of the relationship between components and states, we start with the simplest possible model for a channel that can gate its pore, having one open and one closed state (Scheme 1). Infinite frequency response is assumed so that all intervals are detected.

In this example, both the opening and closing rate constants are 1,000/s, giving mean lifetimes (dwell times) of 1 ms for both the open and closed states.

Fig. 1 A presents an example of simulated single-channel data for the gating mechanism described by Scheme 1. The wide range of durations of the open and closed intervals reflect natural stochastic variation arising from the exponentially distributed dwell times in states of Markov models (Colquhoun and Hawkes, 1995b). As a typical first step in analysis, single-channel current records like that in Fig. 1 A, but of much longer duration, are sampled to determine the durations of the open and closed intervals. These durations are then binned into frequency histograms (dwell-time distributions) and fitted with sums of exponential components to quantify the description of the data. For Scheme 1, the open and closed dwell-time distributions are the same because of identical closing and opening rates, so only the closed distribution will be shown. Fig. 1 (B and C) plots the closed dwell-time distribution in two different ways often used in single-channel analysis. Both distributions use log binning so that bin width increases geometrically with time. Log binning gives the ability to quantify interval durations ranging from picoseconds to the age of the universe with constant minimal error in just a few hundred bins (McManus et al., 1987). Fig. 1 B presents the data plotted with the Sigworth and Sine (1987) transform, in which the square root of the number of intervals per bin is plotted against mean bin time on a log scale. The log binning gives a constant apparent bin width on the logarithmic abscissa. Fig. 1 C presents the data displayed on linear coordinates, where the abscissa indicates the mid time of each bin and the ordinate indicates the numbers of intervals per microsecond of bin width, rather than intervals per bin, to transform the log-binned data to the appearance it would have on linear coordinates with constant bin width.

The distributions using either the linear or the Sigworth and Sine transforms are described by a single exponential (continuous lines) with a time constant of 1 ms (arrows). Whereas the Sigworth and Sine plots are highly useful in indicating the time constant of the distribution of intervals by the time at the peak of the distribution, it needs to be remembered in the interpretation of single-channel data that such plots are transforms. The actual distribution of dwell times from a discrete state are like that in Fig. 1 C; the shorter the duration of the interval the greater the frequency of occurrence. It is the exponentially distributed dwell times shown in Fig. 1 (B and C) that give rise to the wide variation in interval durations in Fig. 1 A.

For Scheme 1 with one open and one closed state and perfect time resolution, the closed exponential component would arise entirely from and include all sojourns to C_{1}, and the open exponential component would arise entirely from and include all sojourns to O_{1}. Hence, there is perfect linkage between the exponential components and states.

### For Kinetic Schemes with a Compound State, Exponential Components Are Not Directly Linked to Kinetic States

To determine the effect of a compound state on the relationship between components and states, we examined a linear gating mechanism with two closed states in series, as described by Scheme 2.

As with Scheme 1, each state has a mean lifetime of 1 ms. The two connected closed states C_{1} and C_{2} in Scheme 2 form a compound closed state. Compound states arise when transitions can occur directly between two or more states of indistinguishable conductance. Simulated single channel records from Scheme 2 are shown in Fig. 2 A, where there are brief duration closed intervals, as in Fig. 1 A, and also longer duration closed intervals. As was the case for Scheme 1, which also had one open state, the open dwell-time distribution would be described by a single exponential component with a time constant identical to the mean lifetime of the open state and would be identical to the distributions in Fig. 1 (B and C). The closed dwell-time distribution from Scheme 2 is shown in Fig. 2 B for the Sigworth and Sine transform and in Fig. 2 C for linear coordinates. In contrast to the single exponential for Scheme 1, the closed dwell-time distribution for Scheme 2 (continuous line) is now described by the sum of two exponential components, E_{1} and E_{2} (dashed lines), with time constants of 0.586 ms and 3.41 ms (arrows) and areas of 0.146 and 0.854, respectively. Neither of these time constants match the 1-ms mean lifetime of either closed state. Hence, when a kinetic scheme contains a compound state, exponential components are not necessarily directly linked to states, as previously noted (Colquhoun and Hawkes, 1994, 1995b).

### The Contribution of Specific Gating Sequences to the Dwell-Time Distribution of All Closed Intervals

To explore the relationship between exponential components and states, the origin of the intervals in the closed dwell-time distribution generated by Scheme 2 was examined. Each closed interval arises from either a unitary sojourn to C_{1} or a compound sojourn that includes both C_{1} and C_{2}. In a unitary sojourn, the closed interval is initiated by entry from O_{1} into C_{1} and is then terminated by a transition from C_{1} to O_{1} without ever transitioning to C_{2}, as indicated by gating sequence 0 in Table II. The constituent dwell-time distribution of all such unitary sojourns when *n* = 0 is designated {C_{1}} and can be calculated as described in the Materials and methods. For Scheme 2 the probability of a unitary sojourn is 0.5 (Table II), indicating that half of all closed intervals are in {C_{1}}.

n. | Gating sequence . | P . | No. of C_{1}. | No. of C_{2}. |
---|---|---|---|---|

0 | O_{1}-C_{1}-O_{1} | 0.5 | 1 | 0 |

1 | O_{1}-C_{1}-(C_{2}-C_{1}-)_{1}-O_{1} | 0.25 | 2 | 1 |

2 | O_{1}-C_{1}-(C_{2}-C_{1}-)_{2}-O_{1} | 0.125 | 3 | 2 |

3 | O_{1}-C_{1}-(C_{2}-C_{1}-)_{3}-O_{1} | 0.0625 | 4 | 3 |

n | O_{1}-C_{1}-(C_{2}-C_{1}-)-O_{n}_{1} | 0.5^{n+1} | n+1 | n |

n. | Gating sequence . | P . | No. of C_{1}. | No. of C_{2}. |
---|---|---|---|---|

0 | O_{1}-C_{1}-O_{1} | 0.5 | 1 | 0 |

1 | O_{1}-C_{1}-(C_{2}-C_{1}-)_{1}-O_{1} | 0.25 | 2 | 1 |

2 | O_{1}-C_{1}-(C_{2}-C_{1}-)_{2}-O_{1} | 0.125 | 3 | 2 |

3 | O_{1}-C_{1}-(C_{2}-C_{1}-)_{3}-O_{1} | 0.0625 | 4 | 3 |

n | O_{1}-C_{1}-(C_{2}-C_{1}-)-O_{n}_{1} | 0.5^{n+1} | n+1 | n |

P is the probability of the indicated gating sequences out of all possible gating sequences for *n* = 0 to infinity. The {C_{1}} distribution is comprised of all closed intervals arising from gating sequence *n* = 0, and the {C_{1}C_{2}} distribution is comprised of all closed intervals for gating sequences for integer values of *n* = 1 to infinity (Eq. 6). The sum of the probabilities for gating sequences 1 through infinity is 0.5. Thus, half of all closed intervals are to {C_{1}} with the other half to {C_{1}C_{2}}. No. of C_{1} and No. of C_{2} indicate the number of sojourns through C_{1} and C_{2}, respectively, that contribute to each interval generated by the specific gating sequence.

For a compound sojourn, the initiation of the closed interval starts the same as for a unitary sojourn, by a transition from O_{1} to C_{1}. Each closed interval is then extended by one or more repeated transitions from C_{1} to C_{2} and back to C_{1} before termination by a transition to O_{1}. The gating sequences and also the probabilities of compound sojourns arising from 1, 2, or 3 repeated sojourns to C_{2}, together with the general case gating sequence for *n* repeated sojourns, are listed in Table II. The constituent dwell-time distribution for each specific gating sequence can be calculated as described in the Materials and methods. The sum of all the constituent dwell-time distributions from all gating sequences for *n* = 1 to infinity in Table II is designated {C_{1}C_{2}} and can be calculated using Eq. 6 in the Materials and methods. For Scheme 2 the probabilities of the compound gating sequences for *n* = 1 to infinity sum to 0.5, indicating that half of all the closed intervals are in {C_{1}C_{2}} (Table II).

The {C_{1}} and {C_{1}C_{2}} distributions are plotted in Fig. 3 (A and B) on linear and semilogarithmic coordinates, respectively, together with the E_{1} and E_{2} exponential components from Fig. 2. (Recall that an exponential on a plot with a logarithmic ordinate and linear abscissa gives a straight line.) E_{1} together with {C_{1}} and E_{2} together with {C_{1}C_{2}} are also plotted in Fig. 3 (C and D), respectively, for ease of comparison. {C_{1}} is a single exponential (green lines) with maximum amplitude at zero time and a time constant of decay of 1 ms, equal to *t*_{C1}, the mean lifetime of state C_{1}. In contrast, {C_{1}C_{2}} has a zero magnitude at zero time, rises with a slight inflection to reach a peak at ∼2.5 ms, and then decays, with the decay becoming exponential for durations longer than ∼6 ms (blue lines). The {C_{1}C_{2}} distribution has some characteristics in common with distributions arising from convolutions of exponential functions, because it is comprised of the sum of an infinite number of constituent distributions, each arising from convolutions of exponentially distributed dwell times. Each gating sequence in Table II, as *n* goes from 1 to infinity, contributes a constituent distribution.

The various constituent distributions for *n* = 1 to 6 in Table II are plotted as numbered purple lines in Fig. 3 B. As *n* increases, the time to the peak increases, the amplitude of the peak decreases, and the decay after the peak is slower. The increased time to peak and slower decay reflects the increased numbers of sojourns through C_{2}-C_{1} contributing to each closed interval. The decreased amplitudes as *n* increases reflect that each successive distribution has 50% fewer intervals than the previous one (Table II) and that the interval durations are spread over a greater range (more dwell times contribute to each interval) so that there are fewer intervals of any specific duration. Interestingly, none of the constituent distributions for the individual gating sequences for *n* = 1 to infinity decay exponentially after reaching their peaks, as indicated by the curved decays of the purple lines in Fig. 3 B. However, the sum of all the constituent distributions for the individual gating sequences for *n* = 1 to infinity does decay exponentially, as indicated by the straight line decay of {C_{1}C_{2}} in Fig. 3 B (blue line) after ∼6 ms.

The {C_{1}} and {C_{1}C_{2}} dwell-time distributions shown in Fig. 3 (A–D) would not be apparent as individual distributions in the experimental data. Rather, {C_{1}} and {C_{1}C_{2}} sum to form the distribution of all experimentally observed intervals, referred to as the closed dwell-time distribution (continuous black lines in Fig. 3, A and B).

### Comparing Exponential Components to States for Scheme 2

To describe the data, the experimentally observed dwell-time distribution would be fitted with the sum of fast and slow exponential components (as in Fig. 2) indicated as E_{1} (black dashed lines) and E_{2} (red dashed lines) in Fig. 3 (A–D). The predicted dwell-time distribution that would be calculated for Scheme 2 using either Q-matrix or analytical methods would also be given as the sum of the exponential components E_{1} and E_{2}. Hence, both the description of the data and the predicted gating of Scheme 2 would be expressed in terms of the exponential components E_{1} and E_{2} rather than in terms of the distributions {C_{1}} and {C_{1}C_{2}} that reflect the actual underlying gating of the channel.

In the interpretation of single-channel data it is sometimes inferred that the {C_{1}} sojourns generate the fast exponential component. A comparison of the {C_{1}} and E_{1} distributions in Fig. 3 (A–C), shows that this is not the case for Scheme 2. The area of E_{1} is 0.146 and of {C_{1}} is 0.5. Thus, no more than 29.2% of the {C_{1}}sojourns could contribute to the E_{1} component. In addition, the E_{1} intervals have a mean duration of 0.586 ms compared with a mean duration of 1 ms for {C_{1}} sojourns. Hence, E_{1} intervals from {C_{1}} would have to be selectively drawn from the briefer intervals in {C_{1}}.

In the interpretation of single-channel data it is also sometimes inferred that {C_{1}C_{2}} sojourns (those sojourns to the compound state C_{1}C_{2}) generate the slow exponential component. A comparison of the {C_{1}C_{2}} and E_{2} distributions in Fig. 3 (A, B, and D) indicates that this is also not the case for Scheme 2. Intervals from {C_{1}C_{2}} do not generate an exponential, but a distribution with zero amplitude at zero time compared with maximum amplitude at 0 time for the E_{2} exponential. Consequently, there is a severe deficit of intervals in {C_{1}C_{2}} at short times compared with E_{2} (Fig. 3 D, gray area). For durations >6 ms, however, intervals in {C_{1}C_{2}} are sufficient to account for the tail of the slow exponential component, as indicated by the superposition of the decay of {C_{1}C_{2}} and E_{2} at longer times (Fig. 3, A, B, and D). Hence, the relationship between components and states changes with the duration of the intervals. At very short times, E_{2} arises almost exclusively from {C_{1}}, whereas at very long times, E_{2} arises almost exclusively from {C_{1}C_{2}}. The lack of direct correspondence between {C_{1}} and E_{1} and also between {C_{1}C_{2}} and E_{2} clearly shows that exponential components and kinetic states are not directly linked for Scheme 2.

### The Composition of E_{1} and E_{2} for Scheme 2

Although components and states are not directly linked for Scheme 2, they can be related to each other through the experimentally observed dwell-time distribution of all closed intervals (continuous black lines in Fig. 3, A and B). This distribution can be described in two different ways: by the sum of the two exponential components E_{1} and E_{2}, and also by the sum of {C_{1}} and {C_{1}C_{2}}. Thus, for each interval duration in these distributions

and by rearrangement

Fig. 3 D shows that the {C_{1}C_{2}} and E_{2} distributions are identical at longer interval durations but that {C_{1}C_{2}} is less than E_{2} at shorter interval durations. E_{2} – {C_{1}C_{2}} then gives the number of “missing intervals” (Fig. 3 D, shaded area) that would be required to fill in the gap between {C_{1}C_{2}} and E_{2} to complete the E_{2} exponential component. Because all intervals in the exponential components arise from {C_{1}} and {C_{1}C_{2}}, the observation in Fig. 3 D that there are insufficient intervals in {C_{1}C_{2}} to complete E_{2} indicates that the missing intervals come from {C_{1}}, as there are no other intervals available.

Fig. 3 C shows that the {C_{1}} distribution is greater than the E_{1} distribution for all interval durations. Hence, {C_{1}} – E_{1} indicates the number of “excess intervals” in {C_{1}} that are not required for E_{1} (Fig. 3 C, shaded area). Eq. 8 shows that the missing intervals in Fig. 3 D should exactly equal the excess intervals in Fig. 3 C at every point in time. Fig. 3 E shows that this is the case because the lines plotting the numbers of missing and excess intervals superimpose.

Further rearrangement of Eq. 7 indicates the composition of the exponential components

Thus, E_{2} is comprised of all the {C_{1}C_{2}} intervals plus those excess intervals in {C1} required to fill in the gap between {C1C2} and E_{2} to complete the E_{2} exponential, and E_{1} is comprised of the leftover intervals in {C_{1}} not used to fill in the E_{2} exponential. Because intervals arising from transitions through the compound state C_{1}C_{2} will always form a convolution type of distribution with too few intervals at brief times to complete the E_{2} exponential, then some intervals from {C_{1}} will always be required to fill in the E_{2} exponential. The fraction of {C_{1}} intervals required to fill in the gap at any point in time depends on interval duration, ranging from 0.5 at zero time to essentially 0 at very long times for Scheme 2 (Fig. 3 D).

### Changing the Ratio of the Lifetime of C_{2} to C_{1} in Scheme 2 while Keeping All Other Aspects of Gating Constant Greatly Alters the Relationship between Components and States

To explore the effect of changing the lifetime of C_{2}, *t*_{C2} on the relationship between components and states, *t*_{C2} in Scheme 2 was altered by changing *k*_{C2-C1,} the rate constant for the transition from C_{2} to C_{1.} Changing *t*_{C2} in this manner did not change the lifetime of C_{1}, *t*_{C1} (which remained at 1 ms), did not change the probability of entering C_{2} from C_{1} (which remained at 0.5), did not change the probability of the transition from C_{2} to C_{1} (which remained at 1), and did not change the relative areas of {C_{1}} and {C_{1}C_{2}}, both of which remained at 0.5. Changing *t*_{C2} without changing any other aspects of the gating was found to have profound effects on the relationship between components and states.

Results are shown in Fig. 4 for *t*_{C2} of 5 ms, and in Fig. 5 for *t*_{C2} of 0.2 ms. These changes in *t*_{C2} were obtained by changing *k*_{C2-C1} in Scheme 2 from 1,000/s to either 200/s or 5,000/s, respectively. The findings in Figs. 4 and 5 should be compared with those in Fig. 3 where *t*_{C2} was 1 ms. Table III lists the time constants and areas of E_{1} and E_{2} for these and other values of *t*_{C2}. Calculations over a wide range of state lifetimes for C_{1} and C_{2} showed that it is the lifetime ratio *t*_{C2}/*t*_{C1} rather than the absolute values of the lifetimes that determines the relationship between components and states when the transition probabilities are fixed (not depicted). Consequently, the observations will be discussed in terms of the *t*_{C2}/*t*_{C1} ratio in order to make them more general. The *t*_{C2}/*t*_{C1} ratios for 3–5,^{4}^{5} are 1, 5, and 0.2, respectively.

k_{C2-C1} (s^{−1}). | 1 . | 10 . | 100 . | 200 . | 1,000 . | 5,000 . | 10,000 . | 100,000 . | |||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|

Components and states | |||||||||||||||

t_{C1} (ms) | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | |||||||

t_{C2} (ms) | 1000 | 100 | 10 | 5 | 1 | 0.2 | 0.1 | 0.010 | |||||||

τ_{E1} (ms) | 0.999 | 0.995 | 0.950 | 0.901 | 0.586 | 0.180 | 0.095 | 0.010 | |||||||

τ_{E2} (ms) | 2001 | 201.0 | 21.05 | 11.10 | 3.414 | 2.220 | 2.105 | 2.010 | |||||||

a_{E1} | 0.499 | 0.495 | 0.450 | 0.402 | 0.146 | 0.010 | 0.0025 | 0.00003 | |||||||

a_{E2} | 0.501 | 0.505 | 0.550 | 0.598 | 0.854 | 0.990 | 0.9975 | 0.99997 | |||||||

τ_{{C1}} (ms) | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | |||||||

τ_{{C1C2}} (ms) | The τ of the decay of {C1C2} approaches that of E_{2} at longer times | ||||||||||||||

a_{{C1}} | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | |||||||

a_{{C1C2}} | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 |

k_{C2-C1} (s^{−1}). | 1 . | 10 . | 100 . | 200 . | 1,000 . | 5,000 . | 10,000 . | 100,000 . | |||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|

Components and states | |||||||||||||||

t_{C1} (ms) | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | |||||||

t_{C2} (ms) | 1000 | 100 | 10 | 5 | 1 | 0.2 | 0.1 | 0.010 | |||||||

τ_{E1} (ms) | 0.999 | 0.995 | 0.950 | 0.901 | 0.586 | 0.180 | 0.095 | 0.010 | |||||||

τ_{E2} (ms) | 2001 | 201.0 | 21.05 | 11.10 | 3.414 | 2.220 | 2.105 | 2.010 | |||||||

a_{E1} | 0.499 | 0.495 | 0.450 | 0.402 | 0.146 | 0.010 | 0.0025 | 0.00003 | |||||||

a_{E2} | 0.501 | 0.505 | 0.550 | 0.598 | 0.854 | 0.990 | 0.9975 | 0.99997 | |||||||

τ_{{C1}} (ms) | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | |||||||

τ_{{C1C2}} (ms) | The τ of the decay of {C1C2} approaches that of E_{2} at longer times | ||||||||||||||

a_{{C1}} | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | |||||||

a_{{C1C2}} | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 |

The abbreviations designating the exponential components and states are defined in Table I.

The key observations to be made from a systematic examination of 3–5,^{4}^{5} are as follows.

(a) {C_{1}} (continuous green lines) is identical in each figure (A, B, and C), with a time constant of 1 ms, because changing *k*_{C2-C1} has no effect on *t*_{C1} or on the fraction of intervals in {C_{1}}, which remains constant at 0.5.

(b) Increasing *t*_{C2} fivefold compared with *t*_{C1} decreases the peak amplitude of {C_{1}C_{2}} while increasing the time to peak and greatly slowing the decay (compare Fig. 4 to Fig. 3, A, B, and D). These changes in {C_{1}C_{2}} greatly decrease the deficit of intervals required to fill in the gap between {C_{1}C_{2}} and E_{2} to complete the E_{2} exponential at shorter times (compare gray area in Fig. 4 D to Fig. 3 D). Consequently, because fewer {C_{1}} intervals are required to fill in the gap when *t*_{C2} >> *t*_{C1}, most of the {C_{1}} intervals go to E_{1} (compare Fig. 4 C to Fig. 3 C). As a result, the time constant and area of E_{1} approach that of {C_{1}} when *t*_{C2} >> *t*_{C1} (Fig. 4, A–C; Table III),

(c) In contrast, decreasing *t*_{C2} fivefold compared with *t*_{C1} increases the peak amplitude of {C_{1}C_{2}}, while decreasing the time to peak and accelerating the decay (compare Fig. 5 to Fig. 3, A, B, and D). These changes in {C_{1}C_{2}} greatly increase the number of intervals required to fill in the gap between {C_{1}C_{2}} and E_{2} to complete the E_{2} exponential at shorter times (compare gray area in Fig. 5 D to Fig. 3 D). Consequently, because most of the {C_{1}} intervals are required to fill in the missing intervals when *t*_{C2} << *t*_{C1}, then very few of the {C_{1}} intervals go to E_{1} (compare Fig. 5 C to Fig. 3 C). As a result, the time constant and area of E_{1} become markedly less than that of {C_{1}} when *t*_{C2} << *t*_{C1} (Fig. 5, A–C; Table III), so that E_{1} becomes uncoupled from {C_{1}}.

(d) That {C_{1}} intervals mainly go to E_{1} when *t*_{C2} >> *t*_{C1} and to E_{2} when *t*_{C2} << *t*_{C1} is readily seen by comparing Fig. 4 (C–E) to Fig. 5 (C–E), respectively.

### Paradoxical Shifts in the Time Constants and Areas of the Exponential Components as the *t*_{C2}/*t*_{C1} Ratio Passes through 1

The observations in 3–5,^{4}^{5} and Table III suggest that the relative contribution of the {C1} and {C_{1}C_{2}} intervals to E_{1} and E_{2} shifts with the *t*_{C2}/*t*_{C1} ratio. To investigate these shifts further, Fig. 6 B plots the time constants of E_{1} and E_{2}, τ_{E1} and τ_{E2}, and the lifetimes of C_{1} and C_{2}, *t*_{C1} and *t*_{C2}, and Fig. 6 E plots the areas of E_{1}, E_{2}, {C_{1}}, and {C_{1}C_{2}} as *k*_{C2-C1} in Scheme 2 is changed over six orders of magnitude to change the *t*_{C2}/*t*_{C1} ratio from 10^{3} to 10^{−3} (see bottom of Fig. 6). This change in *k*_{C2-C1} changes *t*_{C2} from 1 s to 1 μs (Fig. 6 B, red dashed line) while having no effect on *t*_{C1}, which remains constant at 1 ms (Fig. 6 B, black continuous line). As *t*_{C2} decreases, decreasing the *t*_{C2}/*t*_{C1} ratio, τ_{E1} first tracks *t*_{C1} and then switches to track *t*_{C2} (Fig. 6 B, black dashed line). The switch in tracking occurs as the *t*_{C2}/*t*_{C1} ratio passes through 1, with τ_{E1} equal to *t*_{C1} when *t*_{C2} >> *t*_{C11} and then equal to *t*_{C2} when *t*_{C2} << *t*_{C1}.

Just as there is a shift in the tracking of τ_{E1} from *t*_{C1} to *t*_{C2} as the *t*_{C2}/*t*_{C1} ratio passes through 1, there is also a shift in the tracking τ_{E2} from *t*_{C2} to *t*_{C1}. τ_{E2} (Fig. 6 B, red continuous line) first tracks *t*_{C2} when *t*_{C2} >> *t*_{C1} and then switches to track *t*_{C1} when *t*_{C2} << *t*_{C1}. This tracking occurs with an offset. τ_{E2} is twice *t*_{C2} when *t*_{C2} >> *t*_{C1} and then switches to become twice *t*_{C1} when *t*_{C2} << *t*_{C1}.

These paradoxical shifts in the tracking of the time constants are also associated with dramatic shifts in the areas of E_{1} and E_{2,}*a*_{E1} and *a*_{E2} (Fig. 6 E). When *t*_{C2} >> *t*_{C1}, *a*_{E1} and *a*_{E2} approach 0.5, essentially the same as the 0.5 areas of {C_{1}} and {C_{1}C_{2}} (Fig. 6 E, left; Table III). As the *t*_{C2}/*t*_{C1} ratio decreases so that *t*_{C2} << *t*_{C1}, then *a*_{E1} approaches 0 and *a*_{E2} approaches 1 (Fig. 6 E, right; Table III). Note that the dramatic shifts in the time constants and areas of E_{1} and E_{2} occur even though the areas of {C_{1}} and of {C_{1}C_{2}} remain constant at 0.5 (Fig. 6, B and E; Table III).

The plotted areas in Fig. 6 E quantify the observations shown in 3–5,^{4}^{5} (C and D). When *t*_{C2} >> *t*_{C1}, the areas (and distributions) of E_{1} and {C_{1}} are essentially identical and the areas (and distributions) of E_{2} and {C1C2} are also essentially identical. When *t*_{C2} << *t*_{C1}, then the area of E_{1} approaches 0 and the area of E_{2} approaches the area of {C_{1}} + {C_{1}C_{2}}. Hence, when *t*_{C2} >> *t*_{C} E_{1} is comprised of essentially all of the C_{1} intervals and E_{2} is comprised of essentially all {C_{1}C_{2}} intervals. The shift in the {C1} intervals from E_{1} to E_{2} as the lifetime ratio shifts is shown by the decrease in *a*_{E1} and increase in *a*_{E2}, such that when *t*_{C2} << *t*_{C1} essentially all of the {C_{1}} and {C_{1}C_{2}} intervals go to E_{2}.

The paradoxical shifts in the time constants and areas of E_{1} and E_{2} as the *t*_{C2}/*t*_{C1} ratio passes through 1 (Fig. 6, B and E) follow directly from the graphical origins of the exponential components shown in 3–5,^{4}^{5} and from the equations in the Appendix. The shifts do not arise from a swapping of the fast and slow exponential components between Eqs. A2 and A3 and Eqs. A4 and A6 in the Appendix, but are self contained in the equation for each component. This is shown graphically in Fig. 6 B, where τ_{E1} is always faster than τ_{E2,}, and in Fig. 6 B by the smooth functions for changes in area. The shifts can be explained visually from the graphical origins of the exponential components detailed in 3–5,^{4}^{5}. As the *t*_{C2}/*t*_{C1} ratio decreases, the shape of {C_{1}C_{2}} changes so that an increasing number of {C_{1}} intervals are required to fill in the gap between {C_{1}C_{2}} and E_{2} to complete the E_{2} exponential, with any leftover {C_{1}} intervals going to generate E_{1}. It is this shift of {C_{1}} intervals from E_{1} to E_{2} that shifts the areas and time constants of E_{1} and E_{2}.

### Why τ_{E2} Tracks *t*_{C2} when *t*_{C2} >> *t*_{C1} and then Tracks *t*_{C1} when *t*_{C2} << *t*_{C1 }

The time constant of E_{2} tracks *t*_{C2} (with an offset) when *t*_{C2} >> *t*_{C1} (Fig. 6 B) because under these conditions the number of intervals required to fill in the gap between {C_{1}C_{2}} and E_{2} is negligible so that essentially all of the intervals in E_{2} arise from {C_{1}C_{2}} (Fig. 4 and Fig. 6 B), where the duration of C_{1} is negligible because *t*_{C2} >> *t*_{C1}. That the offset for τ_{E2} is twice *t*_{C2} when *t*_{C2} >> *t*_{C1} (Fig. 6 B) is readily calculated from Table II by setting *t*_{C1} to zero and then calculating the mean closed interval duration (which gives the time constant of E_{2}) for gating sequences of *n* = 1 to infinity. Note that *n* starts at 1 because there are essentially no {C_{1}} intervals in E_{2} when *t*_{C2} >> *t*_{C1}. The tracking occurs with an offset equal to twice the duration of *t*_{C2} because the average number of sojourns through C_{2} for intervals generated by gating sequences 1 to infinity is 2.

As *t*_{C2} becomes less than *t*_{C1,} τ_{E2} switches over to track *t*_{C1} (Fig. 6 B). The tracking now occurs with a time constant equal to twice *t*_{C1} rather than *t*_{C2}, because when *t*_{C2} << *t*_{C1}, all of the {C_{1}} and {C_{1}C_{2}} intervals go to E_{2} (Fig. 5 and Fig. 6 E), with the sojourns to C_{2} having such brief durations that the dwell time in C_{2} does not contribute to interval duration. That τ_{E2} is twice *t*_{C1} when *t*_{C2} << *t*_{C1} (Fig. 6 B) is readily calculated from Table II by setting *t*_{C2} to zero and calculating the mean closed interval duration for *n* = 0 to infinity, with *n* starting at 0 because essentially all {C_{1}} and {C_{1}C_{2}} intervals go to E_{2}. Thus, the paradoxical shift in the tracking of τ_{E2} from twice *t*_{C2} when *t*_{C2} >> *t*_{C1} to twice *t*_{C1} when *t*_{C2} << *t*_{C1}, as determined by the equations in the Appendix, is readily accounted for mechanistically as well as analytically.

### Why τ_{E1} Tracks *t*_{C1} when *t*_{C2} >> *t*_{C1} and then Tracks *t*_{C2} when *t*_{C2} << *t*_{C1 }

The time constant of E_{1} directly tracks *t*_{C1} when *t*_{C2} >> *t*_{C1} (Fig. 6 B), because under these conditions an insignificant number of intervals in {C_{1}} are required to fill in the gap between {C_{1}C_{2}} and E_{2}, so (essentially) all {C_{1}} intervals go to E_{1} (Fig. 4 and Fig. 6 B). Consequently, when *t*_{C2} >> *t*_{C1,} E_{1} and {C_{1}} become synonymous (they contain the same numbers and durations of intervals) so that τ_{E1} directly tracks and is equal to *t*_{C1}. As *t*_{C2} becomes less than *t*_{C1}, τ_{E1} switches over to track *t*_{C2} (Fig. 6 B) because the majority of the {C_{1}} intervals now go to fill in the gap between {C_{1}C_{2}} and E_{2} to complete the E_{2} exponential so that they are no longer available for E1 (Figs. 5 and 6). Interestingly, the few remaining intervals in {C_{1}} left to generate E_{1} have a lifetime equal to *t*_{C2}. It is not readily apparent why this is the case, but it can be shown by numerical substitution into Eq. A2 (Appendix) that when *k*_{+1} >> (*β* + *k*_{-1}), i.e., when *t*_{C2} << *t*_{C1,} then τ_{E1} ∼ 1/(*k*_{+1}), i.e., τ_{E1} ∼ *t*_{C2. }

### Generalizing the Observations for All Transition Probabilities

3–5,^{4}^{5} and Fig. 6 (B and E) examined the relationship between components and states as a function of the *t*_{C2}/*t*_{C1} ratio for the specific case of equal transition probabilities away from state C_{1} in Scheme 2 where P_{C1-C2} is equal to P_{C1-O1}, with both equal to 0.5. This section examines whether the same general relationship between components and states holds when the ratio of the two transition probabilities away from C_{1} is changed over six orders of magnitude. Data are presented for transition probability ratios of P_{C1-C2}/P_{C1-O1} of 0.999/0.001 (Fig. 6, A and D) and of 0.001/0.999 (Fig. 6, C and F) for comparison to data for the transition probability ratio of 0.5/0.5 in Fig. 6, B and E).

A comparison of the data for these three markedly different transition probability ratios shows that the paradoxical shifts in the relationship between time constants of exponential components and state lifetimes occurs independently of the transition probability ratio of P_{C1-C2}/P_{C1-O1}. For the three transition probability ratios considered that span six orders of magnitude (upper, middle, and lower parts) and for changes in *t*_{C2}/*t*_{C1} also over six orders of magnitude (abscissa), τ_{E2} first tracks *t*_{C2} and then switches to track *t*_{C1}, whereas τ_{E1} first tracks *t*_{C1} and then switches to track *t*_{C2}. The only differences in the plots are that the magnitudes of the offset of τ_{E2}, first from *t*_{C2} and then from *t*_{C1}, decreases as the transition probability ratio P_{C1-C2}/P_{C1-O1} decreases (see below) and the switch in tracking occurs more rapidly. Thus, the same paradoxical shifts in the tracking of the exponential components to the state lifetimes as the *t*_{C2}/*t*_{C1} ratio passes through 1 still occur when the transition probability ratio of P_{C1-C2}/P_{C1-O1} is changed a million fold. A decreased offset of τ_{E2} from the state lifetimes would be expected as P_{C1-C2}/P_{C1-O1} decreases because the average number of repeated transitions through C_{1}C_{2} contributing to each closed interval would decrease, leading to a decreased time constant of E_{2}. For example, when P_{C1-C2}/P_{C1-O1} is 0.999/0.001 so that 999 out of 1,000 transitions away from C_{1} are to C_{2}, then the time constant of E_{2} is ∼1,000-fold greater than *t*_{C2} when *t*_{C2} >> *t*_{C1} and ∼1,000-fold greater than *t*_{C1} when *t*_{C2} << *t*_{C1} (Fig. 6 A). At the other extreme, when P_{C1-C2}/P_{C1-O1} is 0.001/0.999 so that only 1 out of 1,000 transitions away from C_{1} go to C_{2}, then the time constant of E_{2} is within 0.1% of *t*_{C2} when *t*_{C2} >> *t*_{C1} and within 0.1% of *t*_{C1} when *t*_{C2} << *t*_{C1} (Fig. 6 C).

As more transitions from C_{1} are directed to either C_{2} or O_{1} due to different P_{C1-C2}/P_{C1-O1} ratios, the areas of {C_{1}} and {C_{1}C_{2}} change, as would be expected. For P_{C1-C2}/P_{C1-O1} ratios of 0.999/0.001, 0.5/0.5, and 0.001/0.999, the area of {C_{1}C_{2}} is 0.999, 0.5, and 0.001, and the area of {C_{1}} is 0.001, 0.5, and 0.999, respectively (Fig. 6, D, E, and F, dotted straight lines). These areas remain constant as *k*_{C2-C1} is changed. Just as the paradoxical shifts in time constants occur independently of the P_{C1-C2}/P_{C1-O1} ratio as the *t*_{C2}/*t*_{C1} ratio passes through 1, the paradoxical shifts *a*_{E1} and *a*_{E2} also occur independently of the P_{C1-C2}/P_{C1-O1} ratio, that is, independently of whether most of the closed intervals arise from {C_{1}} or {C_{1}C_{2}}. When P_{C1-C2}/P_{C1-O1} is 0.999/0.001, *a*_{E1} is small, containing <0.1% of the intervals when *t*_{C2} >> *t*_{C1} (Fig. 6 D, left). Yet, these few intervals in E_{1} still shift to E_{2} as the *t*_{C2}/*t*_{C1} ratio passes through 1, as indicated by the decrease in *a*_{E1} in Fig. 6 D that is apparent because of the log ordinate. The accompanying increase in *a*_{E2} is not apparent because the fractional increase is small compared with initial large size of *a*_{E2}. For the reverse situation in which P_{C1-C2}/P_{C1-O1} is 0.001/0.999, *a*_{E1} contains 99.9% of the area and *a*_{E1} only 0.001% when *t*_{C2} >> *t*_{C1} (Fig. 6 F, left). This distribution of areas then fully reverses as the *t*_{C2}/*t*_{C1} ratio passes through 1 (Fig. 6 F, right).

The results in Fig. 6 then show that the paradoxical shifts in the relationship between exponential components and states is determined by the lifetime ratio *t*_{C2}/*t*_{C1} rather than by the specific lifetimes of the states or the specific transition probabilities.

### Quantifying the Linkage between the Time Constants of Exponential Components and Lifetimes of States

If the duration of intervals in an exponential component is determined mainly by the dwell times arising from sojourns through a particular state, then a fractional change in the lifetime of that state should produce the same fractional change in the time constant of the exponential component. Eq. 11 incorporates this rational to quantify the linkage between components and states, L*τ*, such that

where *τ*_{Ei} is the time constant of exponential component *i* when the mean lifetime of state *j* is *t*_{Cj}, and *τ*_{Ei}′ is the time constant of exponential component *i* after the lifetime of state *j* is changed a small fractional amount to *t*_{Cj}′. The lifetime of state *j* is changed without changing the transition probabilities among any of the states by increasing (or decreasing) all of the rate constants leading away from state *j* by the same small fractional amount (typically 10^{−5}), with *τ*_{Ei}′ and *τ*_{Ei} calculated using analytical (Appendix) or Q-matrix methods (Colquhoun and Hawkes, 1995a).

Fig. 7 plots linkage as a function of the *t*_{C2}/*t*_{C1} ratio for the same three kinetic schemes that were examined in Fig. 6 encompassing a 10^{6}-fold change in the transition probabilities away from state C_{1}. When *t*_{C2} >> *t*_{C1}, there is near perfect linkage of τ_{E1} to *t*_{C1}, and of τ_{E2} to *t*_{C2,} as indicated by values for L*τ* approaching 1, and essentially no linkage of τ_{E2} to *t*_{C1}, and of τ_{E1} to *t*_{C2}, as indicated by values for L*τ* approaching 0. The linkages then reverse when *t*_{C2} << *t*_{C1}, so there is near perfect linkage of τ_{E2} to *t*_{C1}, and of τ_{E1} to *t*_{C2} and no linkage of τ_{E1} to *t*_{C1}, and of τ_{E2} to *t*_{C2.} The quantified linkage in Fig. 7 is consistent with the observations and mechanisms discussed in the previous figures.

### Knowledge of Paradoxical Shifts Can Prevent Misinterpretation of Experimental Observations

Knowledge of the paradoxical shifts shown in Figs. 6 and 7 and their underlying mechanisms can prevent possible misinterpretation of the origin of the exponential components. For example, solving for the exponential components for Scheme 2 when *k*_{C2-C1} = 10^{5}/s gives time constants of 0.01 ms for E_{1} and 2.01 ms for E_{2} (Fig. 6 B, right side, and Table III, far right column). Since *t*_{C2} is 0.01 ms, the same as τ_{E1}, it might be tempting to speculate that E_{1} arises in some manner from single sojourns to C_{2}, rather than from leftover {C_{1}} intervals, as shown in Fig. 5. However, this cannot be the case, as every sojourn to C_{2} requires two sojourns through the 1 ms lifetime C_{1} in this example, yielding the slower {C_{1}C_{2}} distribution (Fig. 5; Table II). Furthermore, the {C_{1}C_{2}} distribution has a magnitude of 0 at time 0, whereas the magnitude of E_{1} is maximal at time 0 (3–5,^{4}^{5}). Consequently, intervals that include a transition through C_{2}, i.e., {C_{1}C_{2}} intervals, cannot be the basis for the very fast E_{1} exponential component in this example, no matter how brief the lifetime of C_{2}. The E_{1} component always arises from the same underlying mechanism, no matter what the lifetimes of C_{1} and C_{2}, from the leftover intervals in {C_{1}} not required to fill in the {C_{1}C_{2}} distribution to complete the E_{2} exponential.

### Models with Three Closed States in Series

The above sections examined Scheme 2 in which two connected closed states were followed by an open state. We now examine a model with three closed and one open state in series, C_{3}-C_{2}-C_{1}-O_{1}, which would generate three closed exponential components E_{1}, E_{2}, and E_{3}. Data are presented in Fig. 8 (A–C), where *t*_{C1} and *t*_{C2} are both 1 ms for all three schemes, and *t*_{C3} is 1 s in A, 1 ms in B, and 1 μs in C, changed by altering *k*_{C3-C2} as indicated. The transition probabilities P_{C1-O1}, P_{C1-C2}, P_{C2-C1}, and P_{C2-C3} are the same for the three schemes, with a value of 0.5. For each scheme, intervals from {C_{1}C_{2}C_{3}} generate a convolution type distribution analogous to {C_{1}C_{2}} presented earlier, but with one more closed state contributing to the closed intervals. When *t*_{C3} is 1 s (A), E_{3} and {C_{1}C_{2}C_{3}} have long time courses and very low amplitudes so that they run just above the abscissa and are not readily visible. Shortening *t*_{C3} to 1 ms (B) or 1 μs (C) progressively increases the amplitudes of E_{3} and {C_{1}C_{2}C_{3}} and speeds their decays. For all three lifetimes of C_{3}, E_{3} superimposes {C_{1}C_{2}C_{3}} at longer times, indicating the E_{3} arises from {C_{1}C_{2}C_{3}} at longer times. Intervals from {C_{1}C_{2}} and {C_{1}} then fill in the gap between the {C_{1}C_{2}C_{3}} distribution and E_{3} at shorter times to complete the E_{3} exponential. The remaining intervals from {C_{1}C_{2}} and some of the intervals from {C_{1}} then generate the E_{2} exponential, and finally, any remaining intervals in {C_{1}} not used to complete the E_{3} and E_{2} exponentials generate E_{1}.

The fraction of intervals in {C_{1}C_{2}} that go to fill in E_{3} and E_{2} is highly dependent on the *t*_{C3}/*t*_{C2} ratio. When *t*_{C3} >> *t*_{C2} (Fig. 8 A), then both E_{3} and {C_{1}C_{2}C_{3}} are of long duration and very low amplitude so that very few of the {C_{1}C_{2}} and {C_{1}} intervals are needed to fill in E_{3} at shorter times. Consequently, most {C_{1}C_{2}} intervals go to E_{2}, with the decay of E_{2} superimposing the decay of {C_{1}C_{2}} at longer times. Intervals from {C_{1}} then fill in the gap between {C_{1}C_{2}} and E_{2} at shorter times to complete E_{2}, with the leftover intervals from {C_{1}} going to generate E_{1}. This distribution of intervals is very similar to Fig. 3 A, except for the addition of the very low amplitude long duration {C_{1}C_{2}C_{3}} distribution and E_{3} component in Fig. 8 A.

In contrast, when *t*_{C3} << *t*_{C1} (Fig. 8 C), then the {C_{1}C_{2}C_{3}} distribution has a faster decay and a much higher peak amplitude than in Fig. 8 A, which leads to a major deficit of intervals at shorter times in {C_{1}C_{2}C_{3}} compared with E_{3}. Consequently, large numbers of intervals from {C_{1}C_{2}} and also from {C_{1}} are required to fill in the gap between {C_{1}C_{2}C_{3}} and E_{3} at shorter times to complete the E_{3} exponential. The consequence of using so many {C_{1}C_{2}} and also {C_{1}} intervals to complete the E_{3} exponential is that there are few leftover {C_{1}C_{2}} intervals to contribute to E_{2}. Consequently, E_{2} is comprised mainly of the briefer duration {C_{1}} intervals and decays much faster than {C_{1}C_{2}}. Because of the large number of {C_{1}} intervals used for E_{3} and E_{2} there are essentially no {C_{1}} intervals left to generate E_{1}, which essentially disappears, having a very fast time constant and essentially no area.

In Fig. 8 B when *t*_{C3} is 1 ms, intermediate in duration (log scale) between the 1-s lifetime in A and the 1-μs lifetime in part C, then the response is intermediate between those in A and C, with sufficient leftover {C_{1}} intervals to generate a small but detectable E_{1}. Thus, the same types of paradoxical shifts and underlying mechanisms that generate the exponential components when there are two closed states in series also apply when there are three closed states in series, but with the additional requirement that some of the {C_{1}C_{2}} and {C_{1}} intervals go to fill in the gap between {C_{1}C_{2}C_{3}} and E_{3} at shorter times, leaving fewer intervals for E_{2} and E_{1}.

## Discussion

Frequency histograms of the number of open and closed intervals vs. their durations are a major means of presenting data recorded from single channels. These dwell-time distributions are typically characterized by fitting with sums of exponential components, as the Markov models used to describe the gating of ion channels predict that such dwell-time distributions would be described by sums of exponential components, with the numbers of components equal to the number of states in the gating mechanism (Colquhoun and Hawkes, 1981, 1982; Magleby and Pallotta, 1983; Colquhoun and Hawkes, 1995a; Jackson, 1997) and Appendix. In spite of the central importance of exponential components to the description of single channel data, little is known about the specific contributions of the various states to each of the exponential components. The question is not whether components can be calculated for a given kinetic scheme, as this is readily accomplished through analytical and Q-matrix methods (Colquhoun and Hawkes, 1982, 1995b), nor is the question the detection of components in histograms, as kinetic mechanisms are typically determined by maximum likelihood fitting of rate constants to data, with the numbers of components implicit in the mechanism being fitted (Horn and Lange, 1983; McManus and Magleby, 1991; Colquhoun et al., 1996). Rather, the question is the physical basis for the exponential components, e.g., what is the state contribution to each component? As long as any discussion of exponential components in terms of underlying gating mechanism is avoided, no specific knowledge is needed. However, in order to relate exponential components to the underlying gating process, it is necessary to understand the relationship between components and states. In this paper we resolve this problem for simple models.

To explore this relationship we examined the simple gating mechanism described by Scheme 2 for two closed and one open state: C_{2}-C_{1}-O_{1}. For this gating mechanism the dwell-time distribution of all closed intervals is described by the sum of fast E_{1}, and slow E_{2} exponential components (Fig. 2). To relate exponential components to underlying states, the closed dwell-time distribution was divided into those intervals arising from single sojourns to C_{1} in the gating sequence O_{1}-C_{1}-O_{1}, designated {C_{1}}, and into those intervals arising from all sojourns through the compound state C_{1}-C_{2} from the gating sequence O1-C_{1}-(C_{2}-C_{1})* _{n}*-O1 (where

*n*has integer values from 1 to infinity, Table II), designated {C

_{1}C

_{2}}.

### Graphical Demonstration of the Origin of the Exponential Components from the Underlying States

Our analysis shows that {C_{1}C_{2}} and E_{2} superimpose at longer interval times when the number of {C1} intervals approaches 0 (3–5,^{4}^{5}, A–D). This indicates that E_{2} at longer times is generated by and includes all intervals from {C_{1}C_{2}}. At shorter interval times, however, there are too few intervals in {C_{1}C_{2}} to account for E_{2} (3–5,^{4}^{5}, A, B, and D). To complete E_{2} at shorter times, intervals from {C_{1}} fill in the gap between {C_{1}C_{2}} and E_{2}, as these are the only other intervals available to do so (Eq. 9, 3–5,^{4}^{5}, C–E). The leftover intervals in {C_{1}} not used to fill in the gap then generate E_{1} (Eq. 10, 3–5,^{4}^{5}, C–E). This same basic mechanism for the generation of E_{1} and E_{2} generally applies, independent of the rate constants in Scheme 2 (3–5,^{4}^{5}), and allows for a graphical/numerical solution for E_{1} and E_{2}. Although such a procedure would not normally be used, it does illustrate the systematic manner in which the exponential components are generated from the closed states. E_{2} is given by the projection of a straight line superimposed at long times on the decay of {C_{1}C_{2}} plotted on semilogarithmic coordinates (Fig. 3 B, dashed red line superimposed on blue line). {C_{1}C_{2}} is then subtracted from E_{2} to determine the deficit of intervals required to fill in the gap between {C_{1}C_{2}} and E_{2} at shorter times (Fig. 3 D, gray area). The intervals used to fill the gap, which come from {C_{1}}, are then subtracted from {C_{1}} to obtain E_{1} (Fig. 3 C). E_{1} is then plotted on semilogarithmic coordinates to define its magnitude and time constant (Fig. 3 B, dashed black line). Hence, E_{2} arises from all intervals in {C_{1}C_{2}} plus selected intervals from {C_{1}} as needed to fill the gap, and E_{1} arises from the leftover intervals in {C1}.

### When Do Exponential Components Equal Kinetic States?

It is sometimes inferred that E_{1} is comprised of all of the {C_{1}} intervals and that E_{2} is comprised of all the {C_{1}C_{2}} intervals, so that E_{1} is tightly linked to C_{1} and E_{2} is tightly linked to the compound state C_{1}C_{2}. Although the discussion in the previous section indicates that this assumption is not necessarily correct, it would be useful to know under what conditions such an assumption applies. Our analysis shows that there is negligible error associated with this assumption for Scheme 2 when the *t*_{C2}/*t*_{C1} ratio is >100 (Figs. 6 and 7; Table III), and that the error remains negligible for 10^{6}-fold changes in the transition probability ratio of P_{C1-O}/P_{C1-C2} (Fig. 6). The errors associated with this assumption become progressively greater as the *t*_{C2}/*t*_{C1} ratio decreases. For *t*_{C2}/*t*_{C1} and P_{C1-O}/P_{C1-C2} ratios of 1, 29% of the {C_{1}} intervals are in E_{1} with the rest in E_{2} (Table III). As the *t*_{C2}/*t*_{C1} ratio becomes <1, the assumption that E_{1} is comprised of all the {C_{1}} intervals and that E_{2} is comprised of all the {C_{1}C_{2}} intervals becomes untenable, as the time constant of E_{1} switches from tracking *t*_{C1} to tracking *t*_{C2}, and the {C_{1}} intervals switch from mainly contributing to E_{1} to mainly contributing to E_{2} (3–7,^{4}^{5}^{6}^{7}).

This paradoxical switch follows as a simple consequence of the mechanism by which E_{1} and E_{2} are generated. Because it is the *t*_{C2}/*t*_{C1} ratio that determines the magnitude and shape of the {C_{1}C_{2}} distribution, it is the *t*_{C2}/*t*_{C1} ratio that also determines the number of {C_{1}} intervals required to fill in the gap between {C_{1}C_{2}} and E_{2} at shorter times to complete the E_{2} exponential (3–5,^{4}^{5}, C and D). When *t*_{C2} >> *t*_{C1}, the relative number of {C_{1}} intervals needed to fill in the gap is insignificant. Consequently, most {C_{1}} intervals go to generate E_{1}, and E_{2} is comprised of mainly {C_{1}C_{2}} intervals (Figs. 4 and 6). In contrast, when *t*_{C2} << *t*_{C1}, most of the {C_{1}} intervals are used to fill in the gap between the {C_{1}C_{2}} distribution and E_{2}, so there are few intervals available to generate E_{1} (Figs. 5 and 6), and this is the case over six orders of magnitude change in the transition probability ratio of P_{C1-O}/P_{C1-C2} (Fig. 6, D–F). E_{1} has a very small amplitude and very fast time constant when *t*_{C2} << *t*_{C1} because essentially all the {C_{1}} intervals go to complete the E_{2} exponential at shorter times so that there are few {C_{1}} intervals left to generate E_{1} (Fig. 5, C and D; Fig. 6, D–F). Such a change in E_{1} can have severe consequences on the interpretation of experimental data, as discussed in the following section.

### Difficulty in Detecting Briefer Lifetime Closed States Separated From Open States By Longer Lifetime Closed States

Whereas it is relatively easy to detect slow exponential components of very small areas because of the high likelihood penalties that result if intervals of longer duration are not included in an exponential component (McManus and Magleby, 1988), it is much more difficult to detect fast exponential components of small area superimposed on slower components. For example, when *t*_{C2} is fivefold less than *t*_{C1} in Scheme 2, E_{1} has a time constant of 0.18 ms and area of 0.01 (Fig. 5, Table III for *k*_{C2-C1} of 5,000/s). It is unlikely that such a fast component with only 1% of the area would be detected in experimental data, leading to an incorrect conclusion of a single closed state with a lifetime of 2.22 ms, rather than two closed states with lifetimes of 1 ms (C_{1}) and 0.2 ms (C_{2}). It would be even more difficult to detect components arising from briefer duration closed states if there were additional intervening closed states before the open state, as is likely to be the case for data from real channels. Obtaining experimental data over a wide range of conditions that could lead to large changes in state lifetimes, together with simultaneous fitting of the data to gating mechanisms rather than with components could facilitate the detection of states.

### Extension to More Complex Gating Mechanisms

The studies in this paper were performed for simple gating mechanisms and for data with perfect time resolution. With limited time resolution, brief duration intervals can go undetected, leading to the formation of compound states that include both open and closed states (Blatz and Magleby, 1986; Hawkes et al., 1992; Colquhoun and Hawkes, 1995b). Such compound states would need to be included when relating exponential components to states. Calculating the fractional change in exponential components for fractional changes in state lifetimes provides a method to examine the linkage between components and states (Eq. 11) for simple as well as highly complex models and also when time resolution is limited.

Understanding the relationship between components and states provides investigators with a physical interpretation for the exponential components in distributions of open and closed dwell times from single channels.

## Appendix

This section presents the analytical solution for the dwell-time distribution of closed intervals for Scheme 2 following Colquhoun and Hawkes (1981, 1982, 1994). The three rate constants that determine the distribution of closed intervals are designated as:

The distribution of all closed intervals, *f*(*t*), is given by the probability density function described by the sum of two exponential components:

where *w*_{1} and *w*_{2} are the magnitudes of the fast E_{1} and slow E_{2} exponential components, and τ_{E1} and τ_{E2} are the time constants. The time constants, magnitudes, and areas (*a*) of the exponential components are given by:

From the analytical solution it can be seen that the time constants, magnitudes, and areas of both E_{1} and E_{2} are determined by all of the rate constants that affect the lifetimes of both closed states. The relationship between components and states is not readily apparent from these equations, and see also Colquhoun and Hawkes (1981), Magleby and Pallotta (1983), and Jackson (1997) for analytical solutions of more complex gating mechanisms.

It can be shown by numerical substitution into Eq. A2 (or by setting *k*_{+1} to 0) that when *k*_{+1} << (*β* + *k*_{-1})_{,} i.e., when *t*_{C2} >> *t*_{C1}, that

indicating that τ_{E1} approaches *t*_{C1} when the *t*_{C2}/*t*_{C1} ratio is >>1, as shown in the Results, and see Colquhoun and Hawkes (1994) for an alternative means to express limits for τ_{E1}.

It can also be shown by numerical substitution into Eq. A2 (or by setting *k*_{-1} and β to 0) that when *k*_{+1} >> (β + *k*_{-1}), i.e., when *t*_{C2} << *t*_{C1}, that

indicating that τ_{E1} approaches *t*_{C2} when the *t*_{C2} << *t*_{C1} ratio is <<1, as shown in the Results.

© 2008 Shelley and Magleby This article is distributed under the terms of an Attribution–Noncommercial–Share Alike–No Mirror Sites license for the first six months after the publication date (see http://www.jgp.org/misc/terms.shtml). After six months it is available under a Creative Commons License (Attribution–Noncommercial–Share Alike 3.0 Unported license, as described at http://creativecommons.org/licenses/by-nc-sa/3.0/).

## Acknowledgments

This work was supported in part by Lois Pope LIFE and American Heart Association, Puerto Rico/Florida Affiliate, Postdoctoral Fellowships to C. Shelley, and grants from the National Institutes of Health (AR32805) and the Muscular Dystrophy Associate to K.L. Magleby.

Olaf S. Andersen served as editor.