Multi-ion Occupancy Research Articles

Modeling the light-induced electric potential difference ΔΨ across the thylakoid membrane based on the transition state rate theory

In photosynthesis, electron transport-coupled proton movement initiates the formation of the light-induced electric potential difference, ΔΨ, across the thylakoid membrane (TM). Ions are transported across the TM to counterbalance the charge of protons accumulated in the lumen. The objective of this work is to construct range of mathematical models for simulation of ΔΨ, using the transition state rate theory (TSRT) for description of movement of ions through the channels. The TSRT considers either single-ion (TSRT-SI) or multi-ion occupancy (TSRT-MI) in the channels. Movement of ions through the channel pore is described by means of energy barriers and binding sites; ions move in and out of vacant sites with rate constants that depend on the barrier heights and well depths, as well as on the interionic repulsion in TSRT-MI model. Three energy motifs are used to describe the TSRT-SI model: two-barrier one-site (2B1S), three-barrier two-site (3B2S), and four-barrier three-site (4B3S). The 3B2S energy motif is used for the TSRT-MI model. The accumulation of cations due to the TM surface negative fixed charges is also taken into account. A model employing the electro-diffusion theory instead of the TSRT is constructed for comparison. The dual wavelength transmittance signal (ΔA515-560nm) measuring the electrochromic shift (ECS) provides a proxy for experimental light-induced ΔΨ. The simulated ΔΨ traces qualitatively agree with the measured ECS traces. The models can simulate different channel conducting regimes and assess their impact on ΔΨ. The ionic flux coupling in the TSRT-MI model suggests that an increase in the internal or external K+ concentration may block the outward or the inward Mg2+ current, respectively.

Assessing CLC-2 Chloride Channel Voltage Gating by Pore Occupation with Acetate

The activation of the homodimeric ClC-2 Cl- channel is voltage dependent. Protopore gates control each of the two pores of the ClC-2 channel. The closed to open transition is initiated by dislodging the negatively charged side chain of a glutamate residue, which constitute the protopore gate located inside the pore. We hypothesize that this gating transition is triggered when intracellular anions occupy the pore. Thus, we investigated channel activation using acetate, a low permeant anion (Pace/PCl = 0.04) that does not traverse the pore. The cells were bathed in a solution containing 140 mM Cl- (pH 7.3) and channel activation was evaluated by measuring the tail current at +80 mV after application of test pulses from +40 to −200 mV. When cells were dialyzed with 140 mM acetate there was no activation, perhaps because acetate failed to occupy the pore. To verify this we compared the Vm-dependent activation of ClC-2 in cells dialyzed with acetate + Cl- (80 + 60 mM) versus Cl- alone (60 mM). These experiments showed that channel activation was shifted by +60 mV in cells dialyzed with the acetate + Cl- mixture relative to that obtained with 60 mM Cl-. Next the charge of the acetate was neutralized by lowering the pHi from 7.3 to 4.2. Since this manipulation ablated the positive shift in activation observed with the mixture we concluded that activation was mediated by multi-ion occupancy. Our data were reproduced by a pore model containing two anion binding sites. Thus, we propose that after a hyperpolarization the intracellular anions occupy the pore and force the gate open to allow anion permeation. Supported by grant 219949 from CONACyT.

Bases of Sodium Channel Selectivity Among Organic Cations

Hille's (1971) seminal study of the organic cation selectivity of voltage-gated sodium channels, showed a striking, sharp size cut-off for ion permeation. No ion species with an aliphatic moiety having at least the diameter of a methyl group was measurably permeant. Here, we show that, despite similar alkali cation permeability sequences for pro- and eu-karyotic channels (Finol-Urdaneta et al 2014 J Gen Physiol), relative permeabilities among organic ions (ammonium, hydrazinium, guanidinium and tetramethylammonium) are different. Using molecular dynamics simulations, we have asked to what extent 1d-pmfs based on the NavAb crystal structure might suggest a basis for NavBac selectivity among organic ions. Unlike eukaryotic channels, NavBac permeabilities do not show a size cut-off based on minimal cross-section, but are correlated with apparent binding energies in 1-dimensional potentials of mean force from simulations of single ions moving through the channel. In contrast, earlier analyses for eukaryotic Nav1s, suggest that differences among ion entry barriers are sufficient to account for relative permeabilities (Hille 1975 J Gen Physiol). We surmise that multi-ion occupancy and structural flexibility of Bac-Navs may also contribute to the observed and simulated functional differences. Meanwhile, we examined the consistency of our PMFs based on Zhu and Hummer's paper (Zhu & Hummer, 2011 J Comput Chem). The results indicate that it needs at least 10ns for particular windows to get accurate PMFs even for small molecules like ammonium.

Nonindependent K+ movement through the pore in IRK1 potassium channels.

We measured unidirectional K+ in- and efflux through an inward rectifier K channel (IRK1) expressed in Xenopus oocytes. The ratio of these unidirectional fluxes differed significantly from expectations based on independent ion movement. In an extracellular solution with a K+ concentration of 25 mM, the data were described by a Ussing flux-ratio exponent, n', of approximately 2.2 and was constant over a voltage range from -50 to -25 mV. This result indicates that the pore of IRK1 channels may be simultaneously occupied by at least three ions. The IRK1 n' value of 2.2 is significantly smaller than the value of 3.5 obtained for Shaker K channels under identical conditions. To determine if other permeation properties that reflect multi-ion behavior differed between these two channel types, we measured the conductance (at 0 mV) of single IRK1 channels as a function of symmetrical K+ concentration. The conductance could be fit by a saturating hyperbola with a half-saturation K+ activity of 40 mM, substantially less than the reported value of 300 mM for Shaker K channels. We investigated the ability of simple permeation models based on absolute reaction rate theory to simulate IRK1 current-voltage, conductance, and flux-ratio data. Certain classes of four-barrier, three-site permeation models are inconsistent with the data, but models with high lateral barriers and a deep central well were able to account for the flux-ratio and single channel data. We conclude that while the pore in IRK1 and Shaker channels share important similarities, including K+ selectivity and multi-ion occupancy, they differ in other properties, including the sensitivity of pore conductance to K+ concentration, and may differ in the number of K+ ions that can simultaneously occupy the pore: IRK1 channels may contain three ions, but the pore in Shaker channels can accommodate four or more ions.

Using Theory and Simulation to Understand Permeation and Selectivity in Ion Channels

It is clear that the function of ion channels must flow from their structure. With recent advances in computational power and methodology, it appears feasible to correlate structure to ion channel permeation at an atomistically detailed level of description. The overall strategy is to structure the calculations in a hierarchy, ranging from coarse-grained thermodynamic and kinetic descriptions to fine-grained molecular dynamics descriptions with atomic detail. Each level of description is connected to the others by appropriate statistical mechanical theory. The coarse-grained descriptions can be correlated directly with electrophysiological experiment. The fine-grained descriptions are used to parameterize the coarse-grained descriptions and to describe the permeation process at the most detailed level. This strategy has so far had varying degrees of success. It has successfully described water permeation through lipid bilayers and gramicidin channels. It has revealed the essential events of ion permeation through gramicidin channels at an atomistically detailed level. The role of channel protein motions in permeation has been elucidated. However, it appears that force fields used to describe molecular dynamics must be refined further to achieve completely accurate predictions of the permeation of such small ions as sodium. Channels with more complex structure and more multiion occupancy than gramicidin pose major computational challenges with respect to sampling protein conformations and ion distributions involved in the permeation process. Possible approaches to meeting these challenges are discussed.

8] Substituted-cysteine accessibility method

Publisher Summary The functional properties of ion channels, such as gating, ion selectivity, single-channel conductance, multi-ion occupancy, transient blocking, desensitization, and inactivation, have been extensively studied by eleclrophysiologic techniques. The molecular bases for these functions are being gradually revealed by protein chemical methods, by genetic manipulation, and by direct structural determinations. This chapter describes an approach to channels that combines chemical and genetic approaches. The substituted-cysteine accessibility method (SCAM) can be used to identify all of the residues that line a channel, to size the channel, to determine differences in the structures of the channel in different functional states, to locate the gates and selectivity filters, and to map the electrostatic potential profile in the channel. It describes the synthesis and properties of some thiosulfonate derivatives, and it also describes applications of SCAM to ion channels, to transport proteins, and to the membrane-embedded binding sites of G-protein-coupled receptors.

Single channel seeks permeant ion for brief but intimate relationship.

Single channel seeks permeant ion for brief but intimate relationship.

Ionic channels of the sugar beet tonoplast are regulated by a multi-ion single-file permeation mechanism.

Ionic channels of the sugar beet tonoplast were studied using the patch-clamp technique. At micromolar concentrations of cytosolic calcium, several (at least four) distinct single-channel current levels were routinely identified. On the basis of channel voltage dependence, kinetic properties and conductance of single openings, the largest channel (103 +/- 2 pS in symmetric 150 mm KCl) corresponds to the slow vacuolar (SV) channel already identified by Hedrich and Neher (1987). The majority of the whole-vacuole current was ascribed to this time-dependent slow-activating channel elicited by positive vacuolar potentials. The channel of intermediate amplitude (41 +/- 1 pS in 150 mM KCl) did not show any voltage dependence and delay in the activation upon the application of voltage steps to both positive and negative transmembrane potentials. Owing to its voltage independence this channel was denominated FV1. The opening probability of the SV-type channel increased by increasing the cytoplasmic calcium concentration, while the activity of the FV1 channel did not increase appreciably by changing the calcium concentration in the range from 6 microM to 1 mM. All the channels identified showed a linear current-voltage characteristic in the range +/-100 mV and at least the three most conductive ones displayed potassium selectivity properties. Substitution of potassium with tetramethylammonium (TMA) on the cytosolic side demonstrated that both the SV and FV1 channels are impermeable to TMA influx into the vacuole and support the potassium selectivity properties of these two channels. Moreover, the single channel conductances of all the channels identified increased as a function of the potassium concentration and reached a maximum conductivity at [K+] approximately 0.5 M. This behavior can be explained by a multi-ion occupancy single-file permeation mechanism.

Kinetics of permeation and gating in membrane channels

A multiphase system in which a thin membrane separates two ionic phases possesses special properties which are difficult, if not impossible, to observe in homogeneous phases. The bulk of these properties for biological systems are generated by special protein channels which span the membrane. These channels can respond to a change in transmembrane potential with a conformational change which produces an ion-selective, conducting channel between the two solution phases. Knowledge of the primary protein channel structure, determined by using DNA sequencing techniques, has generated models for the tertiary structure of this protein in a bilayer membrane. This information, in turn, has stimulated fresh interest in developing consistent physical mechanisms for ion permeation and selectivity in conducting channels, anomalous permeation of ions produced by binding or multi-ion occupancy, the motions of charged protein groups or regions responsible for gating the channel from a closed to an open, conducting conformatation, and the development of consistent kinetic mechanisms for both ion permeation and protein channel conformational changes. New experimental and theoretical approaches to clarify the nature of these mechanisms are reviewed.

Probing of pore in the Chara gymnophylla K + channel by blocking cations and by streaming potential measurements

The current—voltage (I–V) relationship of single K + channels present in the Chara gymnophylla droplet membrane was studied. The channel presumably contains large mouths at both pore ends which are sufficiently wide to accomodate TEA + as evidenced by internal and external TEA + blockade. The voltage dependence of blockade by external Cs + and Na + reveals the multi-ion occupancy of the channel. The value of streaming potential (4.0 mV/osmol) measured in the Chara K + channel indicates that the channel contains up to nine water molecules in the narrow region. It is concluded that the length of this region is around 28 Å.

Multi-ion occupancy alters gating in high-conductance, Ca(2+)-activated K+ channels.

In this study, single-channel recordings of high-conductance Ca(2+)-activated K+ channels from rat skeletal muscle inserted into planar lipid bilayer were used to analyze the effects of two ionic blockers, Ba2+ and Na+, on the channel's gating reactions. The gating equilibrium of the Ba(2+)-blocked channel was investigated through the kinetics of the discrete blockade induced by Ba2+ ions. Gating properties of Na(+)-blocked channels could be directly characterized due to the very high rates of Na+ blocking/unblocking reactions. While in the presence of K+ (5 mM) in the external solution Ba2+ is known to stabilize the open state of the blocked channel (Miller, C., R. Latorre, and I. Reisin. 1987. J. Gen. Physiol. 90:427-449), we show that the divalent blocker stabilizes the closed-blocked state if permeant ions are removed from the external solution (K+ less than 10 microM). Ionic substitutions in the outer solution induce changes in the gating equilibrium of the Ba(2+)-blocked channel that are tightly correlated to the inhibition of Ba2+ dissociation by external monovalent cations. In permeant ion-free external solutions, blockade of the channel by internal Na+ induces a shift (around 15 mV) in the open probability--voltage curve toward more depolarized potentials, indicating that Na+ induces a stabilization of the closed-blocked state, as does Ba2+ under the same conditions. A kinetic analysis of the Na(+)-blocked channel indicates that the closed-blocked state is favored mainly by a decrease in opening rate. Addition of 1 mM external K+ completely inhibits the shift in the activation curve without affecting the Na(+)-induced reduction in the apparent single-channel amplitude. The results suggest that in the absence of external permeant ions internal blockers regulate the permeant ion occupancy of a site near the outer end of the channel. Occupancy of this site appears to modulate gating primarily by speeding the rate of channel opening.

Monovalent selectivity of the cyclic guanosine monophosphate-activated ion channel.

Monovalent cation selectivity has been characterized for the 3',5'-cyclic guanosine monophosphate (cGMP)-activated channel in vertebrate photoreceptor outer segment plasma membranes without divalent cations. Macroscopic currents in excised, inside-out patches were activated with saturating concentrations of cGMP (200 microM). Using a bi-ionic protocol with symmetrical 120 mM ion concentrations across the membrane, alkali metal ions and certain organic cations were substituted for sodium on the cytoplasmic face. The relative permeabilities, determined from shifts in the reversal potential (Erev), were NH4 much greater than Na greater than guanidinium greater than K greater than Li greater than Rb greater than Cs (3.34: 1.0: 0.97: 0.93: 0.92: 0.74: 0.50, respectively). Erev's were also measured as a function of [Na], [NH4], and [Cs], and the slope of the relation was -59.8, -52.1, and -49.1 mV/decade, respectively. The slopes for NH4 and Cs differ significantly from the Nernst-Planck prediction of -58.2 mV/decade expected for a single ion channel. Relative permeabilities were also determined for the alkali metal series of ions with 20 mM ionic concentrations on both sides of the membrane. The permeability sequence at 20 mM was unchanged, but the relative permeability for NH4 and Cs deviated significantly from the measurements at 120 mM with 1.46 and 0.75 ratios, respectively. The dependence of Erev on absolute concentrations and the deviation from Nernst-Planck predictions are best explained by multi-ion occupancy of the cGMP-activated channel. Selectivity was also examined by comparing the conductance ratios as a function of potential.(ABSTRACT TRUNCATED AT 250 WORDS)

Permeation in the dihydropyridine-sensitive calcium channel. Multi-ion occupancy but no anomalous mole-fraction effect between Ba2+ and Ca2+.

We investigated the mechanism whereby ions cross dihydropyridine-sensitive (L-type) Ca channels in guinea pig ventricular myocytes. At the single-channel level, we found no evidence of an anomalous mole-fraction effect like that reported previously for whole-cell currents in mixtures of Ba and Ca. With the total concentration of Ba + Ca kept constant at 10 (or 110) mM, neither conductance nor absolute unitary current exhibits a paradoxical decrease when Ba and Ca are mixed, thereby weakening the evidence for a multi-ion permeation scheme. We therefore sought independent evidence to support or reject the multi-ion nature of the L-type Ca channel by measuring conductance at various permeant ion concentrations. Contrary to the predictions of models with only one binding site in the permeation pathway, single-channel conductance does not follow Michaelis-Menten kinetics as Ba activity is increased over three orders of magnitude. Two-fold variation in the Debye length of permeant ion solutions has little effect on conductance, making it unlikely that local surface charge effects could account for these results. Instead, the marked deviation from Michaelis-Menten behavior was best explained by supposing that the permeation pathway contains three or more binding sites that can be occupied simultaneously. The presence of three sites helps explain both a continued rise in conductance as [Ba2+] is increased above 110 mM, and the high single-channel conductance (approximately 7 pS) with 1 mM [Ba2+] as the charge carrier; the latter feature enables the L-type channel to carry surprisingly large currents at physiological divalent cation concentrations. Thus, despite the absence of an anomalous mole-fraction effect between Ba and Ca, we suggest that the L-type Ca channel in heart cells supports ion flux by a single-file, multi-ion permeation mechanism.

Reconstitution of a calcium-activated potassium channel in basolateral membranes of rabbit colonocytes into planar lipid bilayers.

A highly enriched preparation of basolateral membrane vesicles was isolated from rabbit distal colon surface epithelial cells employing the method described by Wiener, Turnheim and van Os (Weiner, H., Turnheim, K., van Os, C.H. (1989) J. Membrane Biol. 110:147-162) and incorporated into planar lipid bilayers. With very few exceptions, the channel activity observed was that of a high conductance. Ca2+-activated K+ channel. This channel is highly selective for K+ over Na+ and Cl-, displays voltage-gating similar to "maxi" K(Ca) channels found in other cell membranes, and kinetic analyses are consistent with the notion that K+ diffusion through the channel involves either the binding of a single K+ ion to a site within the channel or "single-filing" ("multi-ion occupancy"). Channel activity is inhibited by the venom from the scorpion Leiurus quinquestriatus, Ba2+, quinine, and trifluoperazine. The possible role of this channel in the function of these cells is discussed.