scholarly journals Large Peptide Permeation Through a Membrane Channel: Understanding Protamine Translocation Through CymA from Klebsiella Oxytoca

2020 ◽  
Author(s):  
Sushil Pangeni ◽  
Jigneshkumar Dahyabhai Prajapati ◽  
Jayesh Arun Bafna ◽  
Nilam Mohamed ◽  
Werner M. Nau ◽  
...  
Keyword(s):  
Lipid Bilayers ◽  
Klebsiella Oxytoca ◽  
Limiting Factor ◽  
Membrane Channel ◽  
Voltage Dependent ◽  
Dynamics Simulations ◽  
Rate Limiting ◽  
Kinetics Of ◽  
Zero Voltage ◽  
Large Peptide

Quantifying the passage of the large peptide protamine (Ptm) across CymA, a passive channel for cyclodextrin uptake, is in the focus of this study. Using a reporter-pair based fluorescence membrane assay we detected the entry of Ptm into liposomes containing CymA. The kinetics of the Ptm entry was independent of its concentration suggesting that the permeation across CymA is the rate-limiting factor. Furthermore, we reconstituted single CymA channels into planar lipid bilayers and recorded the ion current fluctuations in the presence of Ptm. To this end, we were able to resolve the voltage-dependent entry of single Ptm peptide molecules into the channel. Extrapolation to zero voltage revealed about 1-2 events per second and long dwell times, in agreement with the liposome study. Applied-field and steered molecular dynamics simulations provided an atomistic view on the permeation. It can be concluded that a concentration gradient of 1 M Ptm leads to a translocation rate of about 1 molecule per second and per channel.

scholarly journals Large Peptide Permeation Through a Membrane Channel: Understanding Protamine Translocation Through CymA from Klebsiella Oxytoca

2020 ◽  
Author(s):  
Sushil Pangeni ◽  
Jigneshkumar Dahyabhai Prajapati ◽  
Jayesh Arun Bafna ◽  
Nilam Mohamed ◽  
Werner M. Nau ◽  
...  
Keyword(s):  
Lipid Bilayers ◽  
Klebsiella Oxytoca ◽  
Limiting Factor ◽  
Membrane Channel ◽  
Voltage Dependent ◽  
Dynamics Simulations ◽  
Rate Limiting ◽  
Kinetics Of ◽  
Zero Voltage ◽  
Large Peptide

Quantifying the passage of the large peptide protamine (Ptm) across CymA, a passive channel for cyclodextrin uptake, is in the focus of this study. Using a reporter-pair based fluorescence membrane assay we detected the entry of Ptm into liposomes containing CymA. The kinetics of the Ptm entry was independent of its concentration suggesting that the permeation across CymA is the rate-limiting factor. Furthermore, we reconstituted single CymA channels into planar lipid bilayers and recorded the ion current fluctuations in the presence of Ptm. To this end, we were able to resolve the voltage-dependent entry of single Ptm peptide molecules into the channel. Extrapolation to zero voltage revealed about 1-2 events per second and long dwell times, in agreement with the liposome study. Applied-field and steered molecular dynamics simulations provided an atomistic view on the permeation. It can be concluded that a concentration gradient of 1 M Ptm leads to a translocation rate of about 1 molecule per second and per channel.

scholarly journals Structure–Function Relations of the First and Fourth Predicted Extracellular Linkers of the Type IIa Na+/Pi Cotransporter

2004 ◽  
Vol 124 (5) ◽  
pp. 475-488 ◽  
Author(s):  
Colin Ehnes ◽  
Ian C. Forster ◽  
Katja Kohler ◽  
Andrea Bacconi ◽  
Gerti Stange ◽  
...  
Keyword(s):  
Conformational Changes ◽  
Reaction Rates ◽  
Transport Pathway ◽  
Extracellular Medium ◽  
Voltage Range ◽  
Substituted Cysteine Accessibility ◽  
Voltage Dependent ◽  
Opposite Behavior ◽  
Rate Limiting ◽  
Kinetics Of

The putative first intracellular and third extracellular linkers are known to play important roles in defining the transport properties of the type IIa Na+-coupled phosphate cotransporter (Kohler, K., I.C. Forster, G. Stange, J. Biber, and H. Murer. 2002b. J. Gen. Physiol. 120:693–705). To investigate whether other stretches that link predicted transmembrane domains are also involved, the substituted cysteine accessibility method (SCAM) was applied to sites in the predicted first and fourth extracellular linkers (ECL-1 and ECL-4). Mutants based on the wild-type (WT) backbone, with substituted novel cysteines, were expressed in Xenopus oocytes, and their function was assayed by isotope uptake and electrophysiology. Functionally important sites were identified in both linkers by exposing cells to membrane permeant and impermeant methanethiosulfonate (MTS) reagents. The cysteine modification reaction rates for sites in ECL-1 were faster than those in ECL-4, which suggested that the latter were less accessible from the extracellular medium. Generally, a finite cotransport activity remained at the end of the modification reaction. The change in activity was due to altered voltage-dependent kinetics of the Pi-dependent current. For example, cys substitution at Gly-134 in ECL-1 resulted in rate-limiting, voltage-independent cotransport activity for V ≤ −80 mV, whereas the WT exhibited a linear voltage dependency. After cys modification, this mutant displayed a supralinear voltage dependency in the same voltage range. The opposite behavior was documented for cys substitution at Met-533 in ECL-4. Modification of cysteines at two other sites in ECL-1 (Ile-136 and Phe-137) also resulted in supralinear voltage dependencies for hyperpolarizing potentials. Taken together, these findings suggest that ECL-1 and ECL-4 may not directly form part of the transport pathway, but specific sites in these linkers can interact directly or indirectly with parts of NaPi-IIa that undergo voltage-dependent conformational changes and thereby influence the voltage dependency of cotransport.

scholarly journals Dependence upon Bile Volume of the Biliary Excretion of Bromocresol Green and Amaranth in the Anaesthetized Rat

1975 ◽  
Vol 28 (4) ◽  
pp. 339 ◽  
Author(s):  
Alan G Clark ◽  
KarI M Rogers
Keyword(s):  
Biliary Excretion ◽  
Biliary Tree ◽  
Bulk Flow ◽  
Rate Equations ◽  
Bromocresol Green ◽  
Limiting Factor ◽  
Cumulative Volume ◽  
Rate Limiting ◽  
Kinetics Of ◽  
Anaesthetized Rat

The kinetics of the biliary excretion of both bromocresol green and amaranth are better described in terms of rate equations that are functions of the cumulative volume of bile excreted rather than of time. The rate of disappearance of bromocresol green from the liver also appears to depend on the volume of bile excreted rather than on time. It is proposed that bromocresol green, and probably also amaranth, rapidly equilibrates between the hepatic and biliary compartments as a result of reabsorption from the biliary tree and that the rate-limiting factor in the biliary excretion of these dyes is the removal of dye from the biliary tree by bulk flow.

scholarly journals Coupling of voltage-dependent gating and Ba++ block in the high-conductance, Ca++-activated K+ channel.

1987 ◽  
Vol 90 (3) ◽  
pp. 427-449 ◽  
Author(s):  
C Miller ◽  
R Latorre ◽  
I Reisin
Keyword(s):  
Lipid Bilayers ◽  
Dissociation Rate ◽  
K Channel ◽  
Single Channels ◽  
Closed Channel ◽  
Association Rate ◽  
Conduction Pathway ◽  
Voltage Dependent ◽  
Kinetics Of ◽  
High Conductance

Voltage-dependent Ca++-activated K+ channels from rat skeletal muscle were reconstituted into planar lipid bilayers, and the kinetics of block of single channels by Ba++ were studied. The Ba++ association rate varies linearly with the probability of the channel being open, while the dissociation rate follows a rectangular hyperbolic relationship with open-state probability. Ba ions can be occluded within the channel by closing the channel with a strongly hyperpolarizing voltage applied during a Ba++-blocked interval. Occluded Ba ions cannot dissociate from the blocking site until after the channel opens. The ability of the closed channel to occlude Ba++ is used as an assay to study the channel's gating equilibrium in the blocked state. The blocked channel opens and closes in a voltage-dependent process similar to that of the unblocked channel. The presence of a Ba ion destabilizes the closed state of the blocked channel, however, by 1.5 kcal/mol. The results confirm that Ba ions block this channel by binding in the K+-conduction pathway. They further show that the blocking site is inaccessible to Ba++ from both the cytoplasmic and external solutions when the channel is closed.

scholarly journals Kinetics of the Opening and Closing of Individual Excitability-Inducing Material Channels in a Lipid Bilayer

1974 ◽  
Vol 63 (6) ◽  
pp. 707-721 ◽  
Author(s):  
Gerald Ehrenstein ◽  
Robert Blumenthal ◽  
Ramon Latorre ◽  
Harold Lecar
Keyword(s):  
Lipid Bilayers ◽  
Ionic Current ◽  
Energy Difference ◽  
Excitable Membranes ◽  
Voltage Dependent ◽  
Ion Conducting ◽  
The Many ◽  
Approach To Steady State ◽  
Opening And Closing ◽  
Kinetics Of

The kinetics of the opening and closing of individual ion-conducting channels in lipid bilayers doped with small amounts of excitability-inducing material (EIM) are determined from discrete fluctuations in ionic current. The kinetics for the approach to steady-state conductance during voltage clamp are determined for lipid bilayers containing many EIM channels. The two sets of measurements are found to be consistent, verifying that the voltage-dependent conductance of the many-channel EIM system arises from the opening and closing of individual EIM channels. The opening and closing of the channels are Poisson processes. Transition rates for these processes vary exponentially with applied potential, implying that the energy difference between the open and closed states of an EIM channel is linearly proportional to the transmembrane electric field. A model incorporating the above properties of the EIM channels predicts the observed voltage dependence of ionic conductance and conductance relaxation time, which are also characteristic of natural electrically excitable membranes.

scholarly journals Mechanism of gating of T-type calcium channels.

1990 ◽  
Vol 96 (3) ◽  
pp. 603-630 ◽  
Author(s):  
C F Chen ◽  
P Hess
Keyword(s):  
Single Channel ◽  
Ca Channels ◽  
3T3 Fibroblasts ◽  
Channel Inactivation ◽  
Recovery From Inactivation ◽  
Voltage Dependent ◽  
Single Burst ◽  
Opening And Closing ◽  
Rate Limiting ◽  
Kinetics Of

We have analyzed the gating kinetics of T-type Ca channels in 3T3 fibroblasts. Our results show that channel closing, inactivation, and recovery from inactivation each include a voltage-independent step which becomes rate limiting at extreme potentials. The data require a cyclic model with a minimum of two closed, one open, and two inactivated states. Such a model can produce good fits to our data even if the transitions between closed states are the only voltage-dependent steps in the activating pathway leading from closed to inactivated states. Our analysis suggests that the channel inactivation step, as well as the direct opening and closing transitions, are not intrinsically voltage sensitive. Single-channel recordings are consistent with this scheme. As expected, each channel produces a single burst per opening and then inactivates. Comparison of the kinetics of T-type Ca current in fibroblasts and neuronal cells reveals significant differences which suggest that different subtypes of T-type Ca channels are expressed differentially in a tissue specific manner.

scholarly journals Voltage-dependent inactivation of T-tubular skeletal calcium channels in planar lipid bilayers.

1991 ◽  
Vol 97 (2) ◽  
pp. 393-412 ◽  
Author(s):  
R Mejía-Alvarez ◽  
M Fill ◽  
E Stefani
Keyword(s):  
Calcium Channels ◽  
Lipid Bilayers ◽  
Single Channel ◽  
Channel Activity ◽  
T Tube ◽  
Dependent Inactivation ◽  
Voltage Dependent ◽  
Single Channel Activity ◽  
Kinetics Of ◽  
Channel Properties

Single-channel properties of dihydropyridine (DHP)-sensitive calcium channels isolated from transverse tubular (T-tube) membrane of skeletal muscle were explored. Single-channel activity was recorded in planar lipid bilayers after fusion of highly purified rabbit T-tube microsomes. Two populations of DHP-sensitive calcium channels were identified. One type of channel (noninactivating) was active (2 microM +/- Bay K 8644) at steady-state membrane potentials and has been studied in other laboratories. The second type of channel (inactivating) was transiently activated during voltage pulses and had a very low open probability (Po) at steady-state membrane potentials. Inactivating channel activity was observed in 47.3% of the experiments (n = 84 bilayers). The nonstationary kinetics of this channel was determined using a standard voltage pulse (HP = -50 mV, pulse to 0 mV). The time constant (tau) of channel activation was 23 ms. During the mV). The time constant (tau) of channel activation was 23 ms. During the pulse, channel activity decayed (inactivated) with a tau of 3.7 s. Noninactivating single-channel activity was well described by a model with two open and two closed states. Inactivating channel activity was described by the same model with the addition of an inactivated state as proposed for cardiac muscle. The single-channel properties were compared with the kinetics of DHP-sensitive inward calcium currents (ICa) measured at the cellular level. Our results support the hypothesis that voltage-dependent inactivation of single DHP-sensitive channels contributes to the decay of ICa.

Kinetics of the sarcolemmal lactate carrier in single heart cells using BCECF to measure pHi

1994 ◽  
Vol 267 (5) ◽  
pp. H1759-H1769 ◽  
Author(s):  
X. Wang ◽  
A. J. Levi ◽  
A. P. Halestrap
Keyword(s):  
Guinea Pig ◽  
Specific Inhibitor ◽  
Limiting Factor ◽  
Heart Cells ◽  
Michaelis Constant ◽  
Hypoxic Conditions ◽  
Rapid Fall ◽  
Rat Myocytes ◽  
Rate Limiting ◽  
Kinetics Of

The pH-sensitive fluorescent indicator 2',7'-bis(carboxyethyl)-5(6)-carboxyfluorescein (BCECF) was used to measure lactate transport in single cardiac myocytes. Addition of lactate externally caused a rapid fall of intracellular pH (pHi), which was largely inhibited by 5 mM alpha-cyano-4-hydroxycinnamate (CHC), a specific inhibitor of the lactate carrier. Stilbene disulfonates such as 4,4'-dibenzamidostilbene-2,2'-disulfonate (DBDS) only partially inhibited the response, with inhibition being greater in guinea pig than rat myocytes. The data are consistent with two isoforms of the lactate carrier, one sensitive and one insensitive to DBDS, coexisting within a single myocyte and both having a stoichiometry of 1 lactate:1 proton. The initial rate of pHi fall was used to determine carrier kinetics. Rat myocytes had a Michaelis constant (Km) for external L-lactate of 2.74 mM and a Km for external pyruvate of 0.2 mM. Guinea pig cells had a Km for external L-lactate of 2.2 mM. Kinetics of lactate efflux were also evaluated using the rate of pHi recovery on removing external lactate. The Km and maximal rate values for efflux were both threefold higher than for influx and were related to each other and the transmembrane pH gradient as predicted by the Haldane relationship. It is suggested that under hypoxic conditions, the carrier may be the rate-limiting factor for lactate extrusion.

scholarly journals Some kinetic and steady-state properties of sodium channels after removal of inactivation.

1981 ◽  
Vol 77 (1) ◽  
pp. 1-22 ◽  
Author(s):  
G S Oxford
Keyword(s):  
Steady State ◽  
Activation Kinetics ◽  
Turn On ◽  
Rate Limiting Step ◽  
Limiting Step ◽  
Voltage Dependent ◽  
Rate Limiting ◽  
Kinetics Of ◽  
Secondary Activation ◽  
Pronase Treatment

To study the kinetic and steady-state properties of voltage-dependent sodium conductance activation, squid giant axons were perfused internally with either pronase or N-bromoacetamide and voltage clamped. Parameters of activation, tau m and gNa(V), and deactivation, tau Na, were measured and compared with those obtained from control axons under the assumption that gNa oc m3h of the Hodgkin-Huxley scheme. tau m(V) values obtained from the turn-on of INa agree well with control axons and previous determinations by others. tau Na(V) values derived from Na tail currents were also unchanged by pronase treatment and matched fairly well previously published values. tau m(V) obtained from 3 x tau Na(V) were much larger than tau m(V) obtained from INa turn-on at the same potentials, resulting in a discontinuous distribution. Steady-state In (gNa/gNa max - gNa) vs. voltage was not linear and had a limiting logarithmic slope of 5.3 mV/e-fold gNa. Voltage step procedures that induce a second turn-on of INa during various stages of the deactivation (Na tail current) process reveal quasiexponential activation at early stages that becomes increasingly sigmoid as deactivation progresses. For moderate depolarizations, primary and secondary activation kinetics are superimposable. These data suggest that, although m3 can describe the shape of INa turn-on, it cannot quantitatively account for the kinetics of gNa after repolarization. Kinetic schemes for gNa in which substantial deactivation occurs by a unique pathway between conducting and resting states are shown to be unlikely. It appears that the rate-limiting step in linear kinetic models of activation may be between a terminal conducting state and the adjacent nonconducting intermediate.

Hydrolysis kinetics of dissolved polymer substrates

2002 ◽  
Vol 45 (10) ◽  
pp. 99-104 ◽  
Author(s):  
W.T.M. Sanders ◽  
G. Zeeman ◽  
G. Lettinga
Keyword(s):  
Enzyme Activity ◽  
Laboratory Experiments ◽  
Hydrolysis Rate ◽  
Limiting Factor ◽  
Hydrolysis Kinetics ◽  
Parent Molecule ◽  
Polymer Substrates ◽  
Rate Limiting ◽  
Kinetics Of ◽  
Hydrolysis Of

In this paper, the relation between the hydrolysis rate of dissolved polymer substrates and sludge concentration was investigated in two ways, viz. by laboratory experiments and by computer simulations. In the simulations, the hydrolysis of dissolved polymer components was regarded as a general depolymerisation process in which the bonds of the parent molecule break randomly until only monomer and dimer components remain. The results illustrate that for the hydrolysis of dissolved polymer substrates the enzyme activity is the rate-limiting factor. Moreover, a general depolymerisation process can describe the enzymatic hydrolysis of these components.

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