ライフサイエンスコーパス: unbinding

1 protein folding/unfolding and ligand binding/unbinding).

2 binding to the 70S ribosome, rather than its unbinding.

3 ard tail currents are elicited upon spermine unbinding.

4 are based on the rates of ligand binding and unbinding.

5 attachment affected the rates of binding and unbinding.

6 n, plastic deformation is observed only with unbinding.

7 tional Mot1 in solution is necessary for TBP unbinding.

8 ents but with slower kinetics of binding and unbinding.

9 consistent with slower glutamate binding and unbinding.

10 by increasing the probability that following unbinding, a ligand will rebind as opposed to being lost

11 is highly dynamic, with kinesin binding and unbinding along the length of the microtubule as it is t

12 gimes: an adiabatic regime with fast binding/unbinding and a nonadiabatic regime with slow binding/un

13 with bulk solvent affect ligand binding and unbinding and also the catalytic properties.

14 requires local remodeling through crosslink unbinding and and/or filament disassembly.

15 rated fractures and self-healing, as well as unbinding and annihilation of oppositely charged disclin

16 ng that roadblock circumvention involves the unbinding and rebinding of the motors.

17 rk elasticity and force-induced cross-linker unbinding and rebinding.

18 both allosteric and direct catalysis of GDP unbinding and release and GTP binding.

19 al that these effects are due to slowed GABA unbinding and slowed recovery from desensitization.

20 ver, the mechanism and pathway(s) of CRN/GBB unbinding and translocation, or even the ability of the

21 model to compare the relative importance of unbinding and unfolding of actin cross-linking proteins

22 Intriguingly, further high-temperature unbinding and unfolding simulations in implicit and expl

23 state to the transition state for unfolding/unbinding and, hence, often related to the mechanical co

24 levant when transcription factor binding and unbinding are affected by epigenetic processes like DNA

25 The kinetics of binding and unbinding are evaluated by intermittent imaging and coun

26 ormational states and the nucleotide binding/unbinding are mainly thermally driven.

27 which structural changes induced by agonist unbinding are transmitted within the human alpha7 nAChR.

28 easure transition rates among states and for unbinding as a function of buffer ionic strength.

29 he model predicts a delayed inertial protein unbinding associated with the SNARE complex assembly imm

30 Mg(2+) unbinding at the divalent cation sensor triggers a confo

31 In agreement with experiment, the SMD unbinding barrier for SQ(-) is larger than for UQ.

32 The rate constants for binding and unbinding based on Piezo1 current kinetics provided asso

33 ominantly by an alternate pathway, where the unbinding becomes 20 times faster, and the sharp wetting

34 lts challenge conventional models of protein unbinding being unimolecular processes and independent o

35 e transport with fingerprints of a nanoscale unbinding/binding behavior.

36 reaction coordinate shows that disaccharide unbinding/binding presents no energetic barrier and, the

37 During unbinding, biotin crosses multiple energy barriers and v

38 ill not only shed first light on the role of unbinding but will also allow one to determine the time

39 shows significant peptide unfolding and some unbinding, but no insertion.

40 ck loop with time delays due to slow binding/unbinding can also generate oscillations.

41 A transition in which the effect of unbinding changes from inhibitory to excitatory as subst

42 through diffusion, binding and orientation, unbinding, chemical transformations, and spatial localiz

43 The facilitated unbinding component likely occurs via a ternary complex

44 The impeded unbinding component likely results from Zur oligomerizat

45 Significantly, Na(+) binding (and unbinding) consistently involves a transient binding to

46 Feature unbinding contributed significantly to sequential effect

47 ental and theoretical approach named binding-unbinding correlation spectroscopy (BUCS), we describe t

48 Moreover, after unbinding, CTCF quickly rebinds another cognate site unl

49 Analysis of the unbinding data revealed a most probable interaction forc

50 Single-molecule forced unbinding demonstrated KKO was 8-fold more reactive towa

51 rane can also be determined and the rates of unbinding determined from a histogram of residence times

52 e that this correction enables prediction of unbinding distances and dissociation rates that are deco

53 for sequence homology by rapidly binding and unbinding double-stranded DNA (dsDNA) until homology is

54 study paves the way to investigations on the unbinding dynamics of more complex p38 inhibitors and ot

55 lowly relax towards equilibrium owing to the unbinding dynamics of the crosslinking molecules.

56 blies to reveal and characterize binding and unbinding dynamics within such assemblies.

57 riable discretization or coarse graining and unbinding dynamics, and although general assumptions tha

58 f complex behaviors, possibly due to binding/unbinding dynamics, were observed.

59 Dynamic control of LH binding/unbinding, either globally or locally, in the presence o

60 tical model that incorporates enzyme binding/unbinding, electron transport, and enzyme diffusion alon

61 Allowing different unbinding energies not only has equilibrium effects on t

62 lapse to a universal curve regardless of the unbinding energies used or the identity of the dissociat

63 heir potentials of mean force and calculated unbinding energies.

64 e of a noncurvature energy contribution, the unbinding energy of the L(alpha) phase bilayers, g(u), t

65 The unbinding energy per bond was found to be on the order o

66 hibits slow dynamics that fit with a binding-unbinding equilibrium.

67 site, but not Na2, and, consistently, sodium unbinding/escape to the extracellular (EC) region first

68 were obtained by Poisson analysis of single unbinding event peaks, yielding values of -0.75 +/- 0.04

69 se timing sequence of stochastic binding and unbinding events allows one receptor to provide informat

70 physiological and experimental strain rates, unbinding events are predominant with negligible unfoldi

71 tochastic process of innumerable binding and unbinding events between antibodies and the multiple bin

72 simulations, we observed over 70 binding and unbinding events between the alpha-helical molecular rec

73 nitor individual ligand:receptor binding and unbinding events in space and time by single-molecule im

74 We showed that the collective frequency of unbinding events in WT-RBCs is not significantly differe

75 Single unbinding events observed at higher surface delays were

76 Further, the observation of sequential unbinding events strongly suggests a multivalent binding

77 that we can follow the series of binding and unbinding events that lead to the onset of active transp

78 Explore is able to observe millisecond-scale unbinding events using many nanosecond-scale trajectorie

79 s showed that the mean force of the specific unbinding events was 32 +/- 5 pN, and the hydrodynamic d

80 nteractions are weak and undergo binding and unbinding events, but together they form a stable comple

81 ite the highly dynamic nature of binding and unbinding events, under fast loading rates relevant to T

82 Unbinding follows the inverse sequence of events with th

83 tle is known on how cells can modulate their unbinding for regulation.

84 lysis the consequences of such force-induced unbinding for T cell recognition.

85 proteins on the RBC surface and measures the unbinding force between BCAM/Lu and LAMA5.

86 and SS-RBC membranes, as well as the median unbinding force between ICAM-4 and alphavbeta3.

87 However, the unbinding force between ICAM-4 and the corresponding lig

88 Additionally, at least 20% variation in unbinding force can be attributed to minute differences

89 dissociation events, disparities in measured unbinding force F(R) among these methods lead to marked

90 The maximum unbinding force for this interaction was approximately 1

91 erturb the energy landscape and the apparent unbinding force of the complex for sufficiently stiff fo

92 licitly includes the effect of k on apparent unbinding force of the ligand-receptor complex, and demo

93 ression of active BCAM/Lu receptors, a lower unbinding force to LAMA5, and insignificant stimulation

94 on cells, as measured by an increase in the unbinding force.

95 We show that the measured individual unbinding forces between ezrin and F-actin are independe

96 Unbinding forces between ligands and SGLT1 were recorded

97 Depending on the loading rates, the unbinding forces between TIM and ligands ranged from 40

98 g on the direction of force application, the unbinding forces can more than triple.

99 nd formation and dissociation under constant unbinding forces, mimicking the forces of physiologic bl

100 merize, and that the dynamics of binding and unbinding from beta-catenin, possibly coupled with lower

101 of current typically associated with blocker unbinding from ion channels.

102 ool of endophilin at synapses is provided by unbinding from the adjacent SV pool and that the unbindi

103 he allosteric site sterically hinders ligand unbinding from the central site, providing an explanatio

104 nce of structural events that couple agonist unbinding from the extracellular domain to ion-pore clos

105 lows the kinetics of calcium removal and IP3 unbinding from the receptor and is not limited by IP3 me

106 , and it reverses within seconds of arrestin unbinding from the transient binding mode.

107 remove the steric constraints on ligand, the unbinding happens predominantly by an alternate pathway,

108 rium steered MD simulations of the inhibitor unbinding have also been performed.

109 bited Vn to supported lipid bilayers, and to unbinding in freestanding lipid vesicles.

110 role of dynamic-linker histone (LH) binding/unbinding in high monovalent salt with divalent ions, an

111 d networks, a finding that also accounts for unbinding in structurally unrelated integrin-fibronectin

112 62 sidechain, which mimic sodium binding and unbinding in the Na(+)-coupled substrate symporters.

113 cules (such as switching between binding and unbinding) in the in vivo environment of living cells.

114 ta(2)R207A and alpha(1)R132A sped antagonist unbinding, indicating that these arginines stabilize the

115 ace, we identify four distinct categories of unbinding: inhibitory, excitatory, superexcitatory, and

116 s convert cyclic nucleotide (CN) binding and unbinding into electrical signals in sensory receptors a

117 FkappaB is the strongest DNA binder, and its unbinding is controlled kinetically by molecular strippi

118 Concentration-dependent unbinding is generated by this simple model, quantitativ

119 associated rate constants of protein-ligand unbinding is of great practical importance in drug desig

120 s are slip-resistant such that force-induced unbinding is suppressed, which occurs in many biological

121 On one hand, binding (k'(on)) and unbinding (k(off)) rate constants were extracted from (1

122 ent that is consistent with rapid Mg(o)(2+) -unbinding kinetics and also a slower, millisecond time s

123 simulations that incorporate fiber crosslink unbinding kinetics and continuum-scale simulations that

124 A combination of the unbinding kinetics and the equilibrium constant allows t

125 Experimental approaches to binding and unbinding kinetics are nowadays available, but we still

126 cts combined with rapid binding and moderate unbinding kinetics explain potent use-dependent block, w

127 at they show unusual concentration-dependent unbinding kinetics from chromosomal recognition sites in

128 ision single-molecule tracking, we study the unbinding kinetics from DNA of two metal-sensing transcr

129 Unexpectedly, their unbinding kinetics further varies with the extent of chr

130 Binding and unbinding kinetics monitored by fluorescence were slow.

131 ociation pathway and visualizing the binding-unbinding kinetics of a single DNA molecule.

132 in parallel, characterizing force-dependent unbinding kinetics of an antibody-antigen pair in minute

133 trap to probe the velocity, run length, and unbinding kinetics of mouse KIF3A/B under various loads

134 pically also decay much more slowly than the unbinding kinetics of the indicator.

135 In a regime of slow DNA-binding/unbinding kinetics, spontaneous switching occurs relativ

136 In contrast, in a regime of fast DNA-binding/unbinding kinetics, switching occurs rarely and is drive

137 Besides quantifying its DNA binding and unbinding kinetics, we discovered that CueR spontaneousl

138 mab, inhibited binding without affecting the unbinding kinetics, whereas Mn(2)(+) biased the alphaIIb

139 tion initiation; it modulates RNAP's binding-unbinding kinetics, without allowing interconversions be

140 designing new drugs with engineered binding/unbinding kinetics.

141 lar noise due to capping protein binding and unbinding leads to macroscopic filopodial length fluctua

142 Here we show that unbinding may also speed up enzymatic turnover--turning

143 dition, partial sensor occupancy due to slow unbinding may contribute to the linearization of the fir

144 the photoreceptor Ca(2+) sensor, slow Ca(2+) unbinding may support the fusion of vesicles located at

145 y developed metadynamics-based protocol, the unbinding mechanism of an inhibitor of the pharmacologic

146 molecules in solution to participate in the unbinding mechanism.

147 ping velocities and provided evidence of the unbinding mechanisms.

148 10 nM) to very low (>100 muM) by binding and unbinding MTSET.

149 nding increases the dsDNA tension, then RecA unbinding must decrease tension.

150 for the practical range of behavior in which unbinding occurs diffusively rather than ballistically,

151 chain that will hold the domains together if unbinding occurs.

152 allow us to observe the dynamic binding and unbinding of 5-hydroxytryptamine (5-HT) (i.e., serotonin

153 Resurgent current results from unbinding of a blocking particle that competes with norm

154 m molecular dynamics (MD) simulations of the unbinding of a popular prototypical hydrophobic cavity-l

155 me, repeated measurements of the binding and unbinding of a receptor and ligand in a single molecule

156 t that despite the possibility of unfolding, unbinding of ACPs is the major determinant for the rheol

157 quires dephosphorylation of the receptor and unbinding of arrestin, processes that are poorly underst

158 ecule force spectroscopy (SMFS) to study the unbinding of Coh:Doc complexes under force.

159 e into account the rates for the binding and unbinding of dopamine to D1 and D2 receptors.

160 motes rapid recognition by driving the swift unbinding of dsDNA from non-homologous Rad51-ssDNA filam

161 lly tied to material damage via force-driven unbinding of fiber crosslinks.

162 be visualized where dynamics of binding and unbinding of fluorescent protein complexes occur.

163 , namely, the binding of GTP-bound monomers, unbinding of GTP- and GDP-bound monomers, and hydrolysis

164 croscopy was used to observe the binding and unbinding of hapten decorated quantum dots to individual

165 The binding and unbinding of individual tetramethylrhodamine-labeled neu

166 surements showed that the force required for unbinding of integrin-ligand interactions increases over

167 are performed by considering the binding and unbinding of kinesins to microtubules and their dependen

168 Binding and unbinding of ligands changes its conformation that plays

169 eractions predict that transient binding and unbinding of multiple tethers to each synaptic vesicle m

170 potential involvement of TM5i in binding and unbinding of Na2, i.e. the Na(+) bound in the Na2 site,

171 teered molecular dynamics (SMD) to model the unbinding of neutral ground state ubiquinone (UQ) and it

172 on-Crick pairing partners promotes the rapid unbinding of non-homologous dsDNA and drives strand exch

173 In the latter case of cooperative unbinding of pairs, two neighboring Fis proteins on DNA

174 que role of shape in determining binding and unbinding of particles to cell surface.

175 ing to impaired photoisomerization and rapid unbinding of photoisomerized cis-BI.

176 e profile of potential of mean force for the unbinding of PIIIA from the channel, and predict that PI

177 ion: the fluctuation due to the slow binding/unbinding of protein regulators to gene promoters.

178 at the rate parameters governing binding and unbinding of regulatory proteins to DNA strongly influen

179 ated states can emerge from the slow binding/unbinding of regulatory proteins to gene promoters.

180 rescence to observe directly the binding and unbinding of short oligonucleotides (7-12 nt) to a compl

181 The interplay between binding and unbinding of synaptic receptor proteins at synapses play

182 h our previous work suggest that binding and unbinding of the AD to the Bateman domain dimer induces

183 Herein, the FES of unbinding of the antagonist N-(3alpha-hydroxy-5beta-chol

184 aintaining interdomain coupling, retards the unbinding of the B-site cAMP and stalls an unproductive

185 ocessivity is determined by the race between unbinding of the bound head and attachment of the tether

186 Unbinding of the cAMPs appears ordered as indicated by a

187 Receptor ligation thus needs to result in unbinding of the CD3epsilon ITAM from the membrane to re

188 which allowed us to measure the force due to unbinding of the colloidal probe and the planar membrane

189 The binding/unbinding of the human thrombin and its 15-mer single st

190 further unveil a sequence of events, whereby unbinding of the hydrolysis product (ADP + Pi) is follow

191 investigate the mechanism of the binding and unbinding of the molecules.

192 ule, rather than by reversing the asymmetric unbinding of the motor from the microtubule.

193 Derepression comes from unbinding of the regulator, which, under zinc-starvation

194 Diffusive search, recognition, binding, and unbinding of these proteins often amount to kinetic bott

195 Unbinding of TM5 from the rest of the structure exposes

196 Binding and unbinding of transcription regulators at operator sites

197 ple exchange of proteins and (2) cooperative unbinding of two Fis proteins to yield bare DNA.

198 of collagen gels arises from force-dependent unbinding of weak bonds between collagen fibers.

199 blish the dependence of force history during unbinding on both those parameters chosen to characteriz

200 as shown by control experiments), results in unbinding on millisecond timescales, giving rise to rapi

201 n, stress relaxes to physiological levels by unbinding only--not unfolding--of ACPs, which is consist

202 A condensation that is reversible by protein unbinding or force.

203 weighted ensemble algorithm to determine the unbinding pathway for different poses of PK-11195, a TSP

204 Interestingly, the unbinding pathway from the primary site appears to be di

205 provide a thorough description of the ligand unbinding pathway identifying the most stable binding mo

206 However, detailed information on the full unbinding pathway is often lacking due, in part, to the

207 when the force dependence of the facilitated unbinding pathway is stronger than that of the spontaneo

208 way is stronger than that of the spontaneous unbinding pathway.

209 tely reconstruct the spontaneous binding and unbinding pathways from nanosecond to second time-range.

210 ylated and phosphorylated ARH1, the possible unbinding pathways of ADP-ribose from non-phosphorylated

211 omplex to determine the binding strength and unbinding pathways over the widest dynamic range.

212 lar dynamics simulations reveal a variety of unbinding pathways that indicate a highly dynamic intera

213 ics-based approach allows exploration of the unbinding pathways, estimation of the rates, and determi

214 We use umbrella sampling to cover a range of unbinding pathways.

215 s, our modeling reveals stark differences in unbinding pathways.

216 For E. coli, we find that the binding/unbinding phase boundary is hyperbolic.

217 Analytically constructing the unbinding phase space, we identify four distinct categor

218 The unbinding probabilities corresponding to each mechanoche

219 ations, we provide a detailed picture of the unbinding process of three clinically relevant GR modula

220 provide an atomistic, dynamic picture of the unbinding process, replacing a simple two-state picture

221 rent energies for the different steps in the unbinding process.

222 of the active site play crucial roles in the unbinding process.

223 tifying the rate-limiting step of the ligand unbinding process.

224 ds on the time scale of the promoter binding/unbinding processes.

225 smon resonance measurements show a very slow unbinding rate (1/115 min) for inhibitor 7m.

226 From our simulations, we estimated the unbinding rate as koff = 0.020 +/- 0.011 s(-1).

227 Binding and unbinding rate constants measured across a wide range of

228 sides of the membrane and the corresponding unbinding rate constants.

229 d that in live Escherichia coli cells, Zur's unbinding rate from DNA is sensitive to Zur protein conc

230 nding from the adjacent SV pool and that the unbinding rate is regulated by exocytosis.

231 The unbinding rate k off is computed from the mean residence

232 Specifically, the decrease in the unbinding rate of calcium to troponin C with increasing

233 binding rate of the inactive state and slow unbinding rate of the active state, for a higher effecti

234 to the higher association rates and moderate unbinding rate of these two compounds with sodium channe

235 ion of values of the nonspecific binding and unbinding rate parameters that balance the protein trans

236 efficients for given nonspecific binding and unbinding rate parameters.

237 nucleoid-associated proteins that exhibit an unbinding rate that depends on the concentration of free

238 uned in a wide range by changing the binding/unbinding rate without changing the amplitude much, whic

239 ein-DNA binding rate is much larger than the unbinding rate, a special case of fast promoter switchin

240 evenfold slower than the microscopic subunit unbinding rate.

241 ed the effects on microscopic ligand binding/unbinding rates and channel gating.

242 Based on force-dependent unbinding rates and pilus retraction speeds measured at

243 consequence, both the effective binding and unbinding rates for motors are much lower than the expec

244 rdered as indicated by a large difference in unbinding rates from the two sites, but the cause has re

245 pic and macroscopic (or local and non-local) unbinding rates have been previously proposed, but never

246 ble dagger) of the force-dependent unfolding/unbinding rates is interpreted as the distance from the

247 d concentration jumps to measure binding and unbinding rates of a high-affinity aspartate analog that

248 ur is explained by the different binding and unbinding rates of both integrin types to fibronectin.

249 ork has demonstrated concentration-dependent unbinding rates of proteins from DNA, using fluorescence

250 s and the dependence of the scaffold binding/unbinding rates on the number of phosphorylated sites.

251 cal method for estimating diffusion, binding/unbinding rates, and active transport velocities using F

252 Furthermore, because of slow unbinding rates, both receptor populations integrated do

253 eling, we further demonstrated that the GABA unbinding rates, in particular, are strongly coupled.

254 ity sequences determined for the binding and unbinding rates, which are negative-negative-positive an

255 tic turnover under a controlled variation of unbinding rates.

256 differentiation for certain promoter binding/unbinding rates.

257 re optimization of drug-receptor binding and unbinding rates.

258 g rate, and accelerate deactivation and GABA unbinding rates.

259 ions, we resolve two binding modes and three unbinding reaction pathways of a mechanically ultrastabl

260 ovide quantitative insights into binding and unbinding reactions among rapidly diffusing molecules th

261 ropic random-walk model coupled with binding-unbinding reactions that weaken the fiber.

262 nd) measurements of dye-membrane binding and unbinding reactions, for all members of this family of p

263 de that they are generated by proton-binding/unbinding reactions.

264 pical in vivo conditions, dynamic-LH binding/unbinding reduces fiber stiffening dramatically (by a fa

265 and a nonadiabatic regime with slow binding/unbinding relative to protein synthesis/degradation.

266 Thus, the voltage dependence of blocker unbinding results almost entirely from repulsion by Na i

267 Binding and unbinding results in largely reduced cAMP dynamics, whic

268 tting the time courses of ligand binding and unbinding revealed modest cooperativity among the subuni

269 K(+)-channels in a unique example of binding/unbinding simplicity.

270 open and closed states by FRET, and binding-unbinding states of the glycine ligand by anisotropy mea

271 tics of alphaIIbbeta3-fibrinogen binding and unbinding that underlie the dynamics of platelet adhesio

272 ormational changes in the process of binding/unbinding the transducer.

273 rder mechanism and suggesting that following unbinding, there is a significant probability of ligand

274 constrained to move in an axial manner, the unbinding time is found to be on the order of 4,000 s.

275 -cyclodextrin with RNTPs reveal two distinct unbinding time scales, which suggest that interactions o

276 We validate the unbinding timescales from metadynamics through a Poisson

277 lves the coupling of microtubule binding and unbinding to a change in the configuration of the linker

278 We use a two-state model of RecA binding/unbinding to extract the associated thermodynamic parame

279 ime; and the time delays due to slow binding/unbinding to promoters in the nonadiabatic regime, which

280 uld allow the adhesin to undergo binding and unbinding to surface ligands under low force and remain

281 teins diffusing while stochastically binding/unbinding to various affinity sites in living cells give

282 We uncover the complex pathways of unbinding trajectories and describe the critical rate-li

283 Using metadynamics, multiple unbinding trajectories that start with the ligand in the

284 these disparities and examined atomic-level unbinding trajectories via steered molecular dynamics si

285 Beyond the unbinding transition of the lamellar phase, extremely as

286 The binding and unbinding transitions of Vn at the membrane interface ar

287 We were able to reproduce the unbinding trends seen experimentally for both DNA and pr

288 its constitutive strands causes rapid dsDNA unbinding unless sufficient homology is present.

289 n hexamer dissolution timescales, and phenol unbinding upon dilution is likely the first step in the

290 whose rapid binding upon depolarization and unbinding upon repolarization minimizes fast and slow in

291 he local concentration of tPA through forced unbinding via degradation of fibrin and tPA release.

292 However, during channel deactivation, ligand unbinding was slower than channel closing, suggesting a

293 ed on the observation of streptavidin-biotin unbinding, we also conclude that the magnitude of integr

294 With slow promoter binding/unbinding, we found multiple meta-stable differentiated

295 ure forces comparable to biotin:streptavidin unbinding were observed.

296 However, the off-rates for Ca(2+) unbinding were unexpectedly slow.

297 which any increase in the rate of substrate unbinding will decrease the rate of enzymatic turnover.

298 beta(2)R207A slowed agonist binding and sped unbinding with little effect on gating, demonstrating th

299 ll poles through rapid cycles of binding and unbinding within the PopZ scaffold.

300 Third, load-induced unbinding yields a reduced coefficient of variation of t