ライフサイエンスコーパス: allostery

1 s a phenomenon we have called "resistance by allostery".

2 stability (e.g. in relation to catalysis or allostery).

3 exhibits classic signatures of transmembrane allostery.

4 vides a novel tool for interrogating protein allostery.

5 g data reveal the molecular mechanism of the allostery.

6 can be important for biological function and allostery.

7 ernal motion to overall protein dynamics and allostery.

8 that affect inducer binding may also disrupt allostery.

9 ctional importance for the directionality of allostery.

10 ata to test statistical mechanical models of allostery.

11 for the analysis of such entropically driven allostery.

12 idity, dynamics at different timescales, and allostery.

13 a hydrogen bond donor moiety for maintaining allostery.

14 ed ensemble as outlined in classic models of allostery.

15 re, an example for destabilizing interdomain allostery.

16 to advance our fundamental understanding of allostery.

17 the Monod-Wyman-Changeux two-state model of allostery.

18 ights into the molecular events that mediate allostery.

19 ays, but little is known about this presumed allostery.

20 riment, providing new opportunities to study allostery.

21 lecular recognition, catalytic function, and allostery.

22 ypothesis to protein structure databases and allostery.

23 ficant features of the mechanistic basis for allostery.

24 ouble-helical structure is the origin of DNA allostery.

25 lation can be regulated at the level of PafA allostery.

26 ulatory parameters that frame CRP/FNR family allostery.

27 network to be another possible mechanism of allostery.

28 trolled almost exclusively by ultrasensitive allostery.

29 clusion of the catalytic site rather than by allostery.

30 tants suggests it may involve ligand-induced allostery.

31 lso opportunities to target the mechanism of allostery.

32 g motifs for non-catalytic signaling through allostery.

33 and is an example of dynamics-driven protein allostery.

34 to identify key residues in dynamics-driven allostery.

35 ions, such as ligand-binding, catalysis, and allostery.

36 e in signaling, utilizing a process known as allostery.

37 n ideal platform for modulating activity via allostery.

38 the classical Monod-Wyman-Changeux model of allostery.

39 vior of loops upon protein binding including allostery.

40 teractions and intersubunit communication in allostery.

41 ations in this region compromise interdomain allostery.

42 rting the population-shift theory of protein allostery.

43 re ideally suited for the study of enzymatic allostery.

44 arrangements responsible for this remarkable allostery.

45 owing for efficient long-range signaling and allostery.

46 e determination of the mechanistic basis for allostery.

47 the active site, implying its importance in allostery.

48 lso shedding new insights into mechanisms of allostery, although the complexities of candidate allost

49 The simulations reveal that allostery amounts to the propagation of structural and d

50 low can enrich structure-activity studies of allostery and bias, and have also led to the discovery o

51 ce of protein dynamics in connecting protein allostery and catalysis to control catalytic activity of

52 w 2 widely recognized regulatory mechanisms, allostery and compartmentalization, which exemplify this

53 s are not mere connectors, and their role in allostery and conformational changes has been emerging i

54 Allostery and covalent modification are major means of f

55 nt conclusions toward the control of protein allostery and design of unique allosteric sites for pote

56 e conformational ensemble, the mechanisms of allostery and drug resistance, and the free energy of li

57 These results support the ensemble model of allostery and embody a strategy for the design of protei

58 Here, we clarify the concept of allostery and how it controls physiological activities.

59 Our work expands the perspective on allostery and implicates functional importance for the d

60 s is a robust mechanism for the evolution of allostery and induced fit.

61 reveal the molecular basis of actin filament allostery and its linkage to ADF/cofilin binding.

62 identify position 101 as a mediator of both allostery and photocycle catalysis that can impact organ

63 its SBD does not disturb Hsp70 inter-domain allostery and preserves BiP structure.

64 s, cast new light on the problem of thrombin allostery and provide a thermodynamic framework to expla

65 broadens our understanding of mechanisms of allostery and serves as an inspiration for future design

66 ate enzymology analysis were consistent with allostery and slow-tight binding by AGI-6780.

67 broad implications for our understanding of allostery and suggests that the general concept of the n

68 btained, we propose the mechanism of CYP46A1 allostery and the pathway for the signal transmission fr

69 light the current available methods to study allostery and their applications in studies of conformat

70 inhibitors as neuroprobes to study 5-HT(2C)R allostery and therapeutics for 5-HT(2C)R-mediated disord

71 Clamp allostery and translocation are more optimal for LF pept

72 ERCA is important for Ca(2+) binding (distal allostery) and phosphoenzyme formation (direct activatio

73 We then compare different models of allostery, and discuss the significance of the concept o

74 loop 2's roles in regulating RR specificity, allostery, and oligomerization.

75 ps-ns dynamics with conformational entropy, allostery, and protein function in general.

76 in protein folding, binding, catalysis, and allostery are currently detected using NMR dispersion ex

77 Although existing models of allostery are firmly rooted in the current structure-fun

78 Quantifying allostery as a free energy landscape revealed a protein

79 physical and evolutionary origin of protein allostery, as well as its importance to protein regulati

80 odesic domes and mechanical engineering) and allostery (associated with biochemical control mechanism

81 sent a general yet compact model for protein allostery at atomic detail to quantitatively explain and

82 , steric, and conformational determinants of allostery at the atomic level were examined in molecular

83 t formally equivalent, there is little-to-no allostery at the level of DeltaG degrees bind.

84 we extend an earlier mechanical model of DNA allostery based on constrained minimization of effective

85 damentally different from textbook models of allostery because GCK is monomeric and contains only one

86 te the role of residue 138 in modulating the allostery between cAMP and DNA binding.

87 the active sites of HslV that facilitate the allostery between these distal sites.

88 This negative, entropically driven allostery between two functional sites of the betaSBD-th

89 l models and pharmacological applications of allostery, but also by progress in the experimental appr

90 ntally validating transformative theories of allostery, but also in tapping the full translational po

91 anuscript circulated among the proponents of allostery, but only now published for the first time in

92 udy was designed to examine the mechanism of allostery by comparing the degree to which opioid ligand

93 acile mechanism for the evolution of modular allostery by domain recruitment.

94 hain rotamer promotes the functional dynamic allostery by inducing coordinated motions that spread ac

95 with the Bohr effect (1904) to the birth of allostery by Monod and Jacob (1961).

96 The master equation-based approach for allostery by population shift (MAPS) is introduced that

97 r we treat in detail the case of fluctuation-allostery by which amplitude modulation of the thermal f

98 uctural details for a key mechanism of Hsp70 allostery, by which information is conveyed from the nuc

99 al and theoretical evidence demonstrate that allostery can be communicated through altered slow relax

100 experimental observations demonstrating that allostery can be facilitated by dynamic and intrinsicall

101 allosteric models and indicated that protein allostery can be implemented through differentiating lig

102 We argue that allostery can be rationalized in terms of pathways of re

103 We focus on the challenging questions of how allostery can both cause disease and contribute to devel

104 To examine the molecular events by which allostery can evolve, we have generated a chimeric prote

105 We provide a foundational theory for how allostery can occur as a function of low-frequency dynam

106 We describe the evolution of the allostery concept, from a conformational change in a two

107 lular regulatory concepts, such as (pathway) allostery, conformational spread, induced folding/unfold

108 solvation model (dichloromethane), show that allostery contributes approximately 30% to overall posit

109 via coevolving residues, whereas interdomain allostery, critical to chaperoning, is robustly enabled

110 This is because allostery does not have an identifiable structural motif

111 use coarse-grained simulations to elucidate allostery-driven mechanisms of unfolding and translocati

112 Allostery enables tight regulation of protein function i

113 ssfully formulated, and are able to describe allostery even in the absence of a detailed structural m

114 ent to show that hemoglobin, the paradigm of allostery, exhibits two ligand binding phases with the s

115 , we investigate structural determinants for allostery, focusing on modifications to three moieties w

116 CN channel and the interpretation of protein allostery for general ligand-gated channels and receptor

117 and identify the long sought-after source of allostery for RING/U-Box activation of E2~Ub conjugates.

118 ears to be a general mechanism for providing allostery for this enzyme.

119 o SOD1 as a strained intermediate with "self-allostery" for high metal-binding affinity.

120 to quantify ion-pair binding and to separate allostery from electrostatics to understand their relati

121 We generalize the concept of allostery from the traditional non-active-site control o

122 ditorial, we briefly overview the history of allostery, from the pre-allostery nomenclature era start

123 Allostery has been observed and characterized in many pr

124 The concept of allostery has evolved in the past century.

125 erstanding of the molecular underpinnings of allostery has hindered the development of designer molec

126 ed, and the role of Glu-88 in force-assisted allostery has not been examined.

127 foundations of small molecule antagonism and allostery, highlight the inherent physicochemical challe

128 starting from one of the simplest models of allostery (i.e., the four-state thermodynamic cycle) and

129 The allostery identified in the components of the HPV is non

130 Whereas lipid allostery impacts the phosphotransferase function of the

131 e quantitative site-specific measurements of allostery in a bilayer environment, and highlight the po

132 ructural features responsible for generating allostery in a monomeric enzyme and suggests a general s

133 the energetic basis of the observed dynamic allostery in a PDZ3 domain protein using molecular dynam

134 Allostery in a protein involves effector binding at an a

135 Allostery in bacterial proteins has thus been successful

136 details of how a single tryptophan mediates allostery in Btk.

137 Negative allostery in CAP occurs between identical cAMP binding s

138 ell-known yet still underappreciated role of allostery in conveying explicit signals across large mul

139 We investigated allostery in core complexes assembled with two chemorece

140 Understanding the nature of allostery in DNA-nuclear receptor (NR) complexes is of f

141 s clarify how sub-domain motions communicate allostery in DnaK.

142 This allostery in EnvZ is independent of membrane composition

143 scarinic receptor is the prototypic model of allostery in GPCRs, yet the molecular and the supramolec

144 Allostery in Hsp70s results from an energetic tug-of-war

145 Therefore, allostery in many LacI/GalR proteins does not require in

146 Monod, Wyman, and Changeux (MWC) explained allostery in multisubunit proteins with a widely applied

147 te mechanisms underlying the established NTD allostery in NMDA-type iGluRs, as well as the fold-relat

148 Together, these results support a model for allostery in PheH in which phenylalanine stabilizes the

149 s between structure, function, dynamics, and allostery in protein kinases, we carried out multiple mi

150 These findings introduce the concept that allostery in proteins could have its origins not in prot

151 e to retain slow relaxation dynamics-induced allostery in proteins in which evolution of the ligand-b

152 nform the rational design of flexibility and allostery in proteins.

153 t2M/t4M binding site enables programming of allostery in RNAs, recoding oligo-U domains as potential

154 atory target recognition, and ligand-induced allostery in RRNPP regulators and its impact on gene reg

155 been used to reveal the structural basis for allostery in several proteins and protein complexes of b

156 sults reveal a likely role for inter-residue allostery in specificity and an evolutionary decoupling

157 Historically, allostery in structured proteins has been interpreted in

158 e of pathways of structural distortions, (b) allostery in the absence of any structural change, and (

159 finding offers a novel mechanistic basis for allostery in the absence of canonical structural change.

160 dels of site-to-site coupling, including (a) allostery in the absence of pathways of structural disto

161 function paradigm, the mechanistic basis for allostery in the absence of structural change remains un

162 Remarkably, movement in allostery in the betaI domain of specificity determining

163 We present the evidence for the role of allostery in the context of a quantitative formalism tha

164 in a two-state model (1965, 1966) to dynamic allostery in the ensemble model (1999); from multi-subun

165 The mechanisms of ligand binding and allostery in the major human drug-metabolizing enzyme cy

166 results suggest a subtle but common role of allostery in the mechanisms through which PTMs affect re

167 Much of the focus on GPCR allostery in the new millennium, however, has been on mo

168 basis for the fundamental change in protein allostery in the novel group of Vfr variants.

169 Moreover, Q282A eliminated cis-allostery in the oligomerization variant.

170 Here, we investigate allostery in the peroxisome proliferator-activated/retin

171 In this study, allostery in the second PDZ domain (PDZ2) in the human P

172 suggest a common role of specific models of allostery in their functions.

173 tional selection as the general mechanism of allostery in this canonical signalling domain.

174 The method was used to describe allostery in two-component regulatory systems.

175 understanding the structural determinants of allostery in well-documented systems, much less success

176 Allostery, in particular, relies on ligand-modulated shi

177 ing is most evident in the case of classical allostery, in which a binding event in one protomer is s

178 into nanoclusters might allow for homotropic allostery, in which individual TCRs could positively coo

179 he key pharmacologic characteristics of GPCR allostery include improved selectivity due to either gre

180 ivity in vitro without affecting interdomain allostery, interaction with co-chaperones DnaJ and GrpE,

181 the chemical equilibrium of ligand binding, allostery involves a conformational equilibrium between

182 Allostery is a biological phenomenon of fundamental impo

183 The fact that allostery is a common means for regulation in biological

184 Allostery is a fundamental mechanism of biological regul

185 Allostery is a fundamental process by which ligand bindi

186 Allostery is a fundamental process by which ligand bindi

187 Allostery is a phenomenon that couples effector ligand b

188 Allostery is a ubiquitous biological regulatory process

189 Allostery is a ubiquitous mechanism to control biologica

190 While allostery is a well-established concept for structured p

191 cal and empirical observations indicate that allostery is also manifest in intrinsically disordered p

192 Allostery is an intrinsic property of many globular prot

193 Allostery is at play in all processes in the living cell

194 Protein allostery is based on the existence of multiple conforma

195 It is not known whether allostery is conferred by the PDZ domains or is an intri

196 Allostery is conformation regulation by propagating a si

197 substrates cooperatively and find that PafA allostery is controlled by the binding of target protein

198 Thus, elucidating the forces that drive allostery is critical to understanding the complex trans

199 Understanding the mechanism of interdomain allostery is essential to rational design of Hsp70 modul

200 Understanding protein allostery is essential to understanding protein function

201 The importance of loop dynamics and allostery is highlighted by a case study of an antibody-

202 Allostery is largely associated with conformational and

203 ernating access transporters in which 1) cis-allostery is mediated by intrasubunit interactions and 2

204 binding cooperativity suggests that classic allostery is not involved and that the negative cooperat

205 the long-range communication that underlies allostery is not well understood.

206 ng hugely important in biological processes, allostery is poorly understood and no universal mechanis

207 ence of the membrane-spanning regions, lipid allostery is propagated entirely through peripheral inte

208 We provide a physical explanation for why allostery is related to dihedral complexes: it allows fo

209 Allostery is relayed to the alphaI domain by an internal

210 It has been hypothesized that transmembrane allostery is the basis for inactivation of the potassium

211 Allostery is the process by which biological macromolecu

212 way to evaluate the effects of a mutation on allostery is to monitor the allosteric coupling constant

213 Allostery is well documented for proteins but less recog

214 te genes and control alternative splicing by allostery, it is important to develop algorithms to pred

215 A statistical view of allostery leads to a more nuanced and physically realist

216 This allostery mainly regulates the kinetic on-rate, not off-

217 We propose that such allostery may regulate DNA's flexibility and the assembl

218 in SHP2 with in vivo activity, suggests that allostery might provide a way forward for PTP inhibitor

219 been reported that phosphorylase b' shows no allostery, neither homotropic nor heterotropic.

220 rview the history of allostery, from the pre-allostery nomenclature era starting with the Bohr effect

221 Its kinase domain functions in allostery not catalysis, and the classical ATP-analog cl

222 fast local modes take an active part in the allostery of CAP, coupled to the more-global slow modes.

223 class of indole-2-carboxamides that exhibit allostery of CB1.

224 analogues were synthesized and assessed for allostery of the CB1 receptor.

225 dole-2-carboxamides significantly impact the allostery of the ligand.

226 Allostery offers a highly specific way to modulate prote

227 suggesting a selection pressure to fine tune allostery on changes to the CAP ligand-binding pocket wi

228 r the allosteric site but not for generating allostery on the orthosteric site.

229 Genetic perturbations targeting allostery or key regulatory nodes in the glycolytic path

230 ng transient but specific binding, promoting allostery, or allowing efficient posttranslational modif

231 cis-Allostery persisted, but trans-allostery was lost in an

232 Allostery pervades macromolecular function and drives co

233 ns with indirect, second-order effects on Hb allostery play key roles in biochemical adaptation.

234 Ligand-induced protein allostery plays a central role in modulating cellular si

235 Allostery plays a crucial role in the mechanism of neuro

236 units are formed, suggesting that long-range allostery produces conformational changes that extend fr

237 d computation, the mechanism of this form of allostery proved difficult to identify at the molecular

238 Specifically, in a protein, the process of allostery refers to the transmission of a local perturba

239 cts of mutations on biophysical function and allostery reflect a complex mixture of multiple characte

240 echanisms by which the disorder functions in allostery remain to be elucidated.

241 , the mechanistic basis for GCK's homotropic allostery remains unresolved.

242 Allostery represents a fundamental mechanism of biologic

243 ed by intrasubunit interactions and 2) trans-allostery requires intersubunit interactions.

244 modynamic underpin to the molecular model of allostery revealed by the high resolution structural stu

245 2-deoxy-d-glucose uptake and eliminated cis-allostery (stimulation of sugar uptake by subsaturating

246 steric site, provides an order parameter for allostery that allows us to determine how microscopic mo

247 puzzle in our search for an understanding of allostery that allows us to make predictions on the resp

248 (i) CFTR gating exhibits features of protein allostery that are shared with conventional ligand-gated

249 The ensemble view of allostery that emerges provides insights into the energe

250 istances at the molecular scale in a form of allostery that is essential for the physiological functi

251 The ensemble view of allostery that is illuminated by these studies suggests

252 increase their activities by disrupting the allostery that normally serves to downregulate transposi

253 This triggers further allostery that opens the lectin/EGF domain hinge.

254 engage Ca(2+) and mannose without triggering allostery that opens the lectin/EGF domain hinge.

255 difications within an expanded framework for allostery that provides significant insights into how di

256 n which Glu-88 must engage ligand to trigger allostery that stabilizes the high affinity state under

257 In contrast to classic allostery, the active and allosteric sites in hUGDH are

258 deeper insights into the factors that govern allostery, the crystal structure of TylP was solved to a

259 ite consensus about the conceptual basis for allostery, the idiosyncratic nature of allosteric mechan

260 In addition to their role in allostery, the signals control the initiation of catalys

261 and popular method for the study of protein allostery, the widespread phenomenon in which a stimulus

262 demonstrate how the bidirectional nature of allostery-the fact that the two sites involved influence

263 he molecular basis of binding, catalysis and allostery, thereby identifying function and rationally g

264 of virus conversion to A-particles involves allostery through conformation selection.

265 Allostery through DNA is increasingly recognized as an i

266 tes, allowing the positions most crucial for allostery to be identified.

267 r strategies that couple the peptide-induced allostery to gene regulation.

268 w that PTP1B uses conformational and dynamic allostery to regulate its activity.

269 M EGFR-selective TKIs alter JM structure via allostery to restore the conformation found when WT EGFR

270 n its own is sufficient to confer functional allostery to the unregulated enzyme.

271 hus reveals rigorous mechanistic elements of allostery underlying the dynamics of biomolecular system

272 fferent proteins, or are the determinants of allostery unique to each system?

273 urating extracellular maltose) but not trans-allostery (uptake stimulation by subsaturating cytochala

274 be their importance for protein dynamics and allostery using as examples key proteins in cellular bio

275 introduction to the investigation of protein allostery using molecular dynamics simulation.

276 cis-Allostery persisted, but trans-allostery was lost in an oligomerization-deficient GLUT1

277 he affinity of IL-15 for IL-2Rbeta, and this allostery was required for IL-15 trans signaling.

278 nd keeping in mind the equilibrium nature of allostery, we consider alternative possibilities for wha

279 Using a network-based formalism of allostery, we introduced a community-hopping model of al

280 To explore the structural origins of Hsp70 allostery, we performed NMR analysis on the NBD of DnaK,

281 onformational and dynamic changes that drive allostery, we performed time-resolved electrospray ioniz

282 understand the role of this region in Hsp70 allostery, we used molecular dynamics simulations to exp

283 Key residues of PDZ2 allostery were identified with good agreement with NMR s

284 idual residues to whole-protein dynamics and allostery were systematically assessed via rigid body si

285 We review recent data on heterotropic allostery where peptide-MHC and membrane cholesterol ser

286 binding events and an effect consistent with allostery, where hybridization at certain sites on an SN

287 Allostery, where remote ligand binding alters protein fu

288 this new knowledge to offer a perspective of allostery which is consistent with chemical views of mol

289 We expect this frustration-based model of allostery will prove to be generally important in explai

290 teristics, initiate a propensity for dynamic allostery with possible functional implications in bispe

291 s in the NMR methods tailored to investigate allostery with the goal of offering an overview of which

292 des insight into conformational dynamics and allostery within CFTR.

293 ledge of biased signaling and small molecule allostery within class B GPCRs is discussed, highlightin

294 chanism in homomeric ATPases whereby complex allostery within the ring geometry forms asymmetric func

295 latter we demonstrate as a new exemplar for allostery without conformation change.

296 PDZ domains are classic examples of dynamic allostery without conformational changes, where distal s

297 Here, we describe how allostery works from three different standpoints: thermo

298 The question of how allostery works was posed almost 50 years ago.

299 s of site-to-site coupling and thus into how allostery works.

300 d rules that provide an understanding of how allostery works.