ライフサイエンスコーパス: folding pathway

1 r-conversions, and derive the RNA pseudoknot folding pathway.

2 has profound effects on guiding the protein folding pathway.

3 to the liposomes and a switch to the slower folding pathway.

4 on is supplied about their complex multistep folding pathway.

5 are being degraded due to inhibition of the folding pathway.

6 es the fraction of chains following the fast-folding pathway.

7 laces these intermediates off the productive folding pathway.

8 protein structure stabilization and the (un)folding pathway.

9 138), predominate as intermediates along the folding pathway.

10 tein structure is determined early along the folding pathway.

11 uggest that BdpA folds via a single dominant folding pathway.

12 consistent with the experimentally observed folding pathway.

13 e beta-sheets that was visited along a minor folding pathway.

14 n-native intermediates accumulated along the folding pathway.

15 chain to form the 52-knot occurs late on the folding pathway.

16 uggest that they are intermediates along the folding pathway.

17 r the overall unfolded-state to native-state folding pathway.

18 folding with many intermediate steps in the folding pathway.

19 of such non-native structure formation in a folding pathway.

20 ed for accelerating the rate in the assisted folding pathway.

21 mation of native topology in the spontaneous folding pathway.

22 ntermediate is an obligatory step on the MBP folding pathway.

23 tence of many possible metastable states and folding pathways.

24 misfolding directly by mapping out nonnative folding pathways.

25 omolecule in presence of seemingly unlimited folding pathways.

26 tial phases reflect the presence of parallel folding pathways.

27 uch simulations might influence the observed folding pathways.

28 potentially independent factors that create folding pathways.

29 path algorithm to reveal atomically detailed folding pathways.

30 nt for rationalizing experimentally observed folding pathways.

31 imentally verifiable conjecture about likely folding pathways.

32 ructure guides pollen grains toward distinct folding pathways.

33 t contribution towards understanding protein folding pathways.

34 ded reduced proteins, can compromise protein folding pathways.

35 I) species can slow, or even derail, protein folding pathways.

36 oteins into domains for the study of protein folding pathways.

37 process to switch from misfolding to native folding pathways.

38 is a popular paradigm for simulating protein folding pathways.

39 ing from the superposition of three parallel folding pathways.

40 folding precludes the emergence of alternate folding pathways.

41 ry structures, thereby changing the tertiary folding pathways.

42 along a sequence determines the diversity of folding pathways.

43 ing that nascent GPCRs can adopt alternative folding pathways.

44 lding intermediates and their progression in folding pathways.

45 was also applied to hairpins with multistate folding pathways.

46 peat protein, can access two alternative (un)folding pathways.

47 lts suggest that local stabilities determine folding pathways.

48 t role of nonnative interactions in defining folding pathways.

49 rmine the relative flux through parallel RNA folding pathways.

50 erones cooperate in evolutionarily conserved folding pathways.

51 How do such vectorial constraints impact the folding pathway?

52 es dynamic sampling between states along the folding pathway, an effect previously observed only with

53 in fluctuations both retard motion along the folding pathway and activate protein molecules to cross

54 containing both an environmentally sensitive folding pathway and an intrinsically disordered region,

55 brane fusion requires a sequential, two-step folding pathway and assign specific and distinct functio

56 ding toward M, but, after commitment to this folding pathway and before formation of M, alt P3 is rep

57 onsidering it in the context of the client's folding pathway and biological function.

58 on-native disulfides are formed early in the folding pathway and can trigger misfolding.

59 Our measurements reveal a difference in folding pathway and cooperativity between wild-type and

60 ocalize the major CF defect late in the NBD1 folding pathway and establish a paradigm wherein a cellu

61 ermediate and demonstrated that it is on the folding pathway and exists after the rate-limiting step.

62 o the native secondary structure late in the folding pathway and is directly coupled to the formation

63 ed foldon units that may define steps in its folding pathway and may regulate some other functional p

64 ify additional genes involved in the protein-folding pathway and neurotoxicity.

65 c45-Hsp90 chaperone complex acts late in the folding pathway and promotes motor domain maturation aft

66 protein that commits quickly to a productive folding pathway and slowing several kinetically distinct

67 cale interactions that determine a protein's folding pathway and stabilize its native state.

68 RNA adopts multiple conformations along its folding pathway and suggest that the RNA undergoes marke

69 ree-energy landscape and thus determines the folding pathway and the rate constants of folding and un

70 versely, a substitution that disrupts the TH folding pathway and uncouples establishment of key TH-NT

71 perhaps the most critical amino acids in the folding pathway and underscoring, in particular, the rol

72 time required to compute a prediction of the folding pathway and, for a fixed number of base-pair mov

73 eract with cofactors involved in the tubulin folding pathway and, hence, fail to exchange with beta-t

74 e proteins may hold the key to understanding folding pathways and aid in structure prediction.

75 nding of the molecular features that dictate folding pathways and determine rates along a given pathw

76 omal pause time scales may lead to alternate folding pathways and distinct minima on the folding free

77 vent friction varies substantially along the folding pathways and furthermore suggests a connection b

78 denatured proteins, significantly affecting folding pathways and kinetics.

79 The folding pathways and measures of the relative flux throu

80 tural resolution for distinguishing parallel folding pathways and provides a simple means to predict

81 r description of the primary determinants of folding pathways and structure, and the effectiveness of

82 we develop a unified approach for predicting folding pathways and tertiary structure using only the p

83 wever, the sequence-dependent details of the folding pathways and the link between collapse and foldi

84 It determines the specificity of the folding pathways and the magnitude of the free energy ba

85 nabling the visualization and computation of folding pathways and timescales.

86 s to the possibility to explore thousands of folding pathways and to predict not only the native stru

87 Although the folding pathways and yield of isolated NBD1 are altered,

88 on, the number of intermediate states on the folding pathway, and the rates of unfolding and exit.

89 roteins, the statistical nature of a protein folding pathway, and the relationship between extent of

90 naturally encode its particular foldon-based folding pathway, and they collectively sum to produce th

91 studying the secondary structures, dynamics, folding pathways, and interactions of soluble proteins,

92 es are found to coexist on the (equilibrium) folding pathways, and the interplay between the stabilit

93 ds advancing basic knowledge of glycoprotein-folding pathways, and towards developing new cancer ther

94 Atomic description of the folding pathway appears therefore to be essential for a

95 The overall folding pathway appears to be nucleation-condensation.

96 ts of neighboring molecules on the unfolding/folding pathway are largely ignored experimentally and s

97 The first three steps of the folding pathway are linear and sequential.

98 Most current techniques to predict protein folding pathways are computationally intensive and are s

99 the folding of YibK, and to address whether folding pathways are conserved for members of the alpha/

100 ntermediates that exist transiently on their folding pathways are exposed to the potential interactio

101 New folding pathways are identified in free-energy landscape

102 Long folding pathways are interesting, because they demonstra

103 indicate that, for the Notch ankyrin domain, folding pathways are selected based on local energetics.

104 The predicted folding pathways are supported by the activation energy

105 The results indicate that the folding pathways are the same.

106 folding beta-hairpin TZ2 show a shift in the folding pathway as viscosity increases, even though the

107 how this complex environment affects de novo folding pathways as they occur in the cell, we expressed

108 act either qualitative information about the folding pathway, as demonstrated by HP35, which has been

109 than accelerating them by biasing particular folding pathways, as previously proposed for folding rea

110 e data provide a detailed description of the folding pathway associated with the GAAA tetraloop-recep

111 folding behavior at high calcium to a simple folding pathway at apo conditions.

112 We find that the dominant folding pathway at high calcium concentrations proceeds

113 tomically detailed and complete picture of a folding pathway at the ensemble level.

114 Controlling folding pathways at the single-molecule level provides a

115 tribute to the heterogeneity of the ribozyme folding pathways at the very earliest stages of tertiary

116 of protein structures along their predicted folding pathways based on high-resolution structures of

117 In metallo-proteins, characterization of the folding pathways becomes even more complex, and therefor

118 We conclude that there are many folding pathways before the final folding step and that

119 ), we find that variations in nucleation and folding pathway between circular permutations are determ

120 Accurately predicting low energy barrier folding pathways between conformational secondary struct

121 oximating energy barriers encountered during folding pathways between each pair of local optimal stac

122 with other algorithms to compute low energy folding pathways between experimentally known structures

123 lternate approach for predicting low-barrier folding pathways between RNA conformational secondary st

124 AEAPath is able to find lower energy barrier folding pathways between secondary structures of conform

125 Guiding the construction of folding pathways by coarse grained movements of RNA stac

126 uristic algorithms guide the construction of folding pathways by free energies of intermediate struct

127 ghts the malleability of retroviral protease folding pathways by illustrating how the selection of mu

128 methods to address the thermodynamics of RNA folding pathways by probing the intramolecular docking/u

129 However, because intermediates on folding pathways can serve as initiation points of aggre

130 by lysosomal proteases, and exhibit altered folding pathways compared with wild-type alpha.

131 ction of the EFoldMine predictions with both folding pathway data and the folded protein structure su

132 The protein folding pathway depends on the same foldon units and fol

133 ing the same topology, only the one with the folding pathway designed according to the 'free-end' rul

134 Is the folding pathway determined mainly by secondary structure

135 These results identify the RNA folding pathway during telomerase biogenesis and define

136 Two main parallel folding pathways emerge in the later stage; one path sho

137 Different folding pathways encounter different numbers of such bar

138 Specifically, this folding pathway explains the metal-ion dependent formati

139 show that, by PA tuning, the PILs can select folding pathways featuring the postulated intermediates

140 TM domain interactions and the modeling of a folding pathway for A(2A)R.

141 Our data delineate a folding pathway for alpha-synuclein that ranges from a m

142 Our data delineate a folding pathway for alpha-synuclein that ranges from a p

143 ghly similar guanine-sensing riboswitch, the folding pathway for the adenine-sensing riboswitch aptam

144 Here, we effectively map part of the folding pathway for the model large multidomain protein,

145 Our technique is efficient enough to predict folding pathways for both large and small proteins at th

146 d different secondary and tertiary structure folding pathways for GlpG and DsbB that correlated with

147 ion of the model, we investigate the kinetic folding pathways for human telomerase RNA (hTR) pseudokn

148 he different structures, we propose possible folding pathways for this protein.

149 , for CFTR, and likely on chaperone-assisted folding pathway, for F508del CFTR.

150 new algorithm that computes a nearly optimal folding pathway from A to B.

151 Its folding pathway from secondary structure to tertiary str

152 lo simulation, which stochastically extracts folding pathways from the map.

153 chniques, it is possible to observe complete folding pathways, from fractions of a millisecond all th

154 ing thermal behaviors locally and predicting folding pathways globally.

155 le existence of an intermediate state in the folding pathway have arisen.

156 ltakappaT ) between all the states along the folding pathway have been determined to reasonable accur

157 the effects of temperature on the oxidative folding pathway have been examined.

158 suggest that the rate-limiting steps in the folding pathway have not been altered by circular permut

159 which all significantly shorter alternative folding pathways have an energy barrier that is [Formula

160 luence of pseudoknotted intermediates on the folding pathway, however, appear to depend very strongly

161 t with K(+) than Na(+), suggesting a simpler folding pathway in K(+) solutions.

162 nzae have led to the characterisation of its folding pathway in some detail.

163 s; they are processed by the Mia40 oxidative-folding pathway in the intermembrane space and probably

164 oop-receptor docking introduces an alternate folding pathway in the otherwise smooth energy landscape

165 ggests the existence of an oxidative protein-folding pathway in this organism.

166 Here, we have reconstituted the oxidative folding pathway in vitro with Tim13 as a substrate and d

167 quickly and efficiently through an intrinsic folding pathway in vitro.

168 Our results revealed a multistep TL/TLR folding pathway in which preorganization of the ubiquito

169 This carefully orchestrated folding pathway, in which formation of an active-site do

170 ation of the scope of diversity of disulfide folding pathways, including the two opposite extreme mod

171 graph is used to organize and visualize the folding pathways initiated from random coils.

172 The preferred folding pathway involves initial formation of the proxim

173 ution optical trap, we found that the native folding pathway involves only two states, without eviden

174 Whether the folding pathway is altered by interdomain interactions i

175 spite large sequence divergence, the overall folding pathway is conserved over billions of years of e

176 The folding pathway is determined by a sequential stabilizat

177 shift to client protein degradation when the folding pathway is inhibited.

178 We show that the transition state on a folding pathway is reached when a small number of critic

179 The folding pathway is revealed here to be hierarchical thro

180 ), the DsbA-dependent thio-oxidative protein-folding pathway is thought to introduce a disulphide bon

181 shows that although the presence of multiple folding pathways is an intrinsic property of GlpG's modu

182 at the initial conformation, rather than the folding pathway, is the major determinant of whether the

183 x with the chaperone Hsp90 that mediates the folding pathway leading to the production of functional

184 Different folding pathways leading to conformationally similar tra

185 he ribosomal tunnel establishes the possible folding pathways leading to its native tertiary structur

186 Because protein folding pathways leading to knotted native protein struc

187 ive a systematic description of the Trp-cage folding pathways, leading to a unified view for the fold

188 ile mutant StAR is generated by an alternate folding pathway making it inactive.

189 eriments highlight the complex nature of the folding pathway, many additional intermediate structures

190 This oxidative protein folding pathway may be a common feature in Actinobacteri

191 rogeneity of the reaction friction along the folding pathway may have subtle consequences.

192 The folding pathway, monitored by tryptophan fluorescence, w

193 lasmic conformer involves an export-related, folding pathway not present in E. coli.

194 to the full reconstruction of the vectorial folding pathway of a large polypeptide, the 253-residue

195 ormly sampled NMR methods we investigate the folding pathway of amyloidogenic and nonamyloidogenic va

196 of the GroEL/GroES chaperonin system on the folding pathway of an 82-kDa slow folding protein, malat

197 the effects of F helix stabilization on the folding pathway of apomyoglobin, we have introduced muta

198 sulfide (GSSG) and no glutathione (GSH), the folding pathway of BPTI proceeds through a nonproductive

199 KIX, we found a remarkable plasticity of the folding pathway of c-Myb.

200 that DnaK binding can significantly bias the folding pathway of client substrates such that secondary

201 The folding pathway of common-type acyl phosphatase (ctAcP)

202 presence of obligate intermediates along the folding pathway of D135.

203 The folding pathway of Escherichia coli RNase H is one of th

204 The lowest action folding pathway of FSD-1 is consistent with recent exper

205 to predict the most energetically favorable folding pathway of large proteins with hundreds of resid

206 tified seven in vivo states on the oxidative-folding pathway of LptD.

207 We propose that the folding pathway of LysM is dominated by enthalpic rather

208 In this study, a mechanism for the oxidative folding pathway of ONC is proposed.

209 cies, des-[65-72], involved in the oxidative folding pathway of RNase A, was destabilized.

210 ns did not affect the overall conformational folding pathway of RNase A.

211 ffect of a folded neighbouring domain on the folding pathway of spectrin R16 (the 16th alpha-helical

212 The folding pathway of such a single domain is found to be c

213 tein engineering methods, we re-examined the folding pathway of T4-lysozyme.

214 perimental and computational analysis of the folding pathway of the 17th domain of chicken brain alph

215 ess this possibility, we probed the tertiary folding pathway of the 5' domain of the Escherichia coli

216 toward the C-terminal repeats, rerouting the folding pathway of the ankyrin repeat domain.

217 The ultrafast folding pathway of the engrailed homeodomain has been ex

218 d in our promising simulation results on the folding pathway of the engrailed homeodomain.

219 edict the thermodynamic behavior and kinetic folding pathway of the hairpin ribozyme.

220 The folding pathway of the histone H2A-H2B heterodimer minim

221 ms to play a key role determining the proper folding pathway of the precursor and, thus, its stabilit

222 an RNA catalyst suggests that the intrinsic folding pathway of the rRNA dictates the hierarchy of ri

223 of this class of mutants for aspects of the folding pathway of thioredoxin and for its mechanism of

224 olding intermediate in the acid renaturation folding pathway of this protein reflected in the distrib

225 To characterize the folding pathway of this protein we carry out a Phi-value

226 In particular, we have investigated the folding pathway of two homologous proteins, Ros87, which

227 A plausible model for the folding pathway of ubiquitin is presented that demonstra

228 e to engineer a well-resolved I-state on the folding pathway of ubiquitin which is likely to be struc

229 m that which is only weakly populated on the folding pathway of wild-type ubiquitin.

230 oductive or obstructive intermediates on the folding pathway of yeast wild-type ubiquitin ( wt-Ub) co

231 he door to a systematic investigation of the folding pathways of a large number of globular proteins.

232 We investigated the unfolding and folding pathways of actin, using stopped flow fluorescen

233 e way in which sequence dictates alternative folding pathways of gene regulation remains unclear.

234 bout the thermodynamic forces that drive the folding pathways of higher-order RNA structure.

235 tool to explore the mechanical stability and folding pathways of individual proteins.

236 to some simulations indicating that even the folding pathways of knotted proteins have some plasticit

237 velopment facilitates the examination of the folding pathways of large proteins, which are predominan

238 rgely determined by their topology, then the folding pathways of members of existing folds could enco

239 ps among the intermediates that populate the folding pathways of most large RNA molecules.

240 ble to recognize the differences between the folding pathways of protein G and its two structurally s

241 xplain how the presence of links affects the folding pathways of proteins.

242 ciples that determine the thermodynamics and folding pathways of RNA pseudoknots is an important prob

243 The folding pathways of RNase B were determined to be simila

244 iled enough to distinguish between different folding pathways of structurally very similar proteins,

245 gy in RNA folding, we determined the kinetic folding pathways of two circularly permuted variants of

246 The oxidative folding pathways of two four-disulfide proteins of the r

247 Such a stepwise folding pathway offers a new target for drug design agai

248 plexes can help generate specificity along a folding pathway or during a gene regulation event.

249 broader application to proteins with complex folding pathway or multi-subunit is restricted by incorr

250 se kinetics with the possibility of parallel folding pathways, or formation of a highly compact I-sta

251 The folding pathways proceed through a series of intermediat

252 the intermediates that are formed along the folding pathway provide valuable insights into the proce

253 distinguishable states present in a protein folding pathway provides not only the kinetics and energ

254 e analysis of folding rates, Phi-values, and folding pathways provides support for the notion that a

255 Folding pathway reconstruction from a multitude of these

256 eic acids that are "guaranteed" to have long folding pathways relative to their length.

257 Since experimental determination of protein folding pathways remains difficult, computational techni

258 Loss of F508 in CFTR alters the folding pathway resulting in endoplasmic-reticulum-assoc

259 of 2000 macrostates transited by the top 10 folding pathways reveals that native-like pairing betwee

260 C)-to-PrP(Sc) conversion is to elucidate the folding pathway(s) of the prion protein.

261 g a means to connect topology, sequence, and folding pathway selection.

262 ents that consistently follow a well-defined folding pathway; separate simulations of the protein's c

263 tical bias, which is indicative of preferred folding pathways, should be amenable to future single-mo

264 Folding pathways, sometimes called routes or trajectorie

265 ics of key intermediates along the oxidative folding pathway, specifically, the structured intermedia

266 tructures, which form sequentially along the folding pathway, stabilized by tertiary interactions.

267 ases crucially depends on the details of the folding pathways such as stable folding intermediates or

268 loidogenesis appears to be an innate protein folding pathway that can be capitalized on to fulfill no

269 ctivity of FRET states reveal details of the folding pathway that complement and transcend informatio

270 y reaction it mediates, including a stepwise folding pathway that helps explain the fidelity of DAXX

271 35 group II intron ribozyme follows a unique folding pathway that is direct and appears to be devoid

272 ding energy landscape to create a non-native folding pathway that leads to an aberrant SRP19-RNA conf

273 physical interactions emphasizes the complex folding pathways that are important even for these small

274 ertiary structure increases the flux through folding pathways that lead directly and rapidly to the n

275 tion is difficult to rationalize by "zipper" folding pathways that require native turn formation as t

276 ces with high probability follow low-barrier folding pathways that visit a large number of distinct s

277 cent experimental data on YibK, two parallel folding pathways that we attribute to an early and a lat

278 cant sequence similarity and have dissimilar folding pathways, the two domains have a similar native

279 an algorithm that guides the construction of folding pathways through the formation and destruction o

280 f adjacent E and G5 domains along a parallel folding pathway, thus maintaining cooperative folding.

281 e efficient interactions along the oxidative folding pathway to adopt its native fold more rapidly.

282 decision windows at which SAM can affect the folding pathway towards the OFF state.

283 We have now characterized the folding pathway under near-physiological conditions.

284 The minor folding pathway was initiated by the register-shifted sh

285 A two-step divalent metal ion dependent folding pathway was observed for the ribozyme-substrate

286 i1p is thought to be dedicated to the client folding pathway, we earlier showed that Sti1p regulated

287 In the course of determining this folding pathway, we established that the fluorescent dC

288 le existence of an intermediate state on the folding pathway, we measure the power spectrum of force

289 To predict a protein-folding pathway, we present an alternative to the time-c

290 ng the influence of glycosylation on protein folding pathways, we have developed a semisynthetic rout

291 92L on both the conformational and oxidative folding pathways were examined to determine the role of

292 f the formation of tertiary structure on the folding pathway, which complements previous hydrogen-exc

293 the topology of the protein early along the folding pathway, which help to explain the process by wh

294 ti1p mutations variously impaired the client folding pathway, which requires both Hsp70 and Hsp90.

295 We find evidence for the existence of two folding pathways, which differ by the order of formation

296 ructures confirms the existence of efficient folding pathways, while the shape distribution provides

297 functional intermediate in the beta-tubulin folding pathway whose activity is regulated by the cycli

298 mutational analysis revealed a highly robust folding pathway with no detectable transition state plas

299 The tight coupling of protein folding pathways with disposal mechanisms promotes the e

300 lable designs of molecules whose low-barrier folding pathways, with respect to a simple, stacked pair