ライフサイエンスコーパス: folding pathway

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

2 mation of native topology in the spontaneous folding pathway.

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

4 has profound effects on guiding the protein folding pathway.

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

6 host endoplasmic reticulum (ER) glycoprotein folding pathway.

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

8 ecule fluorescence detection of the ribozyme folding pathway.

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

10 laces these intermediates off the productive folding pathway.

11 ions while retaining the overall binding and folding pathway.

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

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

14 tein structure is determined early along the folding pathway.

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

16 asmic/IFT dynein heavy chains use a distinct folding pathway.

17 uggest that they are intermediates along the folding pathway.

18 folding with many intermediate steps in the folding pathway.

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

20 on is supplied about their complex multistep folding pathway.

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

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

23 of different transitions within a protein's folding pathway.

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

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

26 lts suggest that local stabilities determine folding pathways.

27 t role of nonnative interactions in defining folding pathways.

28 rmine the relative flux through parallel RNA folding pathways.

29 erones cooperate in evolutionarily conserved folding pathways.

30 tence of many possible metastable states and folding pathways.

31 erized structurally for elucidation of their folding pathways.

32 misfolding directly by mapping out nonnative folding pathways.

33 omolecule in presence of seemingly unlimited folding pathways.

34 en the ribosome and nascent polypeptide skew folding pathways.

35 tial phases reflect the presence of parallel folding pathways.

36 uch simulations might influence the observed folding pathways.

37 potentially independent factors that create folding pathways.

38 path algorithm to reveal atomically detailed folding pathways.

39 nt for rationalizing experimentally observed folding pathways.

40 imentally verifiable conjecture about likely folding pathways.

41 ructure guides pollen grains toward distinct folding pathways.

42 t contribution towards understanding protein folding pathways.

43 ded reduced proteins, can compromise protein folding pathways.

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

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

46 process to switch from misfolding to native folding pathways.

47 is a popular paradigm for simulating protein folding pathways.

48 ing from the superposition of three parallel folding pathways.

49 folding precludes the emergence of alternate folding pathways.

50 ry structures, thereby changing the tertiary folding pathways.

51 e the free energy profile associated to both folding pathways.

52 ing that nascent GPCRs can adopt alternative folding pathways.

53 lding intermediates and their progression in folding pathways.

54 was also applied to hairpins with multistate folding pathways.

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

56 How do such vectorial constraints impact the folding pathway?

57 The folding pathway also reveals the obligatory attainment o

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

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

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

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

62 complex, revealing new details of the usher folding pathway and BAM complex function.

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

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

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

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

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

68 highly specific effects of NTZ on the usher folding pathway and have uncovered NTZ analogs that spec

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

84 denatured proteins, significantly affecting folding pathways and kinetics.

85 show that our method can accurately predict folding pathways and Monte-Carlo rates for the well-char

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

87 Here, we investigate the folding pathways and stability of numerous late-transcri

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

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

90 for drug design, but greater insight into GQ folding pathways and the interactions stabilizing them i

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

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

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

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

95 ional states will not have evolved efficient folding pathways and, therefore, will require a random s

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

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

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

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

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

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

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

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

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

105 New folding pathways are identified in free-energy landscape

106 Long folding pathways are interesting, because they demonstra

107 he cooperative nature of the reaction, their folding pathways are remarkably more malleable, due to t

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

109 The predicted folding pathways are supported by the activation energy

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

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

112 he experimental observation of heterogeneous folding pathways as predicted by the landscape theory.

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

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

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

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

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

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

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

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

121 For the latter, we propose a novel folding pathway based on the idea that a loose knot form

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

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

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

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

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

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

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

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

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

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

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

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

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

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

136 theory of protein folding predicts multiple folding pathways connecting a myriad of unfolded conform

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

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

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

140 Is the folding pathway determined mainly by secondary structure

141 reduced misfolding propensity and allowed a folding pathway different from refolding.

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

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

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

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

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

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

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

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

150 lgorithm, entitled DBFOLD, which can predict folding pathways for a wide range of proteins while acco

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

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

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

154 s proven extremely beneficial in elucidating folding pathways for membrane proteins.

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

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

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

158 Its folding pathway from secondary structure to tertiary str

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

174 n-binding primarily occurred through induced-folding pathways (in which intermolecular contacts form

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

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

177 Phase diagrams of pollen folding pathways indicate that an increase in the number

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

179 Our results suggest a strictly sequential folding pathway initiating from the C-terminus.

180 The preferred folding pathway involves initial formation of the proxim

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

182 Whether the folding pathway is altered by interdomain interactions i

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

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

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

186 The folding pathway is revealed here to be hierarchical thro

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

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

189 ct experimental observation of heterogeneous folding pathways is difficult.

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

191 Different folding pathways leading to conformationally similar tra

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

193 Because protein folding pathways leading to knotted native protein struc

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

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

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

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

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

199 The folding pathway, monitored by tryptophan fluorescence, w

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

216 somal interactions have little impact on the folding pathway of RNase H.

217 Together, these results imply that the folding pathway of RNH is unchanged on the ribosome.

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

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

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

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

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

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

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

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

226 olded states, which we suggest lie along the folding pathway of the RNA.

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

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

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

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

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

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

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

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

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

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

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

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

239 of computation time required to compute the folding pathways of large, misfolding-prone proteins tha

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

241 ting the importance of ligand-binding in the folding pathways of other ligand-binding membrane protei

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

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

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

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

246 We used the approach to characterize the folding pathways of the Escherichia coli rhomboid protea

247 ral transitions within the cotranscriptional folding pathways of the Escherichia coli signal recognit

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

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

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

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

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

253 The folding pathways proceed through a series of intermediat

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

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

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

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

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

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

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

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

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

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

264 ding the mechanical principles behind pollen folding pathways should also prove useful for the design

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

266 Folding pathways, sometimes called routes or trajectorie

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

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

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

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

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

272 35 group II intron ribozyme follows a unique folding pathway that is direct and appears to be devoid

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

274 epleted cells as intermediate states along a folding pathway that leads to the formation of topologic

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

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

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

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

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

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

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

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

283 domain to mature and instead re-routed their folding pathway to enable concerted maturation of other

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

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

286 altogether showing that a co-transcriptional folding pathway underpins the proper biogenesis of funct

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

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

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

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

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

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

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

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

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

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

300 subtle, perturbing predominantly the protein folding pathway without radically altering the final str