ライフサイエンスコーパス: folding mechanism

1 circumvent their slow, frustrated wild-type folding mechanism.

2 ing and we have determined their role in the folding mechanism.

3 ropy of the chain is not responsible for the folding mechanism.

4 ts thereof, presumably reflecting a stepwise folding mechanism.

5 d molecular dynamics to elucidate the entire folding mechanism.

6 t if simulations are to be used to interpret folding mechanism.

7 s achieved only at the very last step in the folding mechanism.

8 equilibrium and kinetic intermediate in its folding mechanism.

9 e interpretation of the observed early stage folding mechanism.

10 elf, seems not to suffice in determining the folding mechanism.

11 a minimum of 0.8 kcal/mol, depending on the folding mechanism.

12 and, for some proteins, could even alter the folding mechanism.

13 es the stochastic separatrix for a two-state folding mechanism.

14 mulations are not always consistent with the folding mechanism.

15 ich topology plays a determinant role in the folding mechanism.

16 cs without perturbing the apparent two-state folding mechanism.

17 or predicts well the experimentally observed folding mechanism.

18 se an observable change in the nature of the folding mechanism.

19 tion of a stable triple helix but alters the folding mechanism.

20 sequence variation while conserving the same folding mechanism.

21 tailed mechanistic information regarding the folding mechanism.

22 elical propensity as a factor in determining folding mechanism.

23 perties, stability, secondary structure, and folding mechanism.

24 olypeptide chain to fold but does affect its folding mechanism.

25 on-dependent and had a potentially different folding mechanism.

26 tion path theory allowed analysis of the (un)folding mechanism.

27 rougher energy landscape nor does change its folding mechanism.

28 en it is applied to investigate the Trp-cage folding mechanism.

29 he folded state is consistent with a zip-out folding mechanism.

30 be essential for a deep comprehension of the folding mechanism.

31 provides key constraints that shape protein folding mechanisms.

32 dered proteins and for investigating protein-folding mechanisms.

33 es of intrinsically disordered protein (IDP) folding mechanisms.

34 cterization is crucial to the elucidation of folding mechanisms.

35 t the sequence and steps involved in protein folding mechanisms.

36 lities of the isolated helices control their folding mechanisms.

37 decide between these fundamentally different folding mechanisms.

38 ctures is critical for understanding protein folding mechanisms.

39 le application to study broad classes of RNA folding mechanisms.

40 critical step toward elucidation of protein-folding mechanisms.

41 ambda repressor mutants support all standard folding mechanisms.

42 neity for a quantitative characterization of folding mechanisms.

43 d to play a key role in hierarchical protein folding mechanisms.

44 e impact of ionization equilibria on protein folding mechanisms.

45 or understanding propeptide-mediated protein folding mechanisms.

46 and experimental approaches to investigating folding mechanisms.

47 ions yield unparalleled insight into protein folding mechanisms.

48 d denatured states result in two alternative folding mechanisms.

49 ique means of characterizing flexibility and folding mechanisms.

50 acts play no significant part in determining folding mechanisms.

51 rmediates and the consequences of packing on folding mechanisms.

52 asurements can provide insights into protein folding mechanisms.

53 (b) What is the folding mechanism?

54 spects of water important in determining the folding mechanism?

55 emanate from the failure of a mutual protein folding mechanism?

56 f these proline residues and to simplify the folding mechanism, a series of double and triple mutants

57 We uncover shifts in the folding mechanism among ordered domain-wise folding, bac

58 we ask: Are the experimental differences in folding mechanisms among members of a particular structu

59 ults have implications for understanding the folding mechanism and evolution of multi-domain proteins

60 cular interface that ultimately dictates the folding mechanism and overwhelms any local folding prefe

61 five key residues is sufficient to alter the folding mechanism and reduce the landscape roughness.

62 tructural understanding of its ATP-dependent folding mechanism and substrate recognition is therefore

63 A comparison between the observed folding mechanism and that of a peptide beta-hairpin ana

64 olding studies, and thus can affect both the folding mechanism and the kinetics.

65 Motivated by the relationship between the folding mechanism and the native structure, we develop a

66 tions contain valuable information about the folding mechanism and the nature of the transition state

67 We found, however, that the folding mechanism and the properties of the unfolded sta

68 r investigations of the relationship between folding mechanism and topology.

69 these behaviors along with implications for folding mechanisms and computer simulations thereof.

70 tion fits well into the framework of several folding mechanisms and confirms features that up to now

71 op hairpins, and provide insights into their folding mechanisms and kinetics in atomistic detail.

72 ts are a powerful experimental tool to probe folding mechanisms and more recently have been used to d

73 at can provide important insights into their folding mechanisms and stability.

74 The general kinetic folding mechanisms and the predicted great variety of fo

75 further investigated the coupled binding and folding mechanisms and the roles of electrostatic forces

76 Understanding protein folding mechanisms and their sequence dependence require

77 t topology alone cannot always determine the folding mechanism, and demonstrated that the balance bet

78 mplications of this multistep conformational folding mechanism are discussed with regard to regulatio

79 his result for the validity of the simulated folding mechanism are discussed.

80 To test the hypothesis that protein folding mechanisms are better conserved than amino acid

81 ns of these findings for chaperonin-assisted folding mechanisms are discussed.

82 These different folding mechanisms are likely a consequence of the very

83 ss of protein structural elements, yet their folding mechanisms are not fully understood.

84 The origins of parallel folding mechanisms are not well understood.

85 Two folding mechanisms are possible, one of which involves a

86 ed over the past two decades; however, their folding mechanisms are still not well understood.

87 Cotranslational folding mechanisms are therefore linked to elongation ra

88 eproduce the essential features of a protein folding mechanism as well as to account for regions invo

89 eins are important for understanding protein-folding mechanisms as well as the interactions of unfold

90 formational relaxation kinetics of different folding mechanisms at a given final condition will show

91 simulation and experiment to unravel complex folding mechanisms at the molecular level.

92 Differences in the folding mechanism between ONC and RNase A are attributed

93 erimentally-verifiable insights into protein folding mechanisms, but existing ab initio simulation me

94 how the cellular environment affects protein folding mechanisms, but most spectroscopic methods for m

95 A re-examination of the kinetic folding mechanism by chevron analysis of fluorescence da

96 we can recapitulate the key features of the folding mechanism by computational analysis of the nativ

97 n NMR was used to elucidate the PS-catalyzed folding mechanism by examining the key equilibrium state

98 olecules, (GAGAGAGQ)10, to shed light on the folding mechanism by which silk-inspired polypeptides fo

99 s provide residue-resolved information about folding mechanisms by comparing the effects of mutations

100 RNA and protein folding mechanism can be described by the kinetic partit

101 ics is more two-state-like in the ER, so the folding mechanism can be modified by intracellular compa

102 We also find that the folding mechanism cannot be described by a simple two-st

103 Knowledge of folding mechanisms centres on reversible folding of chem

104 a rather smooth energy landscape, where the folding mechanism conforms a one-dimensional approximati

105 the A39P mutant follows a two-state N <--> U folding mechanism consistent with the second transition

106 emble and the proposed atomic picture of the folding mechanism coupled to binding provide a microscop

107 These results indicate that a processive folding mechanism, dependent on stacking contacts, contr

108 lassical helix-coil transition theories, the folding mechanism derives from nonadditivity in conforma

109 is explained in the context of a dual-basin folding mechanism described above.

110 ificantly perturbing cotranslational protein folding mechanisms, despite the chaperoning provided by

111 rge characteristics, and coupled binding and folding mechanisms, driven at least partially by the nee

112 powerful tool for characterizing the complex folding mechanisms exhibited by the majority of proteins

113 e detailed and complete understanding of the folding mechanism, experiments have been carried out to

114 d as a likely alternative to the earlier 6+2 folding mechanism for alphaTS.

115 allel channels that characterize the complex folding mechanism for DHFR.

116 s of 130 trajectories suggests the following folding mechanism for protein A: At an early precollapse

117 Our theory identifies a common folding mechanism for proteins with diverse native struc

118 The kinetic folding mechanism for the alpha subunit of tryptophan sy

119 A kinetic folding mechanism for the alpha subunit of tryptophan sy

120 The kinetic folding mechanism for the H2A/H2B dimer has been determi

121 Here we developed the experimental protein folding mechanism for the lactose repressor (LacI), for

122 However, the predicted folding mechanism for the two motifs is different, refle

123 ar dynamics simulations (MD) showed that the folding mechanism for this protein has aspects of both t

124 ased simulation to investigate the threading/folding mechanisms for all the PLBs along with three unt

125 Comparison of the folding mechanisms for CheY, T4 lysozyme, and interleuki

126 ted native topology-based models predict the folding mechanisms for many proteins, for other proteins

127 ed proteins is explored by comparison of the folding mechanisms for members of the flavodoxin fold.

128 ntal and computational investigations of the folding mechanisms for such types of 3D objects reveal t

129 id reductoisomerases and present alternative folding mechanisms for the [Formula: see text]-knotted p

130 ositions along the sequence that perturb the folding mechanism from loop 1-limited toward loop 2-limi

131 nt to fold complex topologies and presents a folding mechanism generalizable to all known knotted pro

132 ide (GdmCl)-induced denaturation and kinetic folding mechanisms have been characterized for three arc

133 rly work, dedicated to understanding protein-folding mechanisms; his collaborative work with physicis

134 econds, on average, implying that there is a folding "mechanism," i.e., a particular set of events by

135 e of individual interresidue contacts in the folding mechanism: (i) the log-ratio of lifetimes of con

136 To investigate the folding mechanism in more detail, the folding kinetics o

137 Here, we show that Mss116 influences the folding mechanism in several ways.

138 The oxidative folding mechanism in the intermembrane space of human mi

139 Despite the overall conservation of folding mechanism in this protein family, however, the p

140 ddition, these data provide insight into the folding mechanism in vivo.

141 xP1 follows a three-state N2 <--> 2I <--> 2U folding mechanism in which dimer dissociation into a mon

142 simulations for protein G, where we obtain a folding mechanism in which the protein symmetry is broke

143 proximately 4.0 x 10(5) s(-1)) and support a folding mechanism in which the rate-limiting step corres

144 These results are interpreted in terms of a folding mechanism in which the turn is formed in the tra

145 ence should be useful in elucidating protein folding mechanisms in a site-specific manner.

146 e broadly applicable to the fine analysis of folding mechanisms in fast folding proteins.

147 owding of the intracellular medium, modulate folding mechanisms in physiologically relevant environme

148 ce fields provide an accurate description of folding mechanisms in small proteins.

149 Folding mechanisms in which secondary structures are sta

150 cases, there is substantial heterogeneity of folding mechanism, in others, such as Ubiquitin, the mec

151 xisting experimental methods therefore probe folding mechanisms indirectly.

152 tional free energy landscape and the complex folding mechanism inherent to the pseudoknot motif.

153 f intrinsically disordered proteins too, the folding mechanism is determined by the concentration of

154 dentified, and the order of events in the S6 folding mechanism is explored in detail.

155 y landscape theory requires that the protein-folding mechanism is generally globally directed or funn

156 While the global folding mechanism is in good agreement with simulation p

157 Given that this folding mechanism is induced by a mechanical instability

158 The folding mechanism is likely imposed by the final structu

159 es with very similar rates confirms that the folding mechanism is not perturbed by the F76W/W140H mut

160 Currently, the protein folding mechanism is often characterized by calculating

161 We show that the coupled binding and folding mechanism is overall similar but with a higher d

162 A study of the kinetic folding mechanism is presented in this report.

163 A two-step folding mechanism is proposed that involves an intermedi

164 n both cases, the first step in the proposed folding mechanism is rate limiting (hundreds of microsec

165 of native state topology in determining the folding mechanism is thought to be a quite general resul

166 We show that the folding mechanism is unaltered, but the folding nucleus

167 lue analysis of the C helix reveals that the folding mechanism is unchanged.

168 ifferent stabilities, and possibly different folding mechanisms, it is not known how these difference

169 nstead, they predominantly alter the protein folding mechanism, leading to enhanced degradation in vi

170 es to compare experiment and modeling at the folding mechanism level.

171 We suggest that this templated folding mechanism may enable intrinsically disordered pr

172 hat follows a highly cooperative three-state folding mechanism N2 <--> 2I <--> 2U.

173 n angle changes are an important part of the folding mechanism near the folding free energy barrier.

174 We find that neither the folding mechanism nor the TS of this protein are altered

175 t is difficult to assess the accuracy of the folding mechanisms observed because experiments cannot y

176 nsemble, and macromolecular stability on the folding mechanism of a large RNA using a combination of

177 effect of lipid composition in tailoring the folding mechanism of a membrane protein, revealing that

178 In this work, we describe the folding mechanism of a multidomain tandem construct comp

179 We study the folding mechanism of a three-helix bundle protein at ato

180 Our study also reveals novel aspects of the folding mechanism of alpha LA that have not been describ

181 So far, the folding mechanism of alpha-helical hairpins has not been

182 Here, we explore the membrane-mediated folding mechanism of an antimicrobial peptide, mastopara

183 transfer (smFRET), we have investigated the folding mechanism of an H-type pseudoknotted preQ1 ribos

184 The folding mechanism of BBL is under debate between the vie

185 The folding mechanism of BoINF-alpha appears to be compatibl

186 permutation causes no apparent change in the folding mechanism of CI2, but dramatic changes in the fo

187 ding and enables us to carefully examine the folding mechanism of each pathway rather than the macros

188 e absence of glycosylation did not alter the folding mechanism of EPO but did greatly decrease the st

189 Previous studies on the folding mechanism of Escherichia coli serine hydroxymeth

190 The folding mechanism of FIS, when compared to other intertw

191 ity of the free-energy landscape enables the folding mechanism of GB3 to be elucidated by analyzing t

192 ssential role of specific DJA domains in the folding mechanism of Hsc70.

193 o probe further the role of helix III in the folding mechanism of Im7, we created a variant that cont

194 In order to further characterize the folding mechanism of Im7, we have studied the conformati

195 ve thermodynamic and kinetic analysis of the folding mechanism of mSOD1 in the presence of the viscog

196 The investigation and understanding of the folding mechanism of multidomain proteins is still a cha

197 The folding mechanism of pectate lyase C (pelC) involves two

198 rize the effect of multiple mutations on the folding mechanism of protein S6.

199 If the folding mechanism of proteins is largely determined by t

200 es of sequence and topology in governing the folding mechanism of small proteins and provides further

201 As a prelude to studies on the folding mechanism of spectrin domains we present the kin

202 erimental support of the suggested unfolding/folding mechanism of Tel22.

203 Structural insights into the equilibrium folding mechanism of the alpha subunit of tryptophan syn

204 The proposed kinetic folding mechanism of the alpha-subunit of tryptophan syn

205 The folding mechanism of the archael histones is compared to

206 e concentrations of protein and lipid on the folding mechanism of the bacterial outer membrane protei

207 ing to develop a better understanding of the folding mechanism of the coiled-coil motif.

208 The method was applied in a study of the folding mechanism of the common model protein, the B dom

209 The kinetic folding mechanism of the cooperative subdomain, IkappaBa

210 s to characterize in atomic-level detail the folding mechanism of the fast-folding all-beta WW domain

211 tions of [2-66]2 TR have counterparts in the folding mechanism of the full-length protein.

212 ted for protein folding studies and that the folding mechanism of the glycoprotein of this Im7 varian

213 element in protein folding and binding, the folding mechanism of the helical hairpin motif has not b

214 The folding mechanism of the N-terminal domain of ribosomal

215 We investigate the folding mechanism of the preQ(1) riboswitch aptamer doma

216 Mutational analysis performed to probe the folding mechanism of the redesigned protein revealed a c

217 We investigate the folding mechanism of the WW domain Fip35 using a realist

218 The folding mechanism of this 16-subunit, 1-MDa machine is p

219 n interactions and the role they play in the folding mechanism of this geometrically stressed molecul

220 ected by encapsulation, a consequence of the folding mechanism of this protein that involves an initi

221 The folding mechanism of type I procollagen has been well ch

222 lene glycol buffer fundamentally changes the folding mechanism of ubiquitin.

223 The folding mechanism of villin is most consistent with the

224 milarities and differences in the chromosome folding mechanisms of bacteria and eukaryotes.

225 ing intermediates is a common feature of the folding mechanisms of beta alpha-repeat proteins, perhap

226 In this review, we compare and contrast the folding mechanisms of globular proteins with the emergin

227 in a conceptual framework for describing the folding mechanisms of globular proteins.

228 The folding mechanisms of helical membrane proteins remain l

229 Little is known about the general folding mechanisms of helical membrane proteins.

230 Research into the folding mechanisms of integral membrane proteins lags fa

231 problem in biology, both for elucidating the folding mechanisms of larger ribozymes as well as addres

232 However, very little is known about folding mechanisms of medium and large multidomain prote

233 Implications for the hierarchical folding mechanisms of proinsulin and insulin-like growth

234 The folding mechanisms of proteins are increasingly being pr

235 ite structural insights, the ligand-mediated folding mechanisms of riboswitches are still poorly unde

236 echanism of CI2, but dramatic changes in the folding mechanisms of S6 and of an SH3 domain, as determ

237 ted from the Markov state models, we examine folding mechanisms of the collagen triple helix and cons

238 y landscape of proteins, here we compare the folding mechanisms of the two alternative spliced forms

239 a(2)m, supporting the view that although the folding mechanisms of the two proteins are conserved, th

240 s to clarify the differences observed in the folding mechanisms of the various mutants.

241 Previous studies on the folding mechanisms of these motifs have revealed or sugg

242 pathways, leading to a unified view for the folding mechanisms of this protein.

243 oles of motif and amino acid sequence in the folding mechanisms of TIM barrel proteins, hydrogen-deut

244 Comparisons with the folding mechanisms of two other TIM barrel proteins, ind

245 ts monitored by CD and NMR, we show that the folding mechanisms of WT- and D76N-beta(2)m are conserve

246 ing a method for prediction of structure and folding mechanism, our model suggests that an accurate a

247 thermodynamics-based models of a general RNA folding mechanism, our observations indicate that stem-s

248 ry kinetic experiments suggest a complicated folding mechanism, providing opportunities for further c

249 stems, elucidating the essential features of folding mechanisms requires using multiple reaction coor

250 Here we explore how the folding mechanism responds to reshaping of the energy la

251 The global analysis of the kinetic folding mechanism reveals the presence of a fully folded

252 ng simulations, reproduce the differences in folding mechanism seen experimentally for proteins L and

253 sequence alignment, we conclude that similar folding mechanism should be observed in other WW domains

254 ge cluster, (ii) is thermostable and shows a folding mechanism similar to that of contemporary (betaa

255 ing (and unfolding), landscape roughness and folding mechanism, simply by substituting five residues

256 g of native structure that permits resolving folding mechanisms step-by-step at atomic resolution.

257 easing our ability to predict and tailor the folding mechanism, structure and stability of membrane p

258 d theory and experiment to support different folding mechanisms such as tissue buckling from mechanic

259 vious conjectures, we find a multiplicity of folding mechanisms, suggesting that Go-like models canno

260 This kinetically efficient folding mechanism suggests a fast ligand-binding respons

261 n feature of a dimeric intermediate in these folding mechanisms suggests that this intermediate may a

262 The folding mechanism switched from being predominantly a CS

263 ts native alpha/beta parallel topology via a folding mechanism that contains an off-pathway intermedi

264 CARD folds and unfolds rapidly and suggest a folding mechanism that contains parallel channels with t

265 e that these differences arise from a single folding mechanism that forms contacts on different times

266 tended conformational selection" synergistic folding mechanism that involves a key intermediate state

267 of enzymatic functions, but also a conserved folding mechanism that involves on- and off-pathway inte

268 Our findings suggest a folding mechanism that involves two kinetic steps with i

269 n the folding of these proteins, including a folding mechanism that is reminiscent of a nucleation pr

270 vides a detailed level of description of the folding mechanism that we correlate to features of the f

271 domain proteins show equilibrium and kinetic folding mechanisms that appear to be adequately describe

272 For proteins with complex folding mechanisms that have especially broad, asymmetri

273 The data provide detailed insight into the folding mechanisms that underpin the functionality of th

274 he peptides are considered with the proposed folding mechanism, the results can be interpreted to def

275 ed amino-acid sequences with made-to-measure folding mechanisms-the Holy Grail of protein folding.

276 At the same time, for simple folding mechanisms, there is no indication of superiorit

277 he relationship between protein topology and folding mechanism to a larger protein with complex topol

278 oposed N-terminal folding domain allowed the folding mechanism to be probed in the context of the int

279 s, reduce landscape roughness, and alter the folding mechanism to one resembling R15.

280 and microscale thermophoresis, which allowed folding mechanisms to be characterized using just microg

281 A three-state folding mechanism U right arrow over left arrow I right

282 This unanticipated nonhierarchical folding mechanism was directly validated by examining th

283 Its folding mechanism was probed by mutation at sites throug

284 Taken together, these results support the folding mechanism we proposed before, which suggests tha

285 ondary structure and topology in determining folding mechanism, we have carried out a phi-value analy

286 ng the major experimental studies of the BBL folding mechanism, we show that simulations of both coar

287 y macromolecular crowding effects on protein folding mechanisms, we investigated the folding energy l

288 the structure of the native protein and its folding mechanism were studied using NMR and varphi-valu

289 electrostatically accelerated encounter and folding mechanisms were consistently predicted for all t

290 raditionally measured experimental rates and folding mechanism when starting from an equilibrated DSE

291 Taken together, our results support a folding mechanism wherein at least one folding intermedi

292 Our results support a beta-hairpin folding mechanism wherein the rate-limiting event corres

293 conversion from a three-state to a two-state folding mechanism, which is explained most easily throug

294 stability and follows an unusual three-state folding mechanism, which might proceed via transient str

295 provided energetic bases for construction of folding mechanisms, which varied among different folding

296 enerate detailed atomistic models of protein folding mechanisms while shedding light on the role of n

297 erves as a model for the coupled binding and folding mechanism widely used to mediate protein-protein

298 While they share a similar folding mechanism with a common core of key residues in

299 The most definitive proof of a putative folding mechanism would be whether it speeds up protein

300 ogy plays a dominant role in determining the folding mechanism, yet an analogous statement has not be