ライフサイエンスコーパス: folding

1 plexes is key to understand co-translational folding.

2 d by the secretory pathway that impede their folding.

3 ternative mechanisms that may also alter its folding.

4 intermolecular disulfide bonding and protein folding.

5 al source of internal chain friction-limited folding.

6 from the energy landscape theory of protein folding.

7 and it disengages concomitant with substrate folding.

8 onal tuning to balance protein synthesis and folding.

9 how disease-associated mutations may impact folding.

10 n the location of the free-energy barrier to folding.

11 e of this technique for the study of protein folding.

12 ture influences evolution of cotranslational folding.

13 op-sequence and ionic effects on RNA hairpin folding.

14 the AhpD core motif is important for SpAhpD folding.

15 , experiences internal chain friction during folding.

16 XBP1s, which facilitates ER-mediated protein folding.

17 nhibitors and drugs that promote collagen IV folding.

18 ns in peptidomimetic drug design and protein folding.

19 stiffening of the basement membrane promotes folding.

20 d intermediate that competes with productive folding.

21 evealed its distinct contributions to genome folding.

22 BM model for cerebral cortical expansion and folding.

23 s revise the compensation theory of cortical folding.

24 contact topologies to evolve cotranslational folding.

25 BAM) in the outer-membrane for insertion and folding.

26 ute to product, while ensuring a cooperative folding.

27 fusion proteins to facilitate expression and folding.

28 causal factor in the development of cortical folding.

29 ents" to the primary chaperone for efficient folding.

30 /h), and ADLs: ADL1 (getting dressed), ADL2 (folding 8 towels), ADL3 (putting away 6 bottles), ADL4 (

31 hapes and robotic behaviors, demonstrated by folding a letter shape "M," a dynamic gripper, and a dyn

32 we demonstrate that nonequilibrium two-state folding, a hallmark of FimA with the Nte inserted in the

33 Elastic folding, a phenomenon widely existing in nature, has att

34 n powerfully impact protein production rate, folding, activity, and messenger RNA stability.

35 d (Cascade variation/covariation Constrained Folding algorithm), predicts a nested structure guided b

36 For the network describing protein folding along competing pathways, the probabilities of p

37 Proteinopathies result from aberrant folding and accumulation of specific proteins.

38 shock protein (Hsp90) assists the late-stage folding and activation of diverse types of protein subst

39 r chaperone that is essential for the proper folding and assembly of myosin into muscle thick filamen

40 Correct folding and assembly of the heterodimer were confirmed b

41 llisecond conformational dynamics of protein folding and binding of disordered proteins.

42 te", motif-based ligand binding, and coupled folding and binding of intrinsically disordered ligands

43 hese results demonstrate how non-cooperative folding and conformational exchange leads to graded inhi

44 Chaperones can mediate both protein folding and degradation.

45 op structure-based models to investigate the folding and DNA-binding processes of the multidomain Y-f

46 protein biosynthesis, including the correct folding and expression of integral membrane proteins.

47 d soft layers, originally introduced via the folding and forging techniques of skilled blacksmiths-we

48 -plastic regime and was accommodated through folding and fracturing.

49 only a relevant quantity in cellular protein folding and function, but also a convenient parameter fo

50 tly implicated N-glycans in Klotho's protein folding and function.

51 choring to the NPC contributes to chromosome folding and helps to control gene expression.

52 ng the trajectory of cotranslational protein folding and in characterizing the dynamic properties of

53 hysico-chemical processes, including polymer folding and information storage.

54 In Gram-negative bacteria, the folding and insertion of beta-barrel outer membrane prot

55 understanding of membrane-associated peptide folding and insertion, we have studied the kinetics of t

56 ues have enabled direct tracing of chromatin folding and multiplexed imaging of nucleome architecture

57 Finally, our alternative approach to protein folding and native-state dynamics presents a generally a

58 examine entropic corrections associated with folding and potential secondary and tertiary structure o

59 , learns the sequence determinants of genome folding and predicts the impact of both large-scale stru

60 rs of protein homeostasis, assisting protein folding and preventing aggregation of misfolded proteins

61 These results provide insights into collagen folding and quality control with the potential to inform

62 Purified UNC-45B mutants showed changes in folding and solubility.

63 e codons can impact co-translational protein folding and that positions of some rare codons are evolu

64 Although oxidative protein folding and the UPR/ERAD pathways each are well-understo

65 n stably associate with the substrate during folding and then turn over rapidly when folding is compl

66 O4 leads to a trade-off between fast, stable folding and tight functional DNA binding.

67 tor (HDACi) valproic acid (VPA) corrects the folding and trafficking defect associated with I1061T-NP

68 1T variant of NPC1, which exhibits defective folding and trafficking from the endoplasmic reticulum t

69 ir synthesis in the endoplasmic reticulum to folding and trafficking via the secretory pathway, optim

70 including mitochondrial functioning, protein folding and ubiquitination pathways.

71 ligand-binding affinity, monitoring protein folding and unfolding and determining hidden conformatio

72 sis and force-profile analysis, to probe the folding and unfolding pathways of RNase H (RNH) nascent

73 trol in the force range relevant for protein folding and unfolding, from which single-molecule kineti

74 24 heat shock chaperones involved in protein folding and with the up-regulation of the global regulat

75 emed pathogenic for TA likely affect protein folding and/or stabilization, leading to decreased WNT s

76 thesis of molecular knots focus on twisting, folding and/or threading molecular building blocks.

77 the context of transcription elongation, RNA folding, and ligand binding.

78 ighly enriched for genes involved in protein folding, and most transcript levels returned more slowly

79 te interplay between protein translation and folding, and within this the ribosome particle is the ke

80 However, polyploidy challenges chromosome folding architecture in the nucleus to establish functio

81 Precise protein sequencing and folding are believed to generate the structure and chemi

82 cular conformational changes such as protein folding are predicted to be heterogeneous.

83 into proteins with 2/2 or 3/3 alpha-helical folding around the heme cavity.

84 evels of either greatly disrupts genome-wide folding as assayed by chromosome conformation capture me

85 pombe was similarly sensitive to transcript folding, as were S. cerevisiae RNAPII and RNAPIII.

86 ization (3D-EMISH) to visualize 3D chromatin folding at targeted genomic regions with ultra-resolutio

87 cture of the BAM complex of Escherichia coli folding BamA itself.

88 The gene expression profile, before folding begins in the maturing brain, was significantly

89 to the generally accepted model that protein folding begins with hydrophobicity-driven chain collapse

90 to also study interfacial proteins and their folding, binding, orientation, hydration, and dynamics.

91 ivity and a propensity for G-quadruplex (G4) folding, both of which depend upon sequence context.

92 e formed during a single cooperative step of folding but occurs at the expenses of a large increment

93 enables the dynamic regulation of chromatin folding by cohesin and CTCF.

94 erally relevant to substrate recruitment and folding by CRT.

95 dines (TPYs) in the inner rim for subsequent folding by selective intramolecular coordination.

96 We find that the metal-ion-induced folding can proceed with stereoinduction: in the case of

97 The folding capacity of the ER is regulated by the unfolded

98 on, unfolded nascent proteins may exceed the folding capacity of the ER, activating the unfolded prot

99 ts were used to demonstrate that the protein folding capacity significantly influences PlAMV accumula

100 f cellular components such as chaperones and folding catalysts.

101 fied 1,445 proteins, associated with protein folding, cell-cell adhesion, NADH dehydrogenase activity

102 ose that cells can use DR5 as a late protein-folding checkpoint before committing to a terminal apopt

103 Cortical-folding complexity quantified using local gyrification i

104 helical peptidomimetics, which have similar folding conformation to alpha-peptides, making them an i

105 Proteins must maintain proper folding conformations and express the correct post-trans

106 can be alleviated in vivo if proteins start folding cotranslationally.

107 ver, restoration of the NBD1 cotranslational folding defect by second site suppressor mutations also

108 ions suggests that pathogenesis results from folding defects and the disruption of autoinhibition and

109 -type A(1)-receptor and A(1)R-Y288A(7.53) (a folding-deficient variant used as a reference), respecti

110 h multifaceted strategies to monitor protein folding, degradation, trafficking, and aggregation in ce

111 optimal temperature appears to delay block 3 folding, demonstrating the flexible nature of the assemb

112 redicted not to benefit from cotranslational folding due to a lack of significant nonnative interacti

113 Since RNA initiates folding during its synthesis, we used high-resolution op

114 G4s in living cells without perturbing their folding dynamics are required to understand their biolog

115 Capturing the folding dynamics of large, functionally important RNAs h

116 ic tape head tweezers design, we measure the folding dynamics of single talin proteins in response to

117 dependent mechanical information through its folding dynamics.

118 anscript correlated with RNAPI distribution: folding energy and GC content in the transcription bubbl

119 the polypeptide chain of MJ0366 increase the folding energy barrier in a magnitude close to the energ

120 ticular, we describe the characterization of folding energy landscapes at high resolution, studies of

121 study how variations in sequence perturb the folding energy landscapes of three model sequences with

122 roducing rationally selected combinations of folding-enhancing mutations into GFP templates and scree

123 with altered states in the cellular protein folding environment known to be associated with previous

124 folding homeostasis in a suboptimal cellular folding environment.

125 It may also help mitigate deleterious folding events between neighboring RDs that share signif

126 may be an excellent alternative to SUVs for folding experiments and offer benefits of optical clarit

127 -native proteins by increasing the levels of folding factors removed the feedback inhibition.

128 These three proteins exhibit folding features in line with experiments, including exp

129 vely target Plasmodium TRiC-mediated protein folding for malaria intervention.

130 an provide critical, detailed information on folding free energy landscapes, intermediates, and pathw

131 ), and urea (a neutral denaturant) alter the folding free energy remains indistinguishable whether pr

132 the genome is nonrandom, and its complex 3D folding has important consequences for many genome proce

133 Atomically thin graphene sheets serve as folding hinges during a process of 2D to 3D conversion v

134 idizing conditions may help maintain protein-folding homeostasis in a suboptimal cellular folding env

135 ion-metal and lanthanide ions to guide chain folding in a manner reminiscent of the action of protein

136 Small molecule ligands can thus promote RNA folding in cells, and thus allow single mRNA imaging wit

137 ts show that the domains impact each other's folding in distinct ways that may be important for the e

138 se the highest-resolution maps of chromosome folding in human cells to date, providing a valuable res

139 The primary difference between folding in NDs and SUVs was the kinetics; the rate of fo

140 atures, including its unique, accordion-like folding in the adult, and experiments are proposed to ad

141 Protein folding in the cell is mediated by an extensive network

142 Disruption of protein folding in the endoplasmic reticulum (ER) activates the

143 f structurally complex multidomain proteins, folding in the presence of chaperones, and the ability t

144 tion confirmed the importance of nascent RNA folding in transcription.

145 landscape and discuss the factors that guide folding in vitro and in vivo We particularly focus on th

146 rge proteins suffer from slow or inefficient folding in vitro.

147 explain the challenges they encounter during folding in vivo Current models of OMP biogenesis in the

148 sage can promote or frustrate proper protein folding in vivo.

149 provided remarkable insights into chromosome folding in vivo.

150 some, 5) endoplasmic reticulum (ER)-mediated folding inhibition, and 6) oxidative stress.

151 The ribosome shows that protein folding initiated with intrinsic disorder, supported thr

152 isingly, we found that population of the RNH folding intermediate is required to generate sufficient

153 tly correlates with the stability of the RNH folding intermediate.

154 ructural determination of HP-induced protein folding intermediates and irreversible oligomerization.

155 ous energy (for example, ATP)(9), we trapped folding intermediates on this machine.

156 associated such codons with cotranslational folding intermediates.

157 in characterizing the dynamic properties of folding intermediates.

158 ins and identification of stable two-helical folding intermediates.

159 es, whereas ~30% preferred structured motifs folding into stem-loops.

160 We showed that folding into wild-type-like structures remain energetica

161 chemical analyses show that RNA G-quadruplex folding is able to regulate translation and modulate pla

162 OMP folding is an essential process in all Gram-negative bac

163 ring folding and then turn over rapidly when folding is complete.

164 by nucleoid-associated proteins, chromosome folding is hierarchical, from large-scale macrodomains t

165 Thus, cotranslational folding is predicted to be beneficial because it allows

166 Results indicate that folding is robust to sequence variations for proteins wi

167 ddition to yielding insight into DNA origami folding, it is well-suited to probing fundamental proces

168 These lead to 'U-shaped' DPO4 folding kinetics.

169 onfers both thermodynamic stability and fast folding kinetics.

170 environment and the OM in modulating the OMP-folding landscape and discuss the factors that guide fol

171 ass spectrometry (MS) to map the free energy folding landscape.

172 For instance, the physics of protein folding limits the lengths of cellular polypeptide chain

173 tasis by regulating co-translational protein folding, localization, and maturation.

174 a luminal glycan coat critical for V-ATPase folding, localization, and stability.

175 g of the ribosomal protein eL24, the protein-folding machinery at the polypeptide exit tunnel (PET),

176 lex rearrangements markedly change chromatin folding maps in the cancer genomes.

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

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

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

180 tegrates a Vfold2D two-dimensional structure folding model with IsRNA coarse-grained molecular dynami

181 rive a relation between the number of linear folding motions and the number of rigid body modes that

182 Using a mapping from the linear folding motions of such sheets to force-bearing modes in

183 Oxidative protein folding needs to be regulated to avoid hyperoxidation.

184 s must be able to cope with the challenge of folding newly synthesized proteins and refolding those t

185 repertoire to instruct changes in chromatin folding, nuclear architecture, and to activate an inflam

186 phorylation of T37 and T46 in 4E-BP2 induces folding of a four-stranded beta-fold domain, partially s

187 ity to investigate real-time cotranslational folding of a polypeptide.

188 Here, we study the cotranslational folding of adjacent domains from the cytoskeletal protei

189 so be retained, which enhances the oxidative folding of disulfide-rich cyclic proteins such in the ca

190 e precludes tyrosine autophosphorylation and folding of DYRK1, resulting in a kinase unable to preser

191 suppressor mutations also partially restores folding of full-length CFTR.

192 Whereas folding of genomes at the large scale of epigenomic comp

193 bic effect is the primary effect driving the folding of globular proteins is nearly universally accep

194 ole played by native contacts in determining folding of globular proteins.

195 beta2M is essential for proper folding of HFE, CD1, and MHC class I and their surface e

196 ese results provide a physical basis for the folding of individual chromosomes at the nanoscale.

197 Folding of individual domains in large proteins during t

198 erized theoretically and experimentally, the folding of large multidomain proteins is less well known

199 ew native-centric methods for simulating the folding of large proteins.

200 onlocal folds, such as all-beta, whereas the folding of more local, all-alpha proteins typically exhi

201 d, which may be particularly relevant to the folding of multidomain proteins.

202 lmonella undergoing oxidative stress impairs folding of periplasmic proteins.

203 cing of Polycomb target genes and in spatial folding of Polycomb domains.

204 Molecules that correct the folding of protein mutants, restoring their functional t

205 are molecular chaperones that facilitate the folding of proteins or target misfolded proteins for cle

206 ful means of interrogating the structure and folding of proteins.

207 sponses involving mechanisms such as dynamic folding of riboswitches during translation initiation or

208 Although the folding of single-domain proteins is well characterized

209 o follow in real time the co-transcriptional folding of SRP RNA.

210 , revealing that the ligand prevents optimal folding of the C-terminal region of VDR.

211 gene regulation and refine global polymeric folding of the chromatin fiber.

212 The relationship between the 4D folding of the genome and its function is an outstanding

213 Cohesin catalyses the folding of the genome into loops that are anchored by CT

214 Non-center-involving folding of the ILM flap was present in 4 eyes (24%).

215 on only during voluntary orienting; rearward folding of the pinna's upper-lateral edge exhibited such

216 he improved core algorithm in the successful folding of the protein 1A1Z with as high as +/-4 Hz of a

217 Here we have demonstrated the successful folding of the protein 1D3Z (to within 2.4 angstrom of t

218 This protein modification can alter the folding of the target protein; can affect binding intera

219 The improved stability and folding of the TCRs reduces glycosylation, perhaps throu

220 r, our results indicate that cotranslational folding of this viral protein generates a tension that s

221 les scanning complexes, requires the correct folding of two rRNA elements in the subunit head and the

222 collagen assembly begins with the oxidative folding of ~30-kDa C-terminal propeptide (C-Pro) domains

223 In addition, we measure folding on DNA molecules that are too short to form loop

224 is suggests the possibility that alternative folding or conformational stability within these regions

225 The folding pathway also reveals the obligatory attainment o

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

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

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

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

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

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

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

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

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

235 sequence encodes a particular locus-specific folding pattern remains unknown.

236 of CTCF binding sites translates into genome folding patterns.

237 cal design of apertures influence the pollen folding patterns.

238 redict an influence of cortical thickness on folding patterns.

239 protein design (CPD) can address the inverse folding problem, exploring a large space of sequences an

240 es, make a quantitative understanding of the folding process challenging.

241 y suppresses aggregation but also guides the folding process.

242 hallenge to understand the dynamics of these folding processes.

243 DHBc variants lacking a folding-proficient extension produced regular CLPs in ba

244 Folding progressed to thermodynamically stable beta-stru

245 QC NMR) spectroscopy revealed robust helical folding propensity in acetonitrile.

246 ssible monomer diversity and peptoid helical folding propensity.

247 es of the OM and how an understanding of the folding properties of OMPs in vitro can help explain the

248 presentation, independent of their intrinsic folding properties.

249 in the FPA assay to the force exerted by the folding protein in piconewtons.

250 oximity, transcription, translation, protein folding, protein association, protein degradation, drug

251 cterization, endocytosis, secretion, protein folding, quality control, and glycobiology.

252 d glycosylation is critical for glycoprotein folding, quality control, trafficking, recognition, and

253 g a, to our knowledge, novel analysis of the folding reactions, we found the disulfide-reduced form o

254 e itself does not necessarily rewire protein folding reactions.

255 Furthermore, the degree of local cortical folding relates systematically with the strength of loca

256 y avoids off-pathway aggregate formation, by folding reliably into its native, thermodynamically stab

257 tructures of delta revealed novel pentameric folding repeats, which we term beta-bracelets, in the in

258 edictive nucleotide-level features of genome folding, revealing effects of nucleotides beyond the cor

259 eal-time single-molecule monitoring captures folding riboswitches in multiple states, including an in

260 ptive signaling pathway that governs protein folding, secretion, and energy production and serves to

261 Here, using a protein folding sensor, we made the surprising discovery that th

262 This tool for light-controlled single RNA folding should offer precise and rapid control of other

263 unique gene expression profile and 3D genome folding signature, mediated in part through cohesin redi

264 h IsRNA coarse-grained molecular dynamics 3D folding simulations and Monte Carlo tightly bound ion es

265 Molecular dynamics based folding simulations that rely on knowledge of the native

266 ies have investigated the role of AR protein folding stability in disease and its relationship with t

267 he effect of single-residue variation on the folding stability of AR by FoldX and guanidine hydrochlo

268 very little is known about the location and folding stability of functional elements within the mass

269 Here we show that RNA folding stability of SARS-CoV-2 genome is exceptional am

270 In this study, we analyze the folding stability of this RNA genome relative to the str

271 ectly to unliganded rod opsin, enhancing its folding, stability, and regeneration.

272 G4 formation (folding), stabilization, and unfolding must be regulated

273 ng a single-molecule FRET assay to probe the folding status of reconstituted hairpins in lipid bilaye

274 While the protein sequences and folding structures are highly similar, these StBiPs are

275 e a large number of distinctive 3D chromatin folding structures in ultra-resolution.

276 also a convenient parameter for biophysical folding studies.

277 bacteria has revealed aspects of chromosome folding that are applicable to many species.

278 YAP suppresses the cortical enlargement and folding that is induced by the removal of CEP83.

279 destabilizing cosolutes to modulate protein folding thermodynamics.

280 edict the effects of the native structure on folding to all-atom-based methods that include side-chai

281 How do cells detect and adjust proteome folding to different conditions?

282 These exhibited similar structural folding to the mammalian cell produced bNAbs, but non-su

283 ogenous DOPr interactors involved in protein folding, trafficking, and signal transduction.

284 ected rank order in the cooperativity of the folding transition and stability-dependent shifts in the

285 ic strength and undergoes the ligand-induced folding transition commonly observed in signal transduct

286 tures before the formation of the productive folding transition state.

287 uppresses aggregation between substrates and folding transitions within substrates.

288 e-energy landscapes for multipathway protein folding transitions, our energy landscape approach from

289 The results indicate that a folding-unfolding reaction of a specialized temperature-

290 play an important role in determining pollen folding upon desiccation.

291 We found that folding-upon-binding primarily occurred through induced-

292 eir free state-demonstrates an example of a 'folding-upon-partner-binding' mechanism for carrying out

293 DNA damage response and repair on 3D genome folding using Hi-C experiments on wild type cells and at

294 ingle-molecule, through-space probing of RNA folding using the RING-MaP correlated chemical probing f

295 switch, we apply a single-molecule vectorial folding (VF) assay in which an engineered superhelicase

296 n NDs and SUVs was the kinetics; the rate of folding was two- to threefold slower in NDs compared to

297 o-order transition in IDPs termed "templated folding," whereby the binding partner dictates distinct

298 their backbone with N-methyl amides inhibits folding, which directly correlates to a reduction in lyt

299 o understand how the BAM complex accelerates folding without using exogenous energy (for example, ATP

300 The OmpA folding yields were greater than 88% in both NDs and SUV