ライフサイエンスコーパス: pseudoknot

1 irs and tertiary interactions in the minimal pseudoknot.

2 e that the central domain is stabilized by a pseudoknot.

3 n, followed by 2) formation of a 3'-terminal pseudoknot.

4 s on the conformational dynamics of the SARS pseudoknot.

5 t-forming A48 is looped out at the apex of a pseudoknot.

6 correct folding of the platform and central pseudoknot.

7 and functionally important template-adjacent pseudoknot.

8 e and function of the third stem of the SARS pseudoknot.

9 timulatory RNA structure, a stem-loop or RNA pseudoknot.

10 direct evidence for base triples in the tTER pseudoknot.

11 stribution of forces required to unfold each pseudoknot.

12 avirus, and a nonframeshifting bacteriophage pseudoknot.

13 sequence into an alternative intra-molecular pseudoknot.

14 h the tTERT active site and formation of the pseudoknot.

15 tructure that has been proposed to be an RNA pseudoknot.

16 ng that SL9266 forms the core of an extended pseudoknot.

17 tivity and that the region could fold into a pseudoknot.

18 ated pseudoknot sequence stably folds into a pseudoknot.

19 tural rearrangement and folds into an H-type pseudoknot.

20 rts of the RNA prevents the formation of the pseudoknot.

21 is bound as part of a triplex formed with a pseudoknot.

22 ary interactions, namely kissing loops and a pseudoknot.

23 ulated an NMR-based model of the full-length pseudoknot.

24 hat base pairs to a G-rich bulge to form the pseudoknot.

25 related with the structural stability of the pseudoknot.

26 tant of the 26 nt potato leaf roll virus RNA pseudoknot.

27 a solution NMR structure of the Tetrahymena pseudoknot.

28 the same tertiary interactions as the human pseudoknot.

29 ncluding stem-loop structures and long-range pseudoknots.

30 secting the vectorial unfolding mechanism of pseudoknots.

31 ge network of stacking interactions, and two pseudoknots.

32 elements, including experimentally validated pseudoknots.

33 tationally predicted structures that include pseudoknots.

34 cted shape to structure prediction including pseudoknots.

35 been predicted to form in diverse fungi TER pseudoknots.

36 sfactory, especially on sequences containing pseudoknots.

37 e more potent than the previously identified pseudoknots.

38 rammar (CFG), which cannot effectively model pseudoknots.

39 limited to RNA secondary structures without pseudoknots.

40 luyveromyces lactis and human telomerase RNA pseudoknots.

41 netic control of the biological functions of pseudoknots.

42 n RNA:RNA and RNA:DNA duplexes, hairpins and pseudoknots.

43 of the search of complex motifs that include pseudoknots.

44 t be removed to allow folding of the central pseudoknot, a key feature of the small subunit.

45 preferential coefficients for RNA molecules (pseudoknots, a fragment of the rRNA, and the aptamer dom

46 tructure of the primer-binding site, a novel pseudoknot adjacent to the primer-binding sites, three r

47 ficiency is related to the resistance of the pseudoknot against mechanical unfolding.

48 vitro The TCV RSE also contains an internal pseudoknot along with the long-distance interaction, and

49 psed state (preorganization) by coordinating pseudoknot and 5'-P1 fluctuations.

50 at only the junction nucleotides between the pseudoknot and CEH are essential.

51 arly identical in secondary structure to the pseudoknot and CR4/5 within vertebrate TERs.

52 tructural elements in the vertebrate TR, the pseudoknot and CR4/5, bind TERT independently and are es

53 Therefore, we also model a short RNA pseudoknot and find good agreement between the MD result

54 purification, we confirmed their binding to pseudoknot and G-quadruplex forming RNAs as well as thei

55 ddition, we observe two alternative pathways-pseudoknot and inchworm internal displacement-through wh

56 lecule previously shown to bind the SARS-CoV pseudoknot and inhibit -1 PRF was similarly effective ag

57 tigated the structures of the full-length TR pseudoknot and isolated subdomains in Oryzias latipes (J

58 higher-order RNA architecture stabilized by pseudoknot and long-range reversed Watson-Crick and Hoog

59 vide the first observation of a fast-folding pseudoknot and present a benchmark against which computa

60 y interacts with the less folded form of the pseudoknot and promotes a dynamic, partially unfolded co

61 structures, including mutually incompatible pseudoknots and a double hairpin.

62 eling, including of RNAs containing multiple pseudoknots and extensively bound by proteins.

63 the distribution of helix orientations, for pseudoknots and loop-loop kissing structures.

64 ctures reveals that whereas both form H-type pseudoknots and recognize preQ1 using one A, C, or U nuc

65 viously published methods in predicting both pseudoknotted and non-pseudoknotted structures on a benc

66 ity, such as a yeast-like template boundary, pseudoknot, and a vertebrate-like three-way junction.

67 ining the template, template-boundary helix, pseudoknot, and core-enclosing helix (CEH).

68 mRNA-mediated -1 PRF is directed by an mRNA pseudoknot, and is stimulated by at least two microRNAs.

69 ory action of a "slippery" sequence, an mRNA pseudoknot, and the CopA nascent chain.

70 the loop entropies of complex intramolecular pseudoknots, and 2) their NP-complete enumeration has im

71 Viruses inhibited by pseudoknot aptamers were rendered insensitive by a natur

72 e RNP complexes containing a properly folded pseudoknot are catalytically active.

73 Pseudoknots are a fundamental RNA tertiary structure wit

74 RNA pseudoknots are examples of minimal structural motifs in

75 Pseudoknots are found with half or better of the false-p

76 Pseudoknots are motifs in RNA secondary structures that

77 the 3D shape of the human and K. lactis TER pseudoknots are remarkably similar.

78 of sequences that do not contain the native pseudoknots are reported by these tools.

79 Pseudoknots are usually excluded from RNA structure pred

80 rough basepair-exchange pathways and through pseudoknot-assisted pathways, respectively.

81 rtiary interactions including a K-turn and a pseudoknot at a four-way junction.

82 lled by a DNA leader that is attached to the pseudoknot at the 5' or 3' ends.

83 es have the propensity to form two potential pseudoknots between identical five-nucleotide terminal l

84 We tested whether pseudoknots bound with an anti-frameshifting ligand exhi

85 s, which are the template region, downstream pseudoknot, boundary element, core-closing stem and trip

86 demonstrate the functional importance of the pseudoknot but also reveal the critical role played by t

87 hat the RSV stimulatory RNA is indeed an RNA pseudoknot but that the pseudoknot per se is not absolut

88 Our results show how a processed RNA pseudoknot can inhibit a deleterious protein with exquis

89 -cleaving functional ribozymes with multiple pseudoknots can be designed computationally.

90 or tertiary structure in an mRNA, such as a pseudoknot, can create a physical barrier that requires

91 re is no algorithmic restriction in terms of pseudoknot complexity and a test is made for steric feas

92 rediction that is not restricted in terms of pseudoknot complexity.

93 , one of which is consistent with a proposed pseudoknot conformation, and another of which we have id

94 at high -1 PRF efficiency was linked to high pseudoknot conformational plasticity via the formation o

95 Furthermore, the occupancy of the pseudoknotted conformations was far too low for static p

96 tructure based tool can conduct genome-scale pseudoknot-containing ncRNA search effectively and effic

97 r the few algorithms that attempt to predict pseudoknot-containing ribozymes, self-cleavage activity

98 lease sensitivities for nucleotides near the pseudoknot core were altered in the presence of GTPgamma

99 tually exclusive with folding of the central pseudoknot (CPK), a universally conserved rRNA structure

100 However, most mutations designed to form a pseudoknot decreased translation activity.

101 SL9266 forms the core of an extended pseudoknot, designated SL9266/PK, involving long distanc

102 Both stems rest against a compact pseudoknot, dock via an extended ribose zipper and joint

103 th weakly and strongly bound ligands promote pseudoknot docking through an induced-fit mechanism.

104 ty in vitro NMR studies also reveal that the pseudoknot does not form in the context of full-length T

105 An essential part of TER is the template/pseudoknot domain (t/PK) which includes the template, fo

106 ctly upstream of the TYMV TLS is an upstream pseudoknot domain (UPD) that has been considered to be s

107 y conserved, functionally essential template/pseudoknot domain of human telomerase RNA and that inhib

108 The pseudoknot domain positions the AUG start codon near the

109 ion, contained within the conserved template/pseudoknot domain, and a conserved regions 4 and 5 (CR4/

110 C virus internal ribosome entry site (IRES) pseudoknot domain.

111 red region that encompasses the template and pseudoknot domains.

112 ed ncRNA identification tools usually ignore pseudoknots during search.

113 that the extra stem-loop strongly influences pseudoknot dynamics in a manner that decreases its prope

114 SMD), we found that the unusual stability of pseudoknotted element H4a/Psi3 required five upstream ad

115 base-pairing by the U3 snoRNA to the central pseudoknot elements of the 18S rRNA.

116 epeats, template boundary element (TBE), and pseudoknot, enclosed in a circle by stem 1.

117 gy landscape for mechanical unfolding of the pseudoknot (energy barrier height and distance to the tr

118 iring with ribosomal RNA or as stem loops or pseudoknots even with one component being 4 kb 3' from t

119 Both pseudoknots exhibited the elusive L2 loop, which display

120 The solution structure is an unusual H-type pseudoknot featuring a P4 hairpin embedded in loop 3, wh

121 These pseudoknot fluctuations disrupt the binding site by faci

122 eQ(1) class I riboswitch preorganizes into a pseudoknot fold in a temperature- and Mg(2+)-dependent m

123 are not presently understood, the classical pseudoknot fold of this system harbors an extra stem-loo

124 ) demonstrate the significance of the double pseudoknot fold, (iii) provide a possible hypothesis for

125 he cleaved 3'-fragment retains its compacted pseudoknot fold, despite the absence of the phylogenetic

126 ture of an extended A-twist motif within the pseudoknot fold.

127 their inter-conversions, and derive the RNA pseudoknot folding pathway.

128 hermoanaerobacter tengcongensis) relative to pseudoknot folding, leading to the proposal that the pri

129 itical role played by telomerase proteins in pseudoknot folding.

130 dictor of the order of stem formation during pseudoknot folding.

131 ed ground state structures tend to have more pseudoknotted folding intermediates than RNAs with pseud

132 n predicted the secondary structures and the pseudoknots for a set of 21 challenging RNAs of known st

133 ld stabilized by co-helical stacking, double-pseudoknot formation and long-range pairing interactions

134 crucial and unexpected roles in controlling pseudoknot formation and, in turn, sequestering the Shin

135 Here, we show that guanidine-induced pseudoknot formation by the aptamer domain of a guanidin

136 Pseudoknot formation in the core region of the telomeras

137 g(2+)-dependent tertiary structure involving pseudoknot formation within the central domain.

138 tions are important for tertiary folding and pseudoknot formation, whereas in a bimolecular context,

139 energy model for the entropic cost of single pseudoknot formation.

140 of the aptamer competes with intramolecular pseudoknot formation.

141 helicase Dhr1 supposedly involved in central pseudoknot formation; this suggests that Bud23-Trm112 mi

142 A pseudoknot forms in an RNA when nucleotides in a loop pa

143 me template core domain lacks the ubiquitous pseudoknot found in all known TRs, suggesting later evol

144 lar simulations of coarse-grained model of a pseudoknot found in the conserved core domain of the hum

145 , the models are further blind tested on 206 pseudoknot-free and 93 pseudoknotted RNAs from the PDB d

146 knotted folding intermediates than RNAs with pseudoknot-free ground state structures.

147 NA is trained and cross-validated using 1024 pseudoknot-free RNAs and 1060 pseudoknotted RNAs from th

148 For pseudoknot-free RNAs, ENTRNA has 86.5% sensitivity on th

149 g methods have been mostly restricted to the pseudoknot-free secondary structures.

150 ediction algorithm determines the non-nested/pseudoknot-free structure by maximizing the number of co

151 reviously described an unusual three-stemmed pseudoknot from the severe acute respiratory syndrome (S

152 ng efficiencies ranging from 2% to 30%: four pseudoknots from retroviruses, two from luteoviruses, on

153 We observe that RNAs with pseudoknotted ground state structures tend to have more

154 P2ab than predicted, and the medaka minimal pseudoknot has the same tertiary interactions as the hum

155 Herein, we design double-pseudoknot HDV ribozymes using an inverse RNA folding al

156 lignment of the stem-loop helix (P1) and the pseudoknot helix (PK).

157 residues in domain IV of eEF2 interact with pseudoknot I (PKI) of the CrPV-IRES stabilizing it in a

158 ip at domain IV separates the tRNA-mRNA-like pseudoknot I (PKI) of the IRES from the decoding center.

159 Pseudoknot I of the IRES occupies the ribosomal decoding

160 ccharomyces cerevisiae telomerase RNA (TLC1) pseudoknot identified tertiary structural interactions t

161 are consistent with the formation of an RNA pseudoknot in active human telomerase.

162 A ends can be moved between the template and pseudoknot in vitro and in vivo.

163 P1-P2, promoting a partially nested, H-type pseudoknot in which the RBS undergoes rapid docking (kdo

164 r RNA systems, such as multiway junctions or pseudoknots in mixed metal ion solutions.

165 X-ray scattering analyses indicated that the pseudoknots in SARS-CoV and SARS-CoV-2 have the same con

166 of known base pairs were predicted, and all pseudoknots in well-folded RNAs were identified.

167 H), template-boundary element, template, and pseudoknot, in this order along the RNA.

168 All vertebrate pseudoknots include two subdomains: P2ab (helices P2a an

169 Naturally occurring, pseudoknot-insensitive viruses were rendered sensitive b

170 o sequence (SDS) and include A-minor motifs, pseudoknot-insertion helix P4, U.A-U base triples, and c

171 um serves an important role in stabilizing a pseudoknot interaction between the P2 and P4 helices, ev

172 tly, a defined base pair mutation within the pseudoknot interaction stipulates whether, in the absenc

173 h the involvement in a functionally relevant pseudoknot interaction, extensive mutagenesis of nucleot

174 prediction approaches differ by the way RNA pseudoknot interactions are handled.

175 the riboswitch stems for long-range tertiary pseudoknot interactions that contribute to the organizat

176 The occurrence and influence of pseudoknotted intermediates on the folding pathway, howe

177 ng a more complex picture of the role of the pseudoknot involving the conformational dynamics.

178 pseudoknot (PK) regions, predicted an H-type pseudoknot involving TL1 of the 5' DB and the complement

179 with the long-distance interaction, and the pseudoknot is not compatible with the phylogenetically c

180 s of characterized ncRNA families containing pseudoknots is an important component of genome-scale nc

181 e thermodynamics and folding pathways of RNA pseudoknots is an important problem in biology, both for

182 effective antiviral siRNAs target hairpin or pseudoknot loops.

183 previously attenuated DENV replication, this pseudoknot may participate in regulation of RNA synthesi

184 hat targeting the conformational dynamics of pseudoknots may be an effective strategy for anti-viral

185 single-molecule force spectroscopy to unfold pseudoknots mechanically, we found that the ligand bindi

186 Whether the pseudoknot motif is formed in the active telomerase RNP

187 he complex folding mechanism inherent to the pseudoknot motif.

188 and 2 (TL1 and TL2) and their complementary pseudoknot motifs, PK2 and PK1.

189 econd, a series of frameshift-promoting mRNA pseudoknot mutants was employed to demonstrate that the

190 folding/unfolding kinetics of a hairpin-type pseudoknot obtained with microsecond time-resolution in

191 -to-closed conformational transitions of the pseudoknot occur, akin to breathing.

192 Pseudoknots occur relatively rarely in RNA but are highl

193 nd tertiary structural elements, including a pseudoknot, occur to sequester the putative Shine-Dalgar

194 e homodimeric RNA complex formed by the SARS pseudoknot occurs in the cellular environment and that l

195 ion of S1 with the well-characterized H-type pseudoknot of a class-I translational preQ1 riboswitch a

196 he AcrVA4 dimer is anchored around the crRNA pseudoknot of Cas12a-crRNA, preventing required conforma

197 encode protein toxins that are inhibited by pseudoknots of antitoxic RNA, encoded by short tandem re

198 in, bulge, internal, and junction loops) and pseudoknots of arbitrary complexity.

199 rameshifting, whether promoted by stem-loop, pseudoknot or antisense oligonucleotide stimulator.

200 both -1 and -2 frameshifting with stem-loop, pseudoknot or antisense oligonucleotide stimulators.

201 heptanucleotide sequence followed by an RNA pseudoknot or stem-loop within the mRNA.

202 cated hexanucleotide CAUAGC to form either a pseudoknot or terminator stem.

203 solated pairs and the ends of stems, whether pseudoknotted or not, to define junction loops.

204 compatible with the nested structure such as pseudoknots, or overlapping such as competing structures

205 with a 5/6-nt internal loop) and the minimal pseudoknot (P2b-P3 and associated loops).

206 anking helices), the conserved region of the pseudoknot (P2b/P3, previously determined) and the remai

207 redicting the secondary structure, including pseudoknotted pairs, conserved across multiple sequences

208 RNA is indeed an RNA pseudoknot but that the pseudoknot per se is not absolutely required for virus v

209 Formation of a pseudoknot (PK) in the conserved RNA core domain in the

210 their proposed interactions with downstream pseudoknot (PK) regions, predicted an H-type pseudoknot

211 ed ribosomal frameshifting and response of a pseudoknot (PK) RNA to force, a number of single-molecul

212 e 3' domain and the formation of the central pseudoknot (PK) structure depends on the presence of the

213 ance of the Beet Western Yellow Virus (BWYV) pseudoknot (PK) to unfolding.

214 In both states, the pseudoknot PKI of the CrPV-IRES mimics a tRNA/mRNA inter

215 It contains an essential pseudoknot PKI that structurally and functionally mimics

216 ) are typically two-stemmed hairpin (H)-type pseudoknots (pks).

217 t Utp24 UV-crosslinked in vivo to U3 and the pseudoknot, placing Utp24 close to cleavage at site A1.

218 ates gene expression in many viruses, making pseudoknots potential targets for anti-viral drugs.

219 higher positive predictive value than other pseudoknot prediction tools.

220 m expected accuracy structure prediction and pseudoknot prediction.

221 estigated the folding mechanism of an H-type pseudoknotted preQ1 riboswitch in dependence of Mg(2+) a

222 on NMR structure of the Kluyveromyces lactis pseudoknot, presented here, reveals that it contains a l

223 le cross-links, especially those including a pseudoknot provided the strongest restraint on conformat

224 nce between the 3' end of the telomerase RNA pseudoknot region and the 5' end of the DNA primer is ap

225 and thermodynamic properties of the TLC1 RNA pseudoknot region, we have examined the structural and t

226 al frameshifting (-1 PRF) stimulated by mRNA pseudoknots regulates gene expression in many viruses, m

227 ding ubiquitous non-canonical base pairs and pseudoknots, remains a challenge.

228 The preformed pseudoknot represents a structure that is close to the l

229 ion of a competing structure that sequesters pseudoknot residues.

230 The structure of the human TER pseudoknot revealed that the loops interact with the ste

231 Non-pseudoknot RNA aptamers exhibited broad-spectrum inhibit

232 l ribosome entry site (IRES) adopts a triple-pseudoknotted RNA structure and occupies the core riboso

233 We generalize the BHG framework to include pseudoknotted RNA structures and systematically study th

234 problem in order to compute all possible non-pseudoknotted RNA structures for RNA sequences.

235 r blind tested on 206 pseudoknot-free and 93 pseudoknotted RNAs from the PDB database.

236 ted using 1024 pseudoknot-free RNAs and 1060 pseudoknotted RNAs from the RNASTRAND database respectiv

237 For pseudoknotted RNAs, ENTRNA shows 81.5% sensitivity on th

238 aches such as optical tweezers can track the pseudoknot's unfolding intermediate states by pulling th

239 that our work competes favorably with other pseudoknot search methods.

240 It provides a complementary pseudoknot search tool to Infernal.

241 In this work, we design a pseudoknot search tool using multiple simple sub-structu

242 gle-molecule FRET, we show that the isolated pseudoknot sequence stably folds into a pseudoknot.

243 turbations in the backbone sugar substituted pseudoknots, show a correlation between thermodynamic st

244 3'CITE is composed of three hairpins and two pseudoknots, similar to the TSS 3'CITE of the carmovirus

245 The pseudoknot stabilization by magnesium, in combination wi

246 s, the inclusion of non-nested loops, termed pseudoknots, still poses challenges arising from two mai

247 slippery sites and in all three stems of the pseudoknot strongly ablate -1 PRF activity.

248 These RNAs fold into a double-nested pseudoknot structure and cleave RNA, yielding 2',3'-cycl

249 acylation sensing modules bridged by a rigid pseudoknot structure formed by the mid-region domains.

250 ernate gene product, is often triggered by a pseudoknot structure in the mRNA in combination with an

251 he R2 ribozyme could be folded into a double pseudoknot structure similar to that of the hepatitis de

252 The riboswitch forms an H-type pseudoknot structure with coaxial alignment of the stem-

253 nt to the triple helix (within the conserved pseudoknot structure) of Saccharomyces cerevisiae telome

254 e sequence motif embedded in a 44-nucleotide pseudoknot structure.

255 significant fraction of the RNPs to form the pseudoknot structure.

256 eam of the AUGA motif, including a predicted pseudoknot structure.

257 analysis to elucidate the folding of an RNA pseudoknot structure.

258 When pseudoknot structures are vital to the functions of the

259 rangements between tandem stem-loop and mRNA pseudoknot structures in two of the strains.

260 dicted folding behavior depending on whether pseudoknotted structures are allowed to occur as folding

261 ods in predicting both pseudoknotted and non-pseudoknotted structures on a benchmark data set of RNA

262 ms, such as I-shaped, Y-shaped, T-shaped, or pseudoknotted structures, or radiate multiple helices fr

263 In contrast, class 1 RNA pseudoknots, such as aptamer T1.1, are specific for RTs

264 Vertebrate TR contains the template/pseudoknot (t/PK) and CR4/5 domains required for telomer

265 The data reveal that folding of the central pseudoknot (T1), the most crucial structural determinant

266 Q1-III riboswitch aptamer forms a HLout-type pseudoknot that does not appear to incorporate its ribos

267 ighly conserved intronic long-range tertiary pseudoknot that is absolutely required for deamination o

268 The TCV RSE also contains an internal pseudoknot that is not compatible with the phylogenetica

269 e interactions, including stabilization of a pseudoknot that is part of the regulatory switch.

270 These IRESs require an RNA pseudoknot that mimics a codon-anticodon interaction and

271 and biochemically well-characterized HL(out) pseudoknot that recognizes the metabolite prequeuosine(1

272 ent for PKR inhibition, and a central domain pseudoknot that resembles codon-anticodon interactions a

273 iyama et al. (2016) prove the existence of a pseudoknot that stabilizes a nuclease-resistant RNA stru

274 oys a structurally unique three-stemmed mRNA pseudoknot that stimulates high -1 PRF rates and that it

275 ins a structured 3' region with hairpins and pseudoknots that form a complex network of noncanonical

276 us riboswitches fold as H-type or HLout-type pseudoknots that integrate ligand-binding and regulatory

277 n previous observations of very slow folding pseudoknots that were trapped in misfolded conformations

278 ofactors from magnesium-rich hairpins and/or pseudoknots then kickstarts full RNA hybridization and h

279 raction has been suggested to substitute for pseudoknots, thought to be missing in tombusvirid RSEs.

280 tions of backbone ribose 2'-OH groups in the pseudoknot to telomerase catalysis were investigated pre

281 ted conformations was far too low for static pseudoknots to account for the high levels of -1 PRF.

282 hese results indicate that the resistance of pseudoknots to mechanical unfolding is not a primary det

283 The mechanism by which pseudoknots trigger -1 PRF, however, remains controversi

284 h this design, we provided evidence that the pseudoknot unfolding is a two-step, multistate, metal io

285 The pseudoknot unfolding pathway in the nanopore, either fro

286 s model that can address arbitrarily complex pseudoknots using only two parameters corresponding to c

287 ions of the 2'-O-methyl and 2'-H substituted pseudoknots, using UV-monitored thermal denaturation, na

288 sh, we find that it forms in the full-length pseudoknot via an unexpected hairpin.

289 strongly stabilizes 5WJ and the helix (H) 18 pseudoknot, which become tightly folded within the first

290 il the structure and folding of the isolated pseudoknot, which forms a compact structure with major g

291 level of translation and has a weak, if any, pseudoknot, which is present in the most active PTEs, ma

292 inverse RNA folding have been developed, the pseudoknot, which plays a key role in folding of ribozym

293 Pseudoknots, which are common motifs and have been repea

294 ithm is its capability of handling RNAs with pseudoknots while predicting the RNA structural alignmen

295 core domain that includes the template and a pseudoknot with extended helical subdomains.

296 lical domains, the central one of which is a pseudoknot with partial triplex character.

297 the active structure as being a constrained pseudoknot with unusual connectivity that may juxtapose

298 ying the mechanical properties of a panel of pseudoknots with frameshifting efficiencies ranging from

299 nt flaviviral RNA, which contains interwoven pseudoknots within a compact structure that depends on h

300 switch aptamers are structurally similar RNA pseudoknots; yet, prior structural studies have characte