ライフサイエンスコーパス: flexible loop

1 ntiparallel beta-strands connected by a long flexible loop.

2 48H mutations are in the same IN polypeptide flexible loop.

3 ains and at least one additional site on the flexible loop.

4 ve site of the enzyme and a highly conserved flexible loop.

5 otein consists of two domains connected by a flexible loop.

6 consist of two alpha-helices connected by a flexible loop.

7 thylation of a pseudosubstrate sequence on a flexible loop.

8 ytic residues, His-101, is located on such a flexible loop.

9 aining a ligand-binding domain inserted in a flexible loop.

10 inding depends on the integrity of the whole flexible loop.

11 strate RNA forms a compact helix capped by a flexible loop.

12 d highly mobile, revealing the presence of a flexible loop.

13 ate N- and C-terminal domains connected by a flexible loop.

14 ces Tyr-342 at the center of a 17-amino acid flexible loop.

15 tal forms with two other orientations of the flexible loop.

16 binding site is a vicinal cysteine pair in a flexible loop.

17 nd E2 enzymes in general, is buttressed by a flexible loop.

18 nal three-blade beta-propeller tip domain by flexible loops.

19 strong coiled-coil regions interspersed with flexible loops.

20 s with residues that are part of or near the flexible loops.

21 ist of four CCP modules connected with short flexible loops.

22 on opposite sides of the beta-clam and three flexible loops.

23 trate accessibility is regulated by adjacent flexible loops.

24 beta-hairpin region, which is flanked by two flexible loops.

25 ts of secondary structure and at the base of flexible loops.

26 The role of the flexible loop 1 in protein conformational motion and in

27 test this, we replaced residues 36-55 in the flexible loop 2 with an artificially flexible glycine ch

28 uccinyl moiety pointing towards the end of a flexible loop 3, which adopts different structural confo

29 ations in the N-terminal subdomain or in the flexible Loop 4 of DBL2betaPF11_0521, although both subs

30 ges in a phosphoribosyltransferase (PRTase) "flexible loop", a "glutamine loop", and a C-terminal hel

31 e binding of Mn(2+) followed by UDP-Gal, two flexible loops, a long and a short loop, change their co

32 attacking Tyr342 nucleophile is located on a flexible loop about 20 angstroms from a basic groove tha

33 conserved glutamate and lysine residues in a flexible loop above the substrate binding pocket have be

34 n Hck activation, including a large internal flexible loop absent from available Nef structures.

35 he apo-form of GpgS, we have observed that a flexible loop adopts a double conformation L(A) and L(I)

36 o the enzyme active site, interacts with the flexible loop, alters loop conformation, and affects the

37 f regions with latent structure connected by flexible loops, an architecture with implications for bi

38 (an ~70-residue-long helical hairpin with a flexible loop and a conserved His-Pro-Asp motif required

39 conserved residues in the Phe(139)-Gln(146) flexible loop and abutting Ser(147)-Val(165) amphipathic

40 n HIV RT, which form part of the beta3-beta4 flexible loop and harbor many of the currently known mut

41 ion is ascribed to the closing of the PRTase flexible loop and is likely the rate-limiting step in th

42 aquaticus reveals a deep groove bounded by a flexible loop and lined with side chains of conserved hy

43 We speculate that the flexible loop and surrounding regions are involved in bi

44 ows an increase in cavity volume between the flexible loop and the core of the enzyme.

45 Our work elucidates the role of the flexible loop and the membrane environment in SNARE-comp

46 d proteins, associated with rearrangement of flexible loops and amino-terminal extensions that partic

47 all plasticity of the cytoplasmic helix, the flexible loop, and part of the transmembrane domain (res

48 the residues in the cytoplasmic domain, the flexible loop, and the first ten residues of the transme

49 ere useful in guiding mutation candidates to flexible loops, and had the potential to be used for oth

50 Two fragments in each subunit, a very highly flexible loop (approximately 20 amino acids) that forms

51 These flexible loops are conformationally variable in x-ray cr

52 of protein structural elements, particularly flexible loops, are intimately linked with diverse aspec

53 A flexible loop around Asp216 that adopts an open conforma

54 and A-A ring pair model in the region of the flexible loop at small radius that might be an indicatio

55 ences were observed in the conformation of a flexible loop at the active site and in the hydrogen bon

56 positioning of the residues of an important flexible loop at the active site, which was previously u

57 an alpha-helix at the N-terminal half and a flexible loop at the C-terminal half, features not prese

58 xcept Met(208), which appears to reside in a flexible loop at the entrance/exit of the ligand cavity.

59 to offset the energy required to remobilise flexible loops at the end of the reaction cycle, and hen

60 ong these molecules, particularly to a small flexible loop between A-184 and G-191 (which has some of

61 izing interactions with residues in a highly flexible loop between beta-strands V and VI are only obs

62 To stabilize a flexible loop between helices 3 and 4, while retaining a

63 tation of cationic residues within the large flexible loop between residues 9-18, thus strengthening

64 with the full-length Bid structure, a longer flexible loop between tBid helix alpha4 and alpha5 was o

65 itical for this conformational change to the flexible loop between the minimal DNA-binding domain and

66 The second and third helices and the long, flexible loop between them form the helix-turn-helix mot

67 ve mTORC1-recognition sequence sits within a flexible loop C-terminal to these repeats.

68 ophosphorylation at the residue Thr-446 in a flexible loop called the activation loop.

69 mutations at positions 140 and 148 in the IN flexible loop can account for the phenotype of RAL-resis

70 T and provide fundamental insight into how a flexible loop can be involved in controlling the enzymat

71 st under all conditions, suggesting that the flexible loops can transition with relative ease between

72 of the C2 cell, and in one of the molecules, flexible loops close onto the active site.

73 in previous structures is a conformationally flexible loop composed of residues 141-148.

74 e level of helix orientations and relatively flexible loop conformations that connect the helices.

75 Additionally, a flexible loop connecting the beta2/beta3 strands undergo

76 These features include a long flexible loop connecting the two rungs, buried polar res

77 of unphosphorylated Noxa is housed within a flexible loop connecting two antiparallel beta-sheets, f

78 A long flexible loop connects the N-terminal side of the barrel

79 ins have implied that the translocation of a flexible loop containing a highly conserved Ser-Tyr dipe

80 A flexible loop containing a Lys and an Arg could account

81 r Mg(2+) coordination and positioning of the flexible loop containing the conserved HMGCL "signature"

82 ith approximately 20 residues connected by a flexible loop containing the ferredoxin consensus sequen

83 rthermore, we report the conformation of the flexible loop containing the furin cleavage site and sho

84 folding of CRABP I, which indicates that the flexible loop containing this residue is passive in the

85 A defective flexible loop contributes to the processing and gating d

86 Amino acid substitutions on a flexible loop covering the regulatory binding pocket gen

87 ced disulfide bonds into opposite sides of a flexible loop critical for biotin binding, creating stre

88 simulations to account for induced fit of a flexible loop crucial for inhibitor binding.

89 Two targets were revealed: the flexible loop domain and the catalytic site.

90 site to potentially "bridge" PP2A to Bcl2's flexible loop domain containing the target serine 70 pho

91 rylation at one or multiple sites within the flexible loop domain of Bcl2 not only stimulates antiapo

92 Altogether, the results suggest that the flexible loop domain of polymerase beta plays a major ro

93 h mimics Ser(70) site phosphorylation in the flexible loop domain, potently enhances chemoresistance

94 ue "flexible" architecture in which numerous flexible loops emanate from a stable core.

95 to a high degree of induced fit and a mobile flexible loop encompassing the active site.

96 ues from the C-terminus of one subunit and a flexible loop excluded from the LbetaH domain of an adja

97 This highly flexible loop exhibits an ensemble of conformations with

98 with elastic network model, we find that the flexible loop explores a conformational space much large

99 in-1 (NBD-1) and -2 (NBD-2), which reside in flexible loops extending into the central pore of the Cl

100 The large, conformationally flexible loop extends into the nucleoplasm to contact eu

101 However, why and how the flexible loop facilitates the complex assembly remains p

102 The N-terminal domain (NTD) flexible-loop (FL) region is one such example: exposed o

103 Glu-4 is part of a highly flexible loop flanking the entrance to the active site,

104 Adjacent to the N-terminal domain is a flexible loop, followed by a C-terminal alpha-helix (alp

105 We identified a flexible loop formed by (72)Cys and (75)Cys, a unique fe

106 This flexible loop forms an "active site lid", similar to tho

107 become structured in the ternary complex: a flexible loop forms intimate contacts with bound MLL, an

108 ium enzyme, combined with the closure of the flexible loop from one subunit into the active site of t

109 ike loop conformations and in preventing the flexible loops from being trapped in nonfunctional confo

110 depending on the closed or open state of the flexible loop gating the cavity, the binding of (K+ or s

111 e +2 depending on the substrate, and thus, a flexible loop (Glu-334-His-343) is essential in binding

112 We further show that the AztC flexible loop has no impact on zinc-binding affinity, st

113 The ordering of this flexible loop-helix has a direct effect on catalytic res

114 mation, the axial histidine belonging to the flexible loop (His63) was replaced with an alanine, and

115 ely charged arginine residues located in the flexible loop II were found to be crucial for rWTX inter

116 include additional effects at amides in the flexible loop II-III and helix III, which have been prop

117 ization domain (domain 2) containing a large flexible loop implicated in membrane insertion; a small

118 This binding mapped to the C-terminal flexible loop in Nef and the transframe p6* protein in G

119 demonstrate that V1H binds to the C-terminal flexible loop in Nef from HIV-1 and to the medium chain

120 ed CD4 even in the absence of the C-terminal flexible loop in Nef.

121 fferent DNA symmetries through movement of a flexible loop in one of the protein subunits may represe

122 Our data support a role for the flexible loop in pol beta error discrimination.

123 The flexible loop in the active site, composed of residues 1

124 Previously, a conformationally flexible loop in the catalytic domain had been observed

125 The presence of a unique flexible loop in the cofactor-binding site suggests how

126 termini of target proteins or inserted in a flexible loop in the middle of a target protein for site

127 of transposition in vitro and suggest that a flexible loop in the MuA protein required for DNA recogn

128 orrelated with the amino acid sequences of a flexible loop in the small subunits.

129 gs conclusively identify a role for the AztC flexible loop in zinc acquisition from the metallochaper

130 The flexible loops in each subunit that connect the extracel

131 These two regions correspond to the two flexible loops in Nef as predicted by solution NMR analy

132 ed by conserved tyrosine residues located in flexible loops in nucleotide-binding domain-1 that exten

133 nsp16 from other betacoronaviruses revealed flexible loops in open and closed conformations at the m

134 Conformational possibilities of flexible loops in rhodopsin, a prototypical G-protein-co

135 s been debate over the specific roles of the flexible loops in substrate specificity and catalysis in

136 y is hydrogen bonded to Arg 24 in one of the flexible loops in the capping domain, thereby providing

137 he beta-strands in the barrel domain and two flexible loops in the capping domain.

138 Flexible loops in the solution structure of SARS-CoV N-N

139 reveals a DNA-binding surface surrounded by flexible loops, indicating considerable conformational c

140 ces at the active site entrance, including a flexible-loop insertion, which may account for the speci

141 dies on Nef mutant viruses revealed that the flexible loop is essential for optimal viral infectivity

142 We suggest that the flexible loop is important for efficient cleavage throug

143 This flexible loop, juxtaposed at the leading edge of transcr

144 ced DNA-binding cooperativity in vitro and a flexible loop L1 as seen in the crystal structure of the

145 Mrf2 contacts DNA mainly using the two flexible loops, L1 and L2.

146 We speculate that a flexible loop linking strands beta4 and beta5 may be all

147 karyotic UGMs is that AfUGM contains a third flexible loop (loop III) above the si-face of the isoall

148 ded antiparallel beta-strands within a small flexible loop may also benefit from preorganization of t

149 ether, these results are consistent with the flexible loop mediating the slow-onset step of allosteri

150 EP+ binding affinity predictions for regular flexible-loop motions and considerable structural change

151 Furthermore, both biotin and the flexible loop move in a concerted conformational change

152 Upon substrate binding, Trp314 in the small flexible loop moves towards the catalytic pocket and int

153 e site amino acids and one amino acid on the flexible loop (N149) to probe their roles in SiRHP activ

154 Specifically, a flexible loop near the heme-binding pocket is required f

155 Zinc SBPs are characterized by a flexible loop near the high-affinity zinc-binding site.

156 and selectivity/sensitivity is mediated by a flexible loop near the ligand-binding site.

157 A flexible loop near the substrate binding site containing

158 Early-generation mutations stabilize flexible loops not visible in the wild-type structure an

159 gs suggest a check-valve mechanism, with the flexible loops obstructing the channel by interacting wi

160 In the isolated DHO, a flexible loop occludes the active site blocking the acce

161 large conformational changes of a peripheral flexible loop occur in the presence of a mechanistic cyc

162 cherichia coli thioredoxin binds to a unique flexible loop of 71 amino acid residues, designated the

163 gions of PA, mainly the helix alpha4 and the flexible loop of amino acids 51 to 74, affect the activi

164 e shared by the metallo-beta-lactamases is a flexible loop of amino acids that extends over their act

165 icate that the conserved residue Q146 in the flexible loop of HIV-1 integrase is critical for product

166 eucine and diacidic motifs in the C-terminal flexible loop of Nef have been shown to mediate binding

167 Mutations in the C-terminal flexible loop of Nef result in a lower rate of internali

168 L/I)-type dileucine motif in the C-terminal, flexible loop of Nef, which mediates binding to the clat

169 al anchor, central core and carboxy-terminal flexible loop of Nef.

170 subdomains of actin; Val-43 is located in a flexible loop of subdomain 2, Ala-138 is near a hydropho

171 A flexible loop of the alpha3 domain (residues 223-229) is

172 the former in the immediate vicinity of the flexible loop of the core domain.

173 28-236 loop of the C-terminal domain and the flexible loop of the core.

174 His-114 is located in a flexible loop of the G-domain, which undergoes nucleotid

175 a region that includes the alphaA helix and flexible loop of the Galpha(q)-binding domain as necessa

176 The accessibility of Trp74 in the flexible loop of the mutant enzyme was also analyzed usi

177 D246V, and R253M, of polymerase beta in the flexible loop of the palm domain.

178 presented here positions Asp157 in the large flexible loop of the protein.

179 d to identify mutation candidates within the flexible loops of Escherichia coli transketolase (TK).

180 Accordingly, NleD cleaved the flexible loops of JNK and p38 but not the rigid loop of

181 The two flexible loops of the C-terminal domain, residues 228-23

182 y plasticity in interactions between exposed flexible loops on adjacent subunits.

183 a monomeric beta-barrel porin that has seven flexible loops on its extracellular side.

184 e as a small number of segments connected by flexible loops, on multiple scales.

185 oligomeric state and locations of unreliable/flexible loops or termini.

186 substrate binding, these residues position a flexible loop over the substrate-binding cleft and modul

187 in a new mode of CQ binding and closure of a flexible loop (Phe(126)-Leu(136)) over the active site.

188 anding of enzyme reactions and the role that flexible loops play in the catalytic cycle.

189 The flexible loop preceding the C-terminal tail in Bcl-x(L)

190 d those important to the organization of two flexible loops, previously implicated as regulators of s

191 bic binding pocket and within the peripheral flexible loop proved essential to the hydrolytic activit

192 trates, combined with the positioning of the flexible loop, provides a clear picture of a catalytical

193 This leads to the proper orientation of a flexible loop proximal to the dimer-dimer interface that

194 g of an alpha-helix that is interrupted by a flexible loop, referred to as L5.

195 motif (found in the sequence PNAIG) within a flexible loop region (loop 2) within the central core re

196 In addition, Glu 89 is part of a flexible loop region allowing a conformational change to

197 ix also suggests a mechanism for locking the flexible loop region around the bound DNA.

198 Here, we have identified the flexible loop region connecting the bulky enzymatically

199 binding by MpPR-1 requires the presence of a flexible loop region containing aromatic amino acids, th

200 e studies with E. coli gamma-GCS implicate a flexible loop region in GSH binding, chimeras of S. agal

201 Meanwhile, the motion of Spy's flexible loop region increases, allowing for better inte

202 UCUCC between nucleotides 216 and 220 in the flexible loop region of the revised secondary structure

203 cine-to-histidine exchange variants within a flexible loop region provide compelling evidence that th

204 ulfide bonds and multiple conformations of a flexible loop region that is thought to be involved in l

205 nverting an atypical isoleucine residue in a flexible loop region to the bulkier or charged residues

206 d, we find that RCC1 uses a conformationally flexible loop region we have termed the switchback loop

207 bably PLC homodimerization, that require the flexible loop region, as is consistent with the dimeric

208 sordered without DNA strongly implicates the flexible loop region.

209 Lys300(c143) in an apparent "flexible loop" region (297-313) was previously shown to

210 It is widely accepted that flexible loop regions have a critical functional role in

211 Each monomer has flexible loop regions linking the core alpha-beta-alpha

212 Deletion of the flexible loop regions of Bcl-2 and Bcl-X(L), which are l

213 -binding residues were identified in the two flexible loop regions of MutH, although similar loops in

214 tionship between the amino acid sequences in flexible loop regions of native states and the correspon

215 ounted for by short peptide sequences in the flexible loop regions of the capsid proteins.

216 abundances of which corresponded to the more flexible loop regions of the proteins.

217 uctural perspective, the enzyme utilizes two flexible loop regions to sequester and position the subs

218 proportion of contacting residues located in flexible loop regions.

219 sidues found throughout the conformationally flexible loop regions.

220 ugh the fluctuations are smaller than in the flexible loop regions.

221 group recognition and the hydrophobicity of flexible loops regulate lipid entry into the binding cav

222 ell death in a mechanism regulated by Bcl2's flexible loop regulatory domain (FLD), since purified p5

223 ons (D163G, T166I and F170L), localized to a flexible loop, rescue the folding of several tsf coat pr

224 enerated ensembles are observed for the most flexible loop residues and backbone angles connecting th

225 ng sequence that are likely to interact with flexible loop residues of the PDZ domain.

226 n reveals the structural roles for invariant flexible loop residues Ser103 and Tyr104 and supports a

227 The active site flexible loop (residues 15-33) does not exhibit stable c

228 NMR relaxation experiments indicated that a flexible loop (residues 225-250) adopted a more rigid an

229 , PON1 is a six-bladed beta-propeller with a flexible loop (residues 70-81) covering the active site.

230 ne C(5) methyltransferase that reorganizes a flexible loop (residues 80-100) upon binding cognate DNA

231 ding site and to the formation of the closed flexible loop, respectively.

232 Protease protection assays suggest the flexible loop segment between the NT and CT domains may

233 " model, wherein residues 133-146 comprise a flexible loop segment that confers to apoA-I an intrinsi

234 GCS-GS were made containing gamma-GCS domain flexible loop sequences from Enterococcus faecalis and P

235 ast pyruvate decarboxylase (YPDC) revealed a flexible loop spanning residues 290 to 304 on the beta-d

236 in residue, with minimal perturbation to the flexible loop stability.

237 FEN1 has a flexible loop structure through which the flap has been

238 dynamic motional character consistent with a flexible loop structure.

239 ffinity is attenuated through extended, semi-flexible loop structures, providing steric hindrance.

240 e to the Pol II surface and assume seemingly flexible loop structures.

241 A flexible loop, such as a neutral loop or a polynucleotid

242 ipally responsible for oxoG recognition is a flexible loop, suggesting that conformational mobility i

243 own to interact with CNBP, contains a highly flexible loop surrounded by more ordered helices.

244 i dihydrofolate reductase (DHFR) has several flexible loops surrounding the active site that play a f

245 in crystallographic structures, comprises a flexible loop that assists SAS-6 oligomerisation.

246 ively charged lysine residue is located in a flexible loop that behaves as a lid to the active site,

247 feature with other members of this family, a flexible loop that closes over the active site during ca

248 ed for adnectin1 and adnectin2 binding, is a flexible loop that connects two beta-strands in the cyto

249 n alters the conformational landscape of the flexible loop that contains alphaK40.

250 onization of His-224, a residue located in a flexible loop that contributes to the S1' binding pocket

251 and R153 play a role in the structure of the flexible loop that controls anion binding and release.

252 ffects of these mutations on movement of the flexible loop that enables general acid catalysis are pr

253 extensive mutagenesis, but also suggested a flexible loop that enables the entrance and stable bindi

254 acids are located within or neighboring the flexible loop that forms part of the pore to the ligand-

255 sine residue (Lys-48) was found in the first flexible loop that functions in catalysis together with

256 The Cys144-carrying flexible loop that gates access to the active site is in

257 an Hje:DNA junction complex, highlighting a flexible loop that interacts intimately with the junctio

258 A flexible loop that may act as a hinge over the active si

259 site, Phe(147) is located in a structurally flexible loop that may be involved in BlcR oligomerizati

260 Asp-214 is part of a conformationally flexible loop that mediates the isomerization by stabili

261 into position for catalysis by movement of a flexible loop that occurs upon binding of substrate.

262 mediated by a conformational transition of a flexible loop that opens to make the binding site access

263 e active site cysteine Cys(328) resides in a flexible loop that potentially influences both the forma

264 nduces a dramatic conformational change in a flexible loop that swings over the C-terminus of NEDD8 l

265 imulations indicate several conformationally flexible loops that contribute to the nonspecific cation

266 onal differences are usually ascribed to the flexible loops that cover the substrate-binding areas.

267 tagenesis experiments further outlines a few flexible loops that exist in discrete conformations, imp

268 The long, often flexible loops that form such cavities in many natural p

269 ization of phosphoribosyltransferase domain "flexible loop" that leads to formation of the channel pe

270 this protein can form a tetramer and that a flexible loop (the "multifunctional loop") contacts boun

271 of the molecule are exposed to solvent as a flexible loop (the reactive center loop).

272 , this Trp is a hinge residue in a conserved flexible loop (the WPD-loop) that must close during cata

273 c importance of residues located on a highly flexible loop, the enzyme is required to undergo a subst

274 Together with a neighboring flexible loop, the linker caps a hydrophobic area adjace

275 We also identify four residues of another flexible loop, the roof beta hairpin.

276 the monomers affect the conformation of two flexible loops, the functionally important "flap" (resid

277 This change involves two flexible loops: the small (residues 313-316) and the lon

278 In the absence of the flexible loop, these values increase by 5- to 30-fold, i

279 g results give insight as to the role of the flexible loop Thr and Tyr in the catalytic mechanism.

280 cysteine 117 from each monomer followed by a flexible loop through residue cysteine 126.

281 llowed for the placement of the Gly97-Ser108 flexible loop, thus revealing its role in binding of thi

282 may affect the stability and closure of the flexible loop to enhance inhibitor (or substrate) bindin

283 hannel, held in place by the residues of the flexible loop, Tyr257, His247, and Cys245.

284 us clearly demonstrated stabilization of the flexible loop upon binding of both PRPP and guanine and

285 structural model in which rearrangement of a flexible loop upon binding of the correct peptide substr

286 rophobic interaction in a cavity formed by a flexible loop upon DNA binding.

287 the inhibitor to both Thr20 and Tyr34 of the flexible loop was observed providing strong evidence tha

288 ne residues located in the C-terminus of the flexible loop which connects A and B beta-sheets of the

289 that is partially responsible for securing a flexible loop which sequesters the active site.

290 ackbone contacts mediated by residues in the flexible loops which link secondary structure elements i

291 amics simulations highlight the role of this flexible loop, which adopts a more stable conformation u

292 n a second active-site loop, termed the long flexible loop, which is predicted to close over the acti

293 vely charged binding surface that includes a flexible loop, which is unique to the IPSE/alpha-1 cryst

294 gely confined to one face of this fold and a flexible loop, which together form a large positively ch

295 cytochrome P450 and cytochrome c It formed a flexible loop, which transiently interacts with the flav

296 ite is located in the hinge region of a long flexible loop, which upon Mn(2+) and UDP-Gal binding cha

297 n RsbR (T209) is partially hidden by an RsbR flexible loop, whose "open" or "closed" position could m

298 o investigate the interactions between these flexible loops within the beta2 subunit.

299 located at one of the hinge positions of the flexible loop (WpD loop), which is essential for catalys

300 A library using a highly flexible loop yielded monobodies that specifically recog