ライフサイエンスコーパス: subsite

1 nd adaptation of cyclopropyl ring in the S2'-subsite.

2 and probe chemical preferences of, this S2' subsite.

3 tate having a short Fe-(13)C bond in the 2Fe subsite.

4 te binding and recognition at the +2 binding subsite.

5 2 in the MMP-13 S1' subsite and in an S1/S2* subsite.

6 et and interacting additionally with the S3' subsite.

7 a predominant binding mode involving the -4 subsite.

8 tide backbone that resulted in a narrowed S1 subsite.

9 ntributes to formation of the cylindrical S1 subsite.

10 methylation of the galactose unit in the -1 subsite.

11 ryngeal cancers, specifically the oropharynx subsite.

12 ne in PR(V82A) increases the size of the S1' subsite.

13 e placement of the conserved Pro at the P(3) subsite.

14 ion with gastric cancer differed by anatomic subsite.

15 has declined to the lowest risk level of any subsite.

16 e terminal nonreducing sugar in the acceptor subsite.

17 the glycosidic bond of mannosides at the -1 subsite.

18 , R264 at the S2 subsite, and E265 at the S4 subsite.

19 modulate the allosteric effect of the strong subsite.

20 droxymethyl group of the substrate at the -1 subsite.

21 cupant of either pyrophosphate or tryptophan subsite.

22 at target the adjacent pteridine-recognition subsite.

23 an induced-fit folding of the donor-binding subsite.

24 static interactions with Asp(125) of the S2' subsite.

25 fatty acid tail occupies the hydrophobic S2 subsite.

26 agnosis, MSI status, and colon versus rectum subsite.

27 reduced interactions with residues in the S2 subsite.

28 ns of the azadithiolate ligand in the [2Fe]H subsite.

29 tes extensive interfacial contacts with five subsites.

30 the basis of success in other head and neck subsites.

31 ccommodate xylan substitutions at almost all subsites.

32 gands got longer and potentially filled more subsites.

33 h unique {His2Cys2} ligation and distinct Fe subsites.

34 and contains at least nine substrate binding subsites.

35 Associations were similar among subsites.

36 F) coupled Fe2(III/III) center with resolved subsites.

37 ass of inhibitors that bind uniquely in both subsites.

38 es have conducted investigations by anatomic subsites.

39 opharyngeal, nasopharyngeal, and oral cavity subsites.

40 nearby smaller CSs identify other important subsites.

41 (+16% [7.50 to 8.72 per 100 000]; P < 0.050) subsites.

42 n the amino-acid residues constituting their subsites.

43 ccommodation tolerance of anhydro-bridges in subsites.

44 date galactopyranosyl units in the -3 and -2 subsites.

45 nd substrate binding at the -2 to +1 binding subsites.

46 rend = .01), with similar trends at anatomic subsites.

47 LA1 exhibited unique interactions at several subsites.

48 dated in the glycone as well as the aglycone subsites.

49 -prime and hydrophilic residues in the prime subsites.

50 hydrolysis as well as the substrate-binding subsites (-1 to +2).

51 llowed us to identify five substrate-binding subsites (-1, +1, +2, +3, and +4).

52 Subsite +1 analysis revealed three residues (Ala-2249, G

53 GLs, a pocket-like structure and lid loop at subsite +1 are characteristic of Phep_2830.

54 or alpha1-4-glycosidic bond) at the acceptor subsite +1 for the catalytically competent orientation o

55 Such topology at subsite +1 is likely favoring other possible fructose bi

56 38, Ala-978, and Leu-981 from domain B) near subsite +1 that may be critical for linkage specificity

57 rides are well accommodated in the pocket at subsite +1, and aromatic residues of the lid loop are re

58 and cellotriose reveal the important role of subsites +1 and +2 for sugar binding.

59 The acceptor subsites +1 to +4 in the S. coelicolor enzyme are well c

60 The sugar residues in the acceptor subsites +1 to +5 are oriented such that they disfavor t

61 t to the mannose residue being deacetylated (subsite -1 and +1).

62 m the C2 carbon atom of the covalently bound subsite -1 glucosyl residue, thus explaining the unique

63 hat the binding interactions are stronger at subsite -1 to enable the binding of various alpha-galact

64 Residues forming subsite -1, involved in binding the glucosyl residue of

65 ement of the invariant Trp(336) at catalytic subsite -1.

66 hesized to explore noncharge interactions in subsite 2 of the influenza virus sialidase active site.

67 r, two different positions are observed from subsite +2 depending on the substrate, and thus, a flexi

68 n Asn(462) and xylose at the nonreducing end subsite +2 was important for the higher activity of subs

69 s the presence of 3-6-anhydro-l-galactose in subsite -2.

70 onserved loop closing the active site beyond subsite -2.

71 tes were observed, the sugar unit located at subsite +3 being recognized by interaction with the beta

72 the B2 loop, covering the substrate-binding subsites -3 and -4 in TrCel7A, was a key determinant for

73 n and long active-site cleft with Trp-112 in subsite -5 concluded to be involved in mannosyl interact

74 an26B with galactosyl-mannotetraose bound in subsites -5 to -2 revealed an open and long active-site

75 sugar-binding site of CBM35, which acted as subsite -8, representing the enzyme.substrate complex wh

76 he abstraction of the alpha-proton in the -1 subsite, a residue that is highly conserved throughout t

77 that alpha-elastin species cover the primed subsites, a strip across the beta-sheet from beta-strand

78 arabinose and xylose side chains at the -2* subsite, abrogates catalytic activity.

79 sults indicate that AlfC creates an aromatic subsite adjacent to the active site that specifically ac

80 In subsite analyses, flavonoid intake was also not associat

81 the noninteracting sequence linking the two subsites anchoring the peptide to the PDZ domain.

82 Our study shows that (1) N-SO(3)(-) at +1 subsite and 6-O-SO(3)(-) at -2 subsite of trisaccharides

83 on-pai interactions with Trp(291) of the S1' subsite and electrostatic interactions with Asp(125) of

84 phosphate of p(5)A binds in the P(1) enzymic subsite and forces the oligophosphate to adopt a convolu

85 nding modes for compound 2 in the MMP-13 S1' subsite and in an S1/S2* subsite.

86 tion, (2) addition of 2-O-SO(3)(-) at the -1 subsite and of 3-O-SO(3)(-) to GlcN unit is not advantag

87 ts deletion opens the enzyme cleft at the -3 subsite and turns the enzyme into an endo-beta(1,4)-gluc

88 ng module, thus creating additional plus (+) subsites and funneling the polymeric substrate through t

89 ide provided insights into substrate-binding subsites and peptidoglycan recognition.

90 ill in the hydrophobic pocket in the S1'-S2' subsites and retain all major hydrogen bonding interacti

91 Despite the multiple head and neck tumor subsites and the variety of treatments, we found in this

92 These changes were driven by rectal subsites and were most pronounced in persons aged 50 to

93 nterface unveiled that residues Tyr(195) (-3 subsite) and Trp(234) (-5 subsite) from distal negative

94 3 and N274 at the S1 subsite, R264 at the S2 subsite, and E265 at the S4 subsite.

95 er gastric carcinomas based on sex, anatomic subsite, and surgically disrupted anatomy, indicating th

96 DNA), the location of the strong DNA-binding subsite, and the effect of the nucleotide cofactors, bou

97 d stratification by age group, sex, anatomic subsites, and cancer stage.

98 usly treated HNSCC at specific head and neck subsites, and determine the influence of cancer therapy

99 on the U-loop to participate in specificity subsites, and mutagenesis identified a mobile lysine res

100 rization of the active cleft glucose binding subsites, and substrate specificity of EngD on soluble a

101 These subsites are located within the N3 and linker domains an

102 ts in the prevention of colorectal cancer by subsites are warranted.

103 Although the active site subsites are well defined for a few model LPMOs, the mol

104 simulations showed local rigidity of the -1 subsite as well as flexibility of loops involved in acti

105 als structures showing at least four binding subsites at each active site.

106 rophobic residues on the protease reflect S' subsite binding.

107 These subsites bury approximately 1,080 A(2)of surface area, o

108 te cleft that contains seven glucose-binding subsites, but unlike the majority of structurally determ

109 daptations that control the presence of each subsite by steric blocking or hydrogen bonding.

110 tratified by histologic subtype and anatomic subsite, by Helicobacter pylori infection status, by geo

111 at W138 indeed acts to limit the size of the subsite C binding pocket, determining specificity for 2,

112 The -2* subsite can also bind to Xylp and Arap, explaining why t

113 Man5A reveals that a polar residue at the -2 subsite can make productive contact with the substrate 2

114 d by structural rearrangements of the diiron subsite CO/CN ligand field.

115 on and promotes a physical barrier at the +2 subsite conferring this unique mode of action within the

116 ith some of the residues in the NaMN binding subsite consistent with the competitive inhibition obser

117 C1 of the sugar residue bound within the -1 subsite, consistent with its proposed role as the cataly

118 ight that an insertion between the +1 and +2 subsites contributes to the enzyme's activity and substr

119 rogenase contains a catalytic binuclear iron subsite coordinated by CN(-) and CO ligands as well as a

120 Nevertheless, the variant subsites could be rearranged in different geometries tha

121 th aminoacylation, and a fourth 'orthogonal' subsite created as a consequence of binding.

122 It is concluded that 2 subsites, D187-R193 and D252-P256, in the metalloproteas

123 Where subsite data were available, aspirin reduced risk of can

124 Among individuals from whom subsite data were available, we observed 1264 proximal c

125 the existence of -3 to +2 substrate-binding subsites demonstrated.

126 onds in register with the antibody catalytic subsite despite a common noncovalent binding mechanism.

127 n glucose) configuration, while other distal subsites do not exploit the 2-OH group as a specificity

128 ith an occasional first flush occurring at a subsite draining suburban land.

129 e occur in electron exchange with the diiron subsite during catalysis and mediate electron transfer w

130 The binuclear subsite Fe2(adt)(CO)3(CN)2 is attached through a bridgin

131 The (2FeH) subsite features a diatomic coordination sphere composed

132 cket and reveals the presence of a conserved subsite for the signal.

133 Furthermore, we identified potential subsites for binding the saccharide core of PG using com

134 By molecular modeling, six conserved subsites for glucose binding and some possible determina

135 tended chitin-binding cleft, containing five subsites for sugars, namely (-3)(-2)(-1)(+1)(+2), with T

136 ing spatially remote motifs, distal negative subsites from the catalytic domain, and a surface-associ

137 nificant trend of cancer risk for smoking in subsites from the cecum (HR = 1.41) to the proximal colo

138 idues Tyr(195) (-3 subsite) and Trp(234) (-5 subsite) from distal negative subsites have a key role i

139 eloped and investigated; however, the LF S2' subsite has not yet been systematically explored as a po

140 d Trp(234) (-5 subsite) from distal negative subsites have a key role in galactomannan preference.

141 peptides utilised, only a limited number of subsites have however been assessed.

142 med competing-risks regression and tests for subsite heterogeneity (proximal colon: n = 821; distal c

143 anchor to establish initial contacts within subsite I, and this is followed by formation of a stabil

144 drocarbazole moieties as "anchors" to occupy subsite I.

145 III, by rearrangement of a loop adjacent to subsite I.

146 uses a common surface pocket composed of two subsites (I and II) to interact with LMs in multiple bin

147 via a sequential mechanism that involves two subsites (I and II).

148 okinase-activated PA variant with LF-binding subsite II residue Arg200 mutated to Ala, and PA-L1-I210

149 he side chain of M362 and lie at the edge of subsite II.

150 network between the flanking LM residues and subsite II.

151 metalloproteinase-activated PA variant with subsite III residue Ile210 mutated to Ala.

152 he formation of a new binding pocket, termed subsite III, by rearrangement of a loop adjacent to subs

153 ycan modifications via carbohydrate-specific subsites immediately adjacent to their peptidase catalyt

154 ug fit of the large tris-THF group in the S2 subsite in agreement with high antiviral efficacy of 1 o

155 ith the dsDNA using its strong ssDNA-binding subsite in an orientation very different from the comple

156 predominantly engages the strong DNA-binding subsite in interactions with the gap and assumes a very

157 cNAc and MurNAc bound to CPGRP-S at the same subsite in molecule C.

158 cavity) in addition to the primary catalytic subsite in order to increase specificity and reduce the

159 e(II)) organometallics that model the 2-iron subsite in the active site of [FeFe]-hydrogenase: (mu-pd

160 d at the junction between the purine-binding subsite in the beta6-alpha5 loop and the C-terminal alph

161 ker, enabling the targeting of an additional subsite in the crevice.

162 lationships (SARs) at each of the structural subsites in 2 were explored with substantial improvement

163 ciation according to histologic subtypes and subsites in a large population-based screening study in

164 DM4A/KDM4B inhibitor, 4, that occupies three subsites in the binding pocket is identified by virtual

165 e, xylotriose, and xylohexaose revealed five subsites in the catalytic cleft and an l-arabinose-bindi

166 is enzyme has approximately 10 glucopyranose subsites in the catalytic tunnel, and using COS ligands

167 at either of the loops enclosing the product subsites in the TfuCel6B active site tunnel must open su

168 uited from six clinical sites and additional subsites in the USA between Nov 12, 2010, and April 21,

169 , with a conserved glycone region (-1 and -2 subsites), including a conserved loop closing the active

170 ride having N- and 6-O-SO(3)(-) at -2 and +1 subsites inhibited heparanase and was resistant toward h

171 Moreover, Lys-149 in the -4 subsite interacted with the galactosyl side-group of the

172 ployed for scaffold optimization, mapping of subsite interactions, and profiling of inhibitor selecti

173 site and exclusively the strong DNA-binding subsite is a minimum four-step mechanism [formula: see t

174 he H-cluster and confirms that the [4Fe-4S]H subsite is also redox active and as such an integral par

175 with a selectively (57)Fe-labeled binuclear subsite is described.

176 tructures, the d-galactose residue in the -1 subsite is distorted into a (1)S3 skew boat conformation

177 at the tighter mannose recognition at the -2 subsite is mediated by polar interactions with the axial

178 The role of the weak DNA-binding subsite is to modulate the allosteric effect of the stro

179 ructure with substrate spanning the -1 to +1 subsites is currently lacking.

180 The simultaneous occupancy of both subsites is required for high-affinity binding to TRIP13

181 These subsites likely align the polymer in the correct registe

182 ex revealed unambiguous distortion of the -1 subsite mannoside to an (O)S2 conformation, matching tha

183 strong interaction with substrate at the -4 subsite mediated by two aromatic residues Trp-244 and Tr

184 interactions of larger substrates in the S2 subsite moderate chloride affinity in the chloride 2 poc

185 oy coevolving donor, acceptor, and catalytic subsite modules as templates to achieve the complex dive

186 ong-range conformational equilibria controls subsite occupancy and ligand binding.

187 at changes in the variable residue in the S1 subsite of M1-aminopeptidases have facilitated the evolu

188 yl amide side chain occupies the hydrophobic subsite of the active site where it forms three addition

189 The strong DNA-binding subsite of the enzyme is located on the helicase domain

190 27' carbonyl and Arg-8 side chain in the S1'-subsite of the HIV protease.

191 he flap Gly48 carbonyl or amide NH in the S2-subsite of the HIV-1 protease.

192 ion of SPM differ significantly according to subsite of the index cancer.

193 s was achieved through modulation of the P2* subsite of the inhibitor which identified the isoquinoli

194 hed that small structural changes to the P2* subsite of the molecule had a significant impact on the

195 rally models the trimanganese-calcium-cubane subsite of the OEC.

196 S is generally located at the most important subsite of the protein binding site, and the nearby smal

197 igh affinity for the inner thyroxine binding subsite of transthyretin (TTR) was conceived of by struc

198 O(3)(-) at +1 subsite and 6-O-SO(3)(-) at -2 subsite of trisaccharides are critical for heparanase re

199 ors, alcoholic beverage type, and anatomical subsite of tumors.

200 The all-carbon tether linking the P1-P3 subsites of 21 is functionalized with alkyl substituents

201 icrobiome Project (HMP) investigated 18 body subsites of 242 healthy American adults to produce the f

202 conformation to occupy the contiguous S1-S3 subsites of BACE1, we have designed a novel fused bicycl

203 MMPs have interactions spanning the P23-P23' subsites of collagenous substrates.

204 the oxyanion hole, and the S- and S'-binding subsites of GlpG, which are the key determinants of subs

205 d head and neck cancer (SIR, 2.8), including subsites of head and neck cancer with confirmed HPV asso

206 ns with the backbone atoms in the S1' and S2 subsites of HIV-1 protease.

207 te with previous treatment with radiation or subsites of HNSCC.

208 itor makes optimal hydrogen bonds within the subsites of PDF.

209 enzyme, we have now identified the +1 to +6 subsites of the acceptor/product, which overlap with the

210 he water-exposed interface of the S1 and S1' subsites of the cathepsin protease, and (b) Arg(19) whic

211 eractions of peptide CDK inhibitors with key subsites of the cyclin binding groove provide for the re

212 -mannobiose structurally define the -2 to +2 subsites of the enzyme.

213 in changes the engagement of the DNA-binding subsites of the helicase in interactions with the nuclei

214 xhibit preformed indole subsites; the indole subsites of the open Na(+) complexes are collapsed, dist

215 Furthermore, incidence of SCC in all other subsites of the oral cavity was decreasing.

216 n a substrate-like manner filling the S6-S5' subsites of the substrate binding cleft.

217 A previously unidentified cargo subsite on PACS-1 and PACS-2 interacted with a bipartite

218 Cooperative binding of a ligand to multiple subsites on a protein is a common theme among enzymes an

219 ination with variable interactions with five subsites on the binding surface, lead to different stoic

220 data show that the domains bind to distinct subsites on the myosin head, suggesting distinct roles i

221 e each LF binding site is comprised of three subsites on two adjacent PA monomers.

222 CRC that does not vary according to anatomic subsite or molecular subtype.

223 to cigarette smoking differed by anatomical subsite or sex.

224 tween dietary patterns and specific anatomic subsites or molecular subtypes of CRC.

225 analyses by sex, family history, colorectal subsite, or features of metachronous lesions.

226 nts' mean age (P = .03) and tumors' anatomic subsite (P = .0001) and grade (P = .0001) were significa

227 was inversely associated with all CRC cancer subsites, particularly rectal cancer (HRQ5 vs. Q1: 0.76;

228 factors for PES, including tumour stage and subsite, patient age, and comorbidities.

229 wering DeltaH(*), while contacts from the N3 subsite play a similar destabilizing role, but also form

230 s study indicates that alteration of this S2 subsite plays an important role in determining the activ

231 d open complex formation; (ii) the distal UP subsite plays the key role in this relaxation; (iii) mod

232 ent for C6-sulfate in the -2- and +1-binding subsites, PorB tolerates the presence of 3-6-anhydro-l-g

233 human enzyme with proline in the variable S1 subsite position.

234 tagenesis analysis reveals that two receptor subsites positioned ~20 angstrom apart trigger heme rele

235 e mouse and human marapsins are tryptic with subsite preferences distinct from those of prostasin, la

236 To determine the subsite preferences of KLK7 in a global setting, we used

237 due mutant PR3 (I217R) to investigate the S4 subsite preferences of PR3 and HNE and used the best pep

238 The S3-S3' subsite preferences of the recombinant mature PfPM1 were

239 KLK7 subsite preferences were also characterised in the P2-P2

240 groove is formed by L263 and N274 at the S1 subsite, R264 at the S2 subsite, and E265 at the S4 subs

241 in part to structural differences in binding subsites, receptor subunit interfaces, or transmembrane

242 ractions due to PR20 mutations in the S2/S2' subsites relative to PR.

243 eal that the presence of d-mannose at the +1 subsite renders the acid catalyst less efficient during

244 age site between nsP1 and nsP2) and 1052 (S4 subsite residue of nsP2 protease) in the nonstructural p

245 Effects of 11 substitutions of the S1 subsite residue valine 459 in the Plasmodium falciparum

246 ology modeling to predict the S1, S2, and S4 subsite residues of the Hap substrate groove.

247 a decreased affinity for galactose in the -2 subsite, respectively, compared to YpenMan26A.

248 Anatomic subsite risk factors for gastric cancer differ substanti

249 e on state is triggered by ligand binding at subsites S1 to S4 and appears to underlie the preferenti

250 ce for hydrophobic and aliphatic residues in subsite S2 and for positively charged residues in S1.

251 to the recognition of precise decorations at subsite S2.

252 esidues belonging to the identified acceptor subsites showed similar substrate affinity (Km) values t

253 complex with mannose bound in the -1 and +1 subsites showed that a pair of glutamates, Glu(227) and

254 Results did not differ by cancer subsite, source of vitamin B-6 (food or supplement), alc

255 y was to assess the risk of CRC (overall and subsite specific) among EC survivors.

256 strate-binding site of TRIP13 is composed of subsites specific for p31(comet) and C-Mad2-containing c

257 Our objectives were to identify HNSCC subsite-specific differences in SPM risk and distributio

258 for gastric cancer differ substantially, and subsite-specific distribution of risk factors (such as H

259 evaluate colorectal cancer (CRC) and whether subsite-specific risk models are warranted.

260 enzymes that significantly differed in their subsite specificities from the wildtype enzyme.

261 at allows quantification of the activity and subsite specificities of chitosan hydrolases.

262 ficient activity are then screened for their subsite specificities using mass spectrometric analysis

263 ses and chitosanases, with known and defined subsite specificities.

264 efficient and accurate in predicting altered subsite specificities.

265 used site-specific mutagenesis to reduce the subsite specificity of CnCda4 by converting an atypical

266 ubstitution with proline, which collapsed S1 subsite specificity such that only substrates with P1-Ar

267 ral variation contributes to diversity in S1 subsite specificity.

268 rs for dipeptide hydrolysis and remodeled S1 subsite specificity.

269 d differences in gastric cancer incidence by subsite, stratified by race and ethnicity and nSES, usin

270 FCO1 hydrolyzes H-disaccharide (lacking a +2 subsite sugar) at a rate 10(3)-fold slower than 2'-fucos

271 gressive tumors at HPV-associated oropharynx subsites than national averages.

272 We also identified key residues in this subsite that can potentially be targeted to improve inhi

273 trisaccharides reveals the presence of four subsites that bind individual glucose ring units.

274 l substrate specificity is attained by three subsites that preferentially bind anionic residues (sulf

275 ve complex forms by utilizing seven distinct subsites that traverse the entire length of the active s

276 low-molecular-weight levans, as the affected subsites that were closer to the catalytic site, but wit

277 he active site is located in the pocket (-2* subsite) that abuts onto the catalytic center.

278 The presence of multiple subsites, the electropositive groove, and the non-random

279 of Cs(+) complexes exhibit preformed indole subsites; the indole subsites of the open Na(+) complexe

280 Residues surrounding the +1 subsite thus are critical for activity and specificity o

281 onal specificity for d-glucosamine at its -1 subsite, thus preferring chitosan over chitin as a subst

282 across one negative and up to three positive subsites, thus providing structural rationalization for

283 tion of the importance of residues forming a subsite to accommodate meso-2,6-diaminopimelic acid in b

284 whereby desosamine is recognized in the two subsites to allow the macrolide substrate to sequentiall

285 the structural evidence for the five binding subsite topology.

286 ors, alcoholic beverage type, and anatomical subsite, we analyzed data from 190,698 black, Native Haw

287 Substrate interactions in the S2 subsite were shown to affect chloride affinity in the ch

288 Up to five subsites were observed, the sugar unit located at subsit

289 d a large hydrophobic platform comprising 10 subsites, which facilitates processivity.

290 ymes select for glucose or mannose at distal subsites, which is critical to defining their substrate

291 ot distinguish between Man and Glc at the -2 subsite, while one of these residues, Arg 361, confers t

292 ate glucose or mannose at both its -2 and +1 subsites, while the GH26 Bacillus subtilis mannanase, Bs

293 ysteine thiolate to an organometallic diiron subsite with CO, CN, and dithiolate ligands, in [FeFe]-h

294 ed by the interaction of the well defined S1 subsite with the side chain of the first (P1) residue of

295 stronger restriction of catalysis at the S1 subsite, with a preference for lysine, arginine, leucine

296 ys-1752 residue, which interacts with the S2 subsite, with Val, Met, or Ile has little effect on wild

297 ere, we show that PS1 mutations alter the S2 subsite within the active site of gamma-secretase using

298 as microsatellite instability (MSI), cancer subsite within the colon versus rectum, and age of diagn

299 elidin simultaneously occupies four distinct subsites within the catalytic domain of bacterial and hu

300 c residues between the alpha-GluII +1 and +2 subsites would have increased potency and selectivity, t