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1 e original bond lengths and angles and omega dihedrals).
2 transannular C-C bond and an increased flap dihedral.
4 (PTP) moieties to twist (anthracene subunit dihedral, 69 degrees); the interlocked, helical, homochi
5 on similar to that of B-form DNA, with small dihedral adjustments due to the larger circumference of
7 er adopt an unusual structure in which their dihedrals alternate between left- and right-handed Ramac
8 FtsA monomers exhibited nucleotide-dependent dihedral and opening angles, while crenactin monomer dyn
9 ng an alignment that accounts for (i) pseudo-dihedral and/or dihedral angle similarity, (ii) nucleoti
13 of tilt, increased rotation about the O2-C2 dihedral, and a greater sampling of non-TG exocyclic con
14 ibutions of rigid-body (Cartesian), backbone dihedral, and contact motions to transition-state (TS) p
16 along the coordinate of the central ethylene dihedral angle (theta) from the cis Franck-Condon region
17 he Haasnoot-Altona equation to calculate the dihedral angle (varphi) between the respective vicinal p
18 n at one end and a hexagon at the other, the dihedral angle about the edge increases, producing a dih
19 zation regimes as a function of the backbone dihedral angle and analogy is drawn to polycyclic pai-el
20 nformational reorganization of the distorted dihedral angle and distance between amide units at chemi
23 troscopy NMR studies suggest that the biaryl dihedral angle and the electronic nature of ortho-substi
24 he correlation (P < 0.001) between the dione dihedral angle and the preferential inhibition of either
25 g dynamics, water permeability (p(f)), and a dihedral angle are defined as functional order parameter
27 ations can arise either because of incorrect dihedral angle assignments or secondary structural prope
28 ransition state also suggests that a minimum dihedral angle between C-H bonds and Pd-OAc bonds is cru
30 nconventional approach, a fine-tuning of the dihedral angle between the C4 phenyl and the dihydropyri
33 the unusual match between residue-level PP2 dihedral angle bias in the unfolded state and PP2 helica
34 ys along pai-conjugated planes when at a low dihedral angle by shortening the end-to-end distance of
35 crocycles are coupled such that changing one dihedral angle can significantly affect other dihedral a
37 n energies identify a region for C4-C5-C6-N2 dihedral angle changes where deshielding of C4 is correl
39 itative understanding of why some side-chain dihedral angle combinations are highly populated and oth
40 cids in peptides and proteins adopt specific dihedral angle combinations; however, we still do not ha
43 ogen bonding, residual dipolar coupling, and dihedral angle constraints were used to calculate a set
45 5, in addition to changes of the C4-C5-C6-N2 dihedral angle could be consistent with visible absorpti
47 ometric constraint-exclusion of head-to-tail dihedral angle discrepancies (DADs)-explains this limite
50 and n variables, where the equations set the dihedral angle discrepancy about different types of edge
51 ose of this study was to analyze and compare dihedral angle distribution functions of the side chains
54 ntrast, we show that the observed side-chain dihedral angle distributions for both Val and Thr can be
56 observe striking differences in the backbone dihedral angle distributions for the protein unfolded un
57 ates how the force dependence of the protein dihedral angle distributions give rise to the worm-like
58 l transmission in peptides and proteins from dihedral angle dynamics observed in extended molecular d
61 proteins arising due to intrinsic varphi-psi dihedral angle fluctuations dictate the course of protei
63 UVRR nuW3 mode with the tryptophan chi(2,1) dihedral angle has been extended to a full, 360 degrees
64 energy profile generated by varying the psi dihedral angle in Ace-Pro-NMe indicates that the conform
65 sed conformational energy of the C4-C5-C6-N2 dihedral angle in the intact protein in the Pr state.
66 ed by an extra core twist, as the peripheral dihedral angle increases from 16.5 degrees in 1 to 20.7
67 ith suitable bridge lengths, a change in the dihedral angle induced a switch of the binaphthyl units
72 membered lactone the smallest Pd/endo-beta-H dihedral angle is observed for a conformer with a compar
73 yramidal coordination, where the Cl-Si-Si-Cl dihedral angle is twisted by 43.3 degrees (calcd 45.9 de
74 ctin dimers revealed that changes in subunit dihedral angle lead to intersubunit bending or twist, su
76 rapid algorithm using only single (phi,psi) dihedral angle moves also generates tertiary structures
78 e rotation around the F-C-S horizontal lineO dihedral angle of (fluoromethyl)methyl sulfoxide was eva
79 a butterfly-shaped geometry with a U-C(2)-U dihedral angle of 112.7 degrees and a U-U distance of 3.
81 , BIT-(NHexyl)2 is a twisted molecule with a dihedral angle of 78 degrees between the charged planes.
86 angle theta (Y = O, N, C) and lone pair-PYC dihedral angle omega shows similar theta,omega surfaces
88 This conclusion arises from considering the dihedral angle patterns within hexamers belonging to nat
89 articles interact via harmonic potential and dihedral angle potential and are subject to a constant a
91 whose value signals the extent to which the dihedral angle propensities differ from typical structur
94 occurs mainly through tilting of the Si-O-Si dihedral angle rather than shortening of the Si-O bond,
95 ank shows that sterically hindered ranges of dihedral angle reduce the possible chi(2,1) to one or tw
96 r modeling based on NMR-derived distance and dihedral angle restraints and molecular dynamics calcula
97 mics calculations restrained by distance and dihedral angle restraints obtained from NMR spectroscopy
98 collagen model peptides provide distance and dihedral angle restraints that allow determination of mo
99 d in combination with (1)H-(1)H distance and dihedral angle restraints to determine the protein backb
101 particular, a more acute O(oxo)-Mo-S(Cys)-C dihedral angle results in increased cysteine thiolate S
102 the fluorine to the diamine ring hinders the dihedral angle rotation between the benzene and the diam
103 ns indicate that intrachain interactions and dihedral angle rotation correlate with the presence of i
104 recaptured to a large measure using backbone dihedral angle sampling that includes nearest neighbor e
105 that accounts for (i) pseudo-dihedral and/or dihedral angle similarity, (ii) nucleotide sequence simi
106 Configurational entropies determined in dihedral angle space for each amino acid type are accura
107 ackbone torsional mobility in the varphi-psi dihedral angle space, we used a model intrinsically diso
109 oupling constants both as a function of PYCH dihedral angle theta (Y = O, N, C) and lone pair-PYC dih
110 is sequentially added to tune the inter-ring dihedral angle theta between the bipyridine and the aryl
111 bulk significantly increases the inter-ring dihedral angle theta, is attributed to the effects of li
112 en and the unpaired electron at C2 shows the dihedral angle to be 6 degrees, unlike the value of 77 d
113 ng the U-O(peroxo) bonds causes the U-O(2)-U dihedral angle to be bent, and it is this inherent bendi
116 f XAO, where, for each residue, the backbone dihedral angle varphi was constrained by using the repor
117 delocalization to hopping occurs at a unique dihedral angle where the electronic coupling (Hab ) is o
119 ion of the effects of conformation (backbone dihedral angle) on electron delocalization in infinite s
120 cis-chelating phosphine ligands (41 degrees dihedral angle) via a restricted alkyne-terminal startin
121 correlates (3)J(PH) with phosphorus-hydrogen dihedral angle, a recently reported glycine-derived 1,3,
123 ation enhancement (PRE) distance restraints, dihedral angle, small-angle X-ray scattering, residual d
130 in contains three bonds, two angles, and one dihedral angle; effective harmonic bonds are used to des
132 lems within the molecules as well as updated dihedral-angle diagnostics, and it can calculate and dis
133 (MC) motions [represented by coarse-grained dihedral angles (CGDAs) gamma(n) based on four successiv
136 n folding using the distribution of backbone dihedral angles (varphi,psi) obtained from an experiment
138 a pentagon to a hexagon has a DAD, since the dihedral angles about the edge broaden from its pentagon
139 2]paracyclophane resulting from larger amide dihedral angles accompanying transannular hydrogen bondi
141 ameter metric based on the comparison of the dihedral angles along all edges of the coordination poly
142 In the simulations, the sampling of all five dihedral angles along the linker was enhanced, so that b
146 diyne-bridged oligomers, where the preferred dihedral angles amount to roughly 30 degrees and 0 degre
147 these two regions allows for variability in dihedral angles and concomitant differences in chain con
148 multidimensional picture involving backbone dihedral angles and distance between hydrogen bond donor
151 erize the various properties of the backbone dihedral angles and secondary structural motifs of the g
152 bosomal interfaces with analysis of arginine dihedral angles and structural (suite) classification of
154 nformer families differing in characteristic dihedral angles are identified within a range of 16 kcal
156 "Twisted" amides containing nonstandard dihedral angles are typically hypersensitive to hydrolys
157 f high-quality correlation plots between the dihedral angles around a residue and those between seque
158 tructure with the same energy, for which the dihedral angles around the flexible ring have opposite s
159 ts deviate significantly from planarity with dihedral angles around the imide group reaching ca. -150
161 unique Archimedean solid with all edges and dihedral angles being equal, the icosidodecahedron, and
163 oops 3 and 5 have ribbon-like structure with dihedral angles between neighboring rings near zero.
165 has been placed on either dimers with large dihedral angles between the constituent planar monomeric
166 of electronic coupling is controlled by the dihedral angles between the terephthalate C6 ring and th
167 drogen atoms on the ring with identical PNCH dihedral angles but measured coupling constants of appro
170 B(I) and B(II) associated with the backbone dihedral angles epsilon and zeta but also coupled change
171 ally stable, and we find good agreement with dihedral angles estimated from solid-state NMR experimen
173 This was unexpected because the range of dihedral angles for arginine is limited relative to glyc
175 approach also produces geometric parameters (dihedral angles for the beta-methylene hydrogens) that s
177 directional statistics applied to the set of dihedral angles from the second and third residues of ea
178 nds containing biaryl backbones with smaller dihedral angles generate catalysts that react with highe
180 landscape as a function of the corresponding dihedral angles has been determined for each glycosidic
181 tures via the representations using backbone dihedral angles has recently achieved significant progre
182 tions show that variation of the histidines' dihedral angles in coordinating Cu controls the coupling
184 onic effects that preorganize the main-chain dihedral angles in the conformation found in the triple
186 lymers as a result of covalently constrained dihedral angles in the substituents (not the backbone),
188 a Schellman motif to cap an alpha-helix; its dihedral angles lie in the right side of the Ramachandra
189 ment, measured by phi, psi, chi1, and pseudo-dihedral angles more accurately classify kinase crystal
192 These "ABA" states correspond to consecutive dihedral angles of -55 degrees /+130 degrees /-55 degree
193 e, previous studies have suggested that some dihedral angles of amino acids in specific regions of th
194 rapharmacophore point distances, angles, and dihedral angles of different analogues spread over wide
195 peptide mimetics to enumerate the side-chain dihedral angles of leucine (Leu) and isoleucine (Ile), a
197 lly do not coincide with canonical values of dihedral angles of residues in parallel or antiparallel
199 erms of: 1), a local correlation between the dihedral angles of the guest amino acid and the proline
201 p between Raman frequencies and Ramachandran dihedral angles of the polypeptide backbone indicates th
204 d DFGinter or intermediate) and the backbone dihedral angles of the sequence X-D-F, where X is the re
205 used a basis set that includes all internal dihedral angles of the system with the exception of the
207 e all down (Cgamma-endo), and the varphi/psi dihedral angles of the Xaa 3(S)Hyp residues are also sim
208 l as the rotation of one or a few side-chain dihedral angles or involve concerted motions in larger p
209 alysis yields structural improvements at two dihedral angles over prior NMR predictions with differen
212 ecture combined with thermal fluctuations of dihedral angles results in large variations of local ele
213 ses as a function of the varphi,psi-backbone dihedral angles show that the expected value deviates by
214 e most populated conformers exhibit backbone dihedral angles similar to those of a PPII geometry.
217 , no correlations are found between backbone dihedral angles that are separated by more than one tors
218 rare cases, they involve sequentially remote dihedral angles that form sparse clusters, suggesting a
219 eries of biaryl cation radicals with varying dihedral angles that the hole stabilization shows two di
221 d DFT calculations of biaryls with different dihedral angles unequivocally support that a crossover f
222 ectly predicting 69.1% of all the side-chain dihedral angles using a stringent tolerance criterion of
225 ino acid solvent-accessible surface area and dihedral angles were combined with the RA and PLB to obt
226 he conditional activities between side-chain dihedral angles were computed using the output of micros
228 t-mean-square fluctuations, and variation in dihedral angles), and variability in designed structures
230 ecay rates of the angle between the dipoles, dihedral angles, and distance autocorrelations obtained
231 rted here as changes in O-atom locations and dihedral angles, become stronger for larger, more substi
232 calized perturbation in hydrogen bonding and dihedral angles, but the hydrophobic residue of a G4G in
233 nstrate that the mean-square displacement of dihedral angles, defined by 4 successive C(alpha) atoms,
234 ihedral angle can significantly affect other dihedral angles, further complicating the situation.
235 interactions with the host hardly affect the dihedral angles, validating that the host is an ideal me
236 iral structures with a broad distribution of dihedral angles, which may be explored as chiral ligands
250 ite with restricted rotation of the backbone dihedral angles; however, it does not have a well-define
251 ate, as measured by deviations of side-chain dihedral angles; however, often due to multiple atomic c
252 has mostly been on constraining the backbone dihedral angles; however, the correct orientation of the
254 wing to have at least 20 degrees of negative dihedral (anhedral), all configurations were quite stabl
255 sed tempering method with a high-temperature dihedral bias, we repeatedly folded four helical protein
257 s the tendency for metabolic enzymes to form dihedral complexes, which we suggest is closely related
258 explanation for why allostery is related to dihedral complexes: it allows for efficient propagation
259 ions support the existence of three distinct dihedral conformations that differ drastically in their
260 ser effect-derived distance constraints, 240 dihedral constraints, 160 hydrogen bond constraints, and
262 under physiological temperatures, the C6-C7 dihedral defining the relative orientation of the beta-i
264 the first normal mode calculation with full dihedral flexibility of several virus capsids, including
267 ment of the ring structures around the dione dihedral indicated that the ability of the compounds to
269 ransitions that are gated by the microsecond dihedral motions of the side chain of R476 and the therm
270 rthermore, the increased number of concerted dihedral moves at physiological conditions suggest that,
271 that 6a assumes an anti conformation with a dihedral O horizontal lineFe-Fe horizontal lineO angle o
272 magnetic hyperfine tensors suggests that the dihedral O horizontal lineFe-Fe horizontal lineO angle o
273 hich considers the joint distribution of the dihedral/planar angles over different lags using a nonpa
281 and is seen to occur in two steps, namely a dihedral rotation step followed by a side-group packing
282 ly proportional to the timescale of hindered dihedral rotations within the polypeptide chain, with a
283 hibitors and how computational tools such as dihedral scans and docking were used to support this pro
284 pendence of folding propensities on backbone dihedrals, secondary structure is expected to influence
285 lded chain further revealed that hops in the dihedral space provide the dominant mechanism of interna
290 force field parameters corresponding to the dihedral terms in the potential energy function were obt
292 ch model continuous flexibility in sidechain dihedrals, to model continuous, appropriately localized
293 e carbon to amidine carbon but a significant dihedral twist across the tricyclic and amidine-ring jun
294 f these chromophores reveals large ring-ring dihedral twist angles (80-89 degrees) and a highly charg
295 ounds with relatively linear shape and large dihedral twist, however, have been found recently to bin
297 to adopt low symmetry conformations, due to dihedral twists between neighboring porphyrin units, but
300 and G10 at the P-loop and the N-C(alpha)-C-O dihedral (xi) of G60, we further show that three water m