ライフサイエンスコーパス: sidechain

1 by relocating to replace the missing Arg85' sidechain.

2 h the formation of hydrogen bonds with polar sidechains.

3 sion between the negatively charged arginine sidechains.

4 substituted by aromatic, non-polar, or polar sidechains.

5 ches proteins for networks of proton-binding sidechains.

6 (<25), indicating only partial burial of the sidechains.

7 ate in interactions that are unique to polar sidechains?

8 The ion is coordinated by three acidic sidechains, a water molecule, a serine and a main-chain

9 otein folding is directed by the sequence of sidechains along the polypeptide backbone, but despite t

10 leation of hinge helices creates TS, burying sidechain amide nitrogens.

11 e addition of two DOPAL molecules to the Lys sidechain amine through their aldehyde moieties and the

12 critical catalytic roles in provision of the sidechain amino groups of tryptophan, phenylalanine, and

13 with the size of the substituted amino acid sidechain and affects a variety of modified nucleotide s

14 e suggestive that steric effects of the D254 sidechain and the N260-linked oligosaccharide may contri

15 is second sodium site involves two threonine sidechains and a backbone carbonyl from helix 3, a pheny

16 Polyglycine, a poly secondary-amide, has no sidechains and is a useful model system for generic poly

17 odeling whole proteins and their parts (e.g. sidechains and loops) as well as interactions between pr

18 ligible contribution to solvation by protein sidechains and observed that the hydration dynamics at t

19 s tend to form "water bridges" between their sidechains and TiO2 surface, thus displaying an indirect

20 peptide, indicating that it is the arginine sidechains, and not their contribution to the helical st

21 transition state analog shows that catalytic sidechains are properly aligned for catalysis.

22 to protonation of solvent-exposed histidine sidechains as the pH is reduced from a near neutral pH o

23 rs many possibilities for backbone-backbone, sidechain-backbone, and sidechain-sidechain interactions

24 tic sums of individual ANS(-)-polyamino acid sidechain binding enthalpies (polyhistidine, polyarginin

25 lpha subunits contain networks of pH-sensing sidechains buried between their Ras and helical domains.

26 develop a rapid method to evaluate whether a sidechain can form a hydrogen-bond.

27 Second, correlations between amino acid sidechains can convey allosteric signals even in the abs

28 nticipated that (13)C shift data for protein sidechains can provide a useful basis for the analysis o

29 ests the involvement of carboxylate ion, and sidechain carbon-oxygen of aspartate/glutamate and serin

30 conformation in which the first two residue sidechains complement hydrophobic residues around the ac

31 he other opposing the attendant reduction in sidechain conformational entropy on helix and turn forma

32 design have been much more limited than for sidechain conformational search.

33 an extremely large number of combinations of sidechain conformers and backbone fragments to locally e

34 phoglycolipid 5 to form the (C25) moenocinyl-sidechain-containing lipid 7.

35 For the trisaccharide sidechain-containing oligosaccharide as found in pea XG,

36 VP39's R107 sidechain contributes to specificity at the downstream r

37 cted, in the range that is unaffected by its sidechain contributions.

38 on of model peptides containing nucleophilic sidechains (Cys, His, and Lys) and selected proteins (bo

39 Some sidechain densities are clearly resolved and show the su

40 ithms, which model continuous flexibility in sidechain dihedrals, to model continuous, appropriately

41 urenine attracts more waters and other polar sidechains due to its additional amino and carbonyl grou

42 labelling experiments, and uses backbone and sidechain dynamics as well as secondary structure propen

43 et there is no experimental evidence for how sidechain dynamics control allosteric transitions betwee

44 ctural changes in A2AR, and that patterns of sidechain dynamics substantially differ between agonist

45 ng proteins through modulation of fast ps-ns sidechain dynamics.

46 Inward displacement of TM2 might alter the sidechain environment of control cable residues at the m

47 Their imidazole sidechains experience simple, uncoupled Henderson-Hassel

48 Completion of the sidechains, followed by global deprotection, resulted in

49 act as a signaling switch by movement of its sidechain from a hydrophilic pocket in the TMH bundle to

50 Significantly, HS sidechains from a neuroepithelial perlecan variant that

51 Our results demonstrate that different HS sidechains from the same core protein differentially aff

52 eptide conformations via linkage of aromatic sidechains has been developed.

53 ntacts: a turn-hydrogen bond, a mainchain-to-sidechain hydrogen bond, and an end-to-end hydrophobic c

54 NHBn in order to probe the interplay between sidechain hydrogen bonding and backbone conformational p

55 condary structure, solvent accessibility and sidechain hydrogen bonds, XSuLT annotates each amino aci

56 Thus, sidechain hydrogen-bonding potential is satisfied in a m

57 P/WARP--in terms of main chain completeness, sidechain identification and crystallographic R factor.

58 Using this example, we show that sidechain immobilization occurs downstream of the major

59 433) and that substitution with the Val(433) sidechain imparts a broader, more DnaK-like, substrate r

60 The oscillation of the R262 sidechain in CaiT indicates how a positive charge trigge

61 elix suggest an important role for its bulky sidechain in the allosteric mechanism; we show that the

62 Long sidechains in S2 are "bent" and co-locate with the homoa

63 The only charged sidechains in the core are those of D23 and K28, which f

64 oitin sulfate proteoglycan glycosaminoglycan sidechains in the periphery of the lesion.

65 dity on the structure than sequence-specific sidechain interactions between sheets, and that electros

66 ckbone, but despite this the developement of sidechain interactions during folding is not well unders

67 for the behavior of a protein when a mutant sidechain is abruptly changed to the wild-type residue a

68 The apolar outer barrel surface with large sidechains is immersed in the lipid bilayer, while the i

69 While sidechain length and/or branching had no effect on their

70 s clearly demonstrated that, when a cationic sidechain (Lys or Arg) is near an aromatic sidechain (Ph

71 enters on two prominent, sequential, peptide sidechains, methionine-tryptophan.

72 nsisting of a protein sequence, backbone and sidechain NMR resonance assignments, and 3D-NOESY ((13)C

73 The sidechain of Arg is more likely than that of Lys to be i

74 and have indicated that reorientation of the sidechain of Arg38, such that access to the haem is much

75 In one model, the sidechain of Asn122 is proposed to make interactions wit

76 with residues in the TMH bundle and that the sidechain of Asp-83 does not interact with Arg-143.

77 ge upon protonation that moves the imidazole sidechain of H64 away from the CO into the high-dielectr

78 zation for modification of a specific lysine sidechain of the cGTPase (K572) within human Miro1 is de

79 structural constraints onto the backbone and sidechain of the peptide and preorganize it to the bound

80 e that normally accommodates the hydrophobic sidechains of a canonical D-site, retaining a significan

81 Through the sidechains of aromatic amino acids, novel binding sites

82 In fact, naphthyridinols with sidechains of eight or more carbons had affinities for T

83 key step in the biosynthesis of fucosylated sidechains of galactoxyloglucan.

84 ly by analyzing to what extent the different sidechains of pea cell wall XG and nasturtium seed stora

85 favorable interactions of the osmolytes with sidechains of residues that lie at the interfaces of the

86 e strong dispersion interactions between the sidechains of these solvent-exposed basic residues and t

87 nine-scanning mutagenesis indicated that the sidechains of three phenylalanines (at positions 473, 47

88 presented which suggested that the different sidechains of XG may play a role in controlling cellulos

89 compared to simply placing the best-matching sidechains on ACMI's trace.

90 he energetic impact of individual amino acid sidechains on nucleotide translocation through the pore

91 ements have been made in sequence alignment, sidechain orientation and loop building.

92 ntaining oligosaccharide as found in pea XG, sidechain orientation appeared to regulate the gradual a

93 form of XG, forms in which the trisaccharide sidechain orientation enables increased backbone planari

94 on to modify the methylation state of lysine sidechains, other proteins recognize specific histone me

95 and found to direct their imidazole-bearing sidechains outward (exo).

96 atoms of the residues at positions 2, 9 and sidechain oxygen atoms of the residue at position 12 (N(

97 ating the interplay among backbone ordering, sidechain packing, and desolvation arises from these cal

98 gy-based criterion for selecting significant sidechain pairs.

99 In addition, the C=O group of each Gln sidechain participates in a seven-membered ring hydrogen

100 c sidechain (Lys or Arg) is near an aromatic sidechain (Phe, Tyr, or Trp), the geometry is biased tow

101 n the presence of DTNB allowed the degree of sidechain protection in any rapidly formed intermediate

102 perimental structures than the more extended sidechain regime.

103 tom models, resulting in fewer chains, lower sidechain RMS error and reduced R factor, compared to si

104 ations, that is coupled to dynamic two-state sidechain rotamer jumps, as evidenced by alternate confo

105 ng solvent exposure with relatively extended sidechains, rotamers are selected that exhibit maximal p

106 distinct mutations identified as disrupting sidechain-sidechain hydrogen bonding from 181 in our pre

107 r backbone-backbone, sidechain-backbone, and sidechain-sidechain interactions.

108 rings the two beta-sheets in contact through sidechain-sidechain interactions.

109 virtually unlimited alteration of amino acid sidechain structures.

110 a-tocopherol (alpha-TOH, right) with varying sidechain substitution was synthesized to determine how

111 hese findings suggest potential roles for XG sidechain substitution, enabling XG to function in a var

112 the C(alpha)-C(beta) bond, and its imidazole sidechain swings out of the heme pocket into the solvent

113 2) will also allow for selective decaging of sidechains that are candidates for covalent modification

114 and overall tertiary structure, but with the sidechains that make up the hydrophobic protein core dyn

115 s used to probe the exposure of the cysteine sidechain thiols in the kinetic folding intermediates of

116 nd carbonyl groups on the damaged tryptophan sidechain, thus breaching the integrity of nearby dry ce

117 (ptE) that constrained both the backbone and sidechain to the bound conformation was synthesized and

118 calculations were made with no repacking of sidechains upon complexation, and only minimal packing u

119 cating that pea XG possesses a trisaccharide sidechain, which is not found in nasturtium XG.

120 alternating orientations of the buried R262 sidechain, which mimic sodium binding and unbinding in t

121 d to attack C1 in GPP to form the moenocinyl sidechain, with the more distal regions of 5 aligning wi

122 Mutation of amino acids whose sidechains would directly coordinate bound ligands affec