ライフサイエンスコーパス: sugar phosphate

1 for the ring size and stereochemistry of the sugar phosphate.

2 e ribulose-1,5-bisphosphate (RuBP) and other sugar phosphates.

3 ylulose 5-phosphate (Xu5P), but not by other sugar phosphates.

4 ption of glycolytic flux and accumulation of sugar-phosphates.

5 ich in turn limits the accumulation of toxic sugar-phosphates.

6 PCR, enzymatic assays, nucleotide sugar, and sugar phosphate analyses, along with matrix-assisted las

7 mal compartment, and the pK(a) values of the sugar phosphate and His(105) are accountable for its ina

8 tro ManS and GMGT activities and analysis of sugar phosphate and nucleotide sugar levels in the endos

9 These analyses show distinctive roles of the sugar phosphate and the adenine in the cAMP-binding modu

10 thesis routes have been proposed for sugars, sugar phosphates and the four RNA bases, but the couplin

11 lation of many metabolites including sugars, sugar phosphates, and amino acids in E. salsugineum comp

12 arget list comprising organic acids, sugars, sugar phosphates, and nucleotides.

13 yl and acyl chains, exposing the hydrophilic sugar, phosphate, and other polar functions for interact

14 e network of interactions with the NTP base, sugar, phosphates, and additional pol II residues.

15 s conditions associated with accumulation of sugar-phosphates, and its activity is crucial for growth

16 between -535 and -401 mediated responses to sugars, phosphate, and auxin.

17 unexpected metabolites, including two higher sugar phosphates annotated as octulose phosphate and non

18 The B-->A transformation selectively exposes sugar-phosphate atoms, such as the 3'-oxygen atom, ordin

19 of the fungal domain runs parallel with the sugar phosphate backbone along the edge of the minor gro

20 ing suggests that local rearrangement of the sugar phosphate backbone and decreased base interactions

21 critical for its ability to track along the sugar phosphate backbone and unwind dsDNA.

22 ng by helicases that are likely to encounter sugar phosphate backbone damage during biological DNA tr

23 stically unwound a DNA duplex substrate with sugar phosphate backbone discontinuity, but not an 'unda

24 decade ago in which the naturally occurring sugar phosphate backbone has been replaced by the N-(2-a

25 ue to sequence-dependent perturbation of the sugar phosphate backbone in the TpsiC stem of initiator

26 report that deamination of a T(m)C CPD whose sugar phosphate backbone is positioned against the histo

27 s the beta-ribo-stereochemistry found in the sugar phosphate backbone of biological nucleic acids.

28 rocess separates cytosine and 5-meC from the sugar phosphate backbone, this method is unable to disti

29 , which lack the nucleobase but preserve the sugar phosphate backbone, were introduced throughout the

30 ther a damaged or mismatched base to the DNA sugar phosphate backbone.

31 twork of non-base-specific contacts with the sugar phosphate backbone.

32 The sugar-phosphate backbone adopts a regular conformation s

33 ucture shows only minor perturbations in the sugar-phosphate backbone and a 27 degrees bend of the he

34 corresponds to the local inclination between sugar-phosphate backbone and base plane in nucleic acid

35 dsDNA occurs principally via contacts to the sugar-phosphate backbone and bases of the 3'-5' strand;

36 acids as well as full atomic models with the sugar-phosphate backbone and publication quality 'standa

37 midination of the nitrogenous bases from the sugar-phosphate backbone and the action of DNA glycosyla

38 structural perturbations encompass both the sugar-phosphate backbone and the bases of the consensus

39 g electrostatic interactions between the DNA sugar-phosphate backbone and the Cd(2+) ions, crystallog

40 g in a non-sequence-specific manner with the sugar-phosphate backbone and the two nonconserved tetral

41 recognized through protein contacts with the sugar-phosphate backbone and with nonspecific portions o

42 ntry to the binding site is specific for the sugar-phosphate backbone and/or conformation of the dupl

43 r crystal structure to make contact with the sugar-phosphate backbone are more detrimental to DNA bin

44 excision repair enzyme APE1 cleaves the DNA sugar-phosphate backbone at a position 5' of AP sites to

45 ion site, including a noticeable kink in the sugar-phosphate backbone at this position.

46 or reducing agents, the polymer may have its sugar-phosphate backbone broken.

47 Moreover, the sugar-phosphate backbone can also undergo limited moveme

48 rder, resulting in a structure with a single sugar-phosphate backbone conformation and an averaged ba

49 An analysis of the sugar-phosphate backbone conformation is included.

50 ist and propeller twist; (ii) changes to the sugar-phosphate backbone conformation to engulf the boun

51 t differ in mutual base-pair orientation and sugar-phosphate backbone conformation.

52 primarily upon appropriate minor groove and sugar-phosphate backbone contacts, irrespective of the s

53 The sugar-phosphate backbone contributes most of the donors

54 gions form a continuous helix with a regular sugar-phosphate backbone except at a non-conserved adeni

55 ers has been used to analyse the role of the sugar-phosphate backbone in coupling the conformational

56 to understanding the flexible nature of the sugar-phosphate backbone in formation of unusual archite

57 trasts with their smooth alignment along the sugar-phosphate backbone in the (AP)(2)-3'-staggered dup

58 tures is a change in the conformation of the sugar-phosphate backbone in the regions at and adjacent

59 Controls with stabilized sugar-phosphate backbone indicate that enzymatic cleavag

60 whereby a higher incidence of lesions to the sugar-phosphate backbone induces degradation of damaged

61 up mutagenesis was used to probe the role of sugar-phosphate backbone interactions in recognition of

62 In agreement with earlier studies, the sugar-phosphate backbone is found to have a certain degr

63 oxygen atoms in the phosphate moiety of the sugar-phosphate backbone is replaced by sulfur.

64 each hybrid contains one of three different sugar-phosphate backbone linkages at each nucleotide: (1

65 contains one of two different stereoregular sugar-phosphate backbone linkages at each nucleotide: 1)

66 We describe how the movement of the sugar-phosphate backbone may affect the accommodation of

67 We have examined how the movement of the sugar-phosphate backbone may affect the minor groove wid

68 which the protein interacts solely with the sugar-phosphate backbone of a short, single-stranded RNA

69 DNA and how they interact with the bases and sugar-phosphate backbone of nucleic acids.

70 The polymerase interacts with the sugar-phosphate backbone of the DNA across its minor gro

71 itudes of localized, internal motions of the sugar-phosphate backbone of the DNA and inhibition of re

72 protein but rotates out to pack against the sugar-phosphate backbone of the DNA in the repressor-ope

73 same set of polymerase residues tracking the sugar-phosphate backbone of the DNA or RNA primer.

74 g the bulged adenine a16 and stabilizing the sugar-phosphate backbone of the hybrid.

75 entation with respect to the polarity of the sugar-phosphate backbone of the nucleic acid, with the l

76 rotein-DNA interactions involve atoms of the sugar-phosphate backbone of the nucleic acid.

77 cts between the 5' flap endonuclease and the sugar-phosphate backbone of the overlap flap substrate w

78 ytosine in the third strand is closer to the sugar-phosphate backbone of the purine strand.

79 In the 1.8 A resolution structure, the sugar-phosphate backbone of the third strand is parallel

80 ggest that gp32 binding directly extends the sugar-phosphate backbone of this ssDNA oligomer, particu

81 ly stacked hairpins despite the break in the sugar-phosphate backbone on one strand.

82 interactions, facilitates local bends in the sugar-phosphate backbone or binds in the major groove of

83 ransition are not readily detectable for the sugar-phosphate backbone or the cytosine and guanosine b

84 y EcoRV depends in part on contacts with the sugar-phosphate backbone outside of the target site.

85 en adjacent to one another and surrounded by sugar-phosphate backbone protections; thus, the results

86 mized, subject to constraints imposed by the sugar-phosphate backbone segments being anchored to spac

87 Since the sugar-phosphate backbone structure is identical in the 3

88 pair of conserved base triples that mold the sugar-phosphate backbone to S8.

89 ly persistent cooperative transitions of the sugar-phosphate backbone torsion angles alpha and gamma.

90 Although the DNA is very B-like, the sugar-phosphate backbone torsion angles beta, epsilon, a

91 ostatic interactions between substituent and sugar-phosphate backbone, and a stable water structure i

92 shape recognition, through contact with the sugar-phosphate backbone, and cation-pi interactions are

93 no contacts with DNA bases and few with the sugar-phosphate backbone, but it fits sterically to majo

94 he pattern of hydrogen bonds from protein to sugar-phosphate backbone, disrupting the catalytic site.

95 y and characterize damage induced in the DNA sugar-phosphate backbone, in this work we performed x-ra

96 o small conformational rearrangements in the sugar-phosphate backbone, sufficient to destabilize bind

97 ce-dependent spatial arrangements of the DNA sugar-phosphate backbone, sugar-base side groups, base p

98 bond to model the constraints imposed by the sugar-phosphate backbone, twist, roll, tilt and rise can

99 ng slot and has polar contacts only with the sugar-phosphate backbone, which faces the solvent.

100 he combined effect of the base atoms and the sugar-phosphate backbone, which is impacted by stacking

101 d Z-DNA are made primarily with the "zigzag" sugar-phosphate backbone, which provides a basis for the

102 ure shows no significant perturbation of the sugar-phosphate backbone, which remains in B-form.

103 rhodium complex to deliver metal ions to the sugar-phosphate backbone.

104 lesion site and no severe distortions of the sugar-phosphate backbone.

105 osing the minor groove, are observed for the sugar-phosphate backbone.

106 glycosidic bond between the base and the DNA sugar-phosphate backbone.

107 stiffening of the heterocyclic bases and the sugar-phosphate backbone.

108 and numerous non-specific contacts along the sugar-phosphate backbone.

109 ntation, with respect to the polarity of the sugar-phosphate backbone.

110 sion site without major perturbations of the sugar-phosphate backbone.

111 could remove tails containing adducts on the sugar-phosphate backbone.

112 ly charged HIN domain residues and the dsDNA sugar-phosphate backbone.

113 ter-mediated interactions with bases and the sugar-phosphate backbone.

114 y remove nucleobases, although retaining the sugar-phosphate backbone.

115 rns indicate that (i) RNase III contacts the sugar-phosphate backbone; (ii) the RNase III-substrate i

116 of various lengths supported this model, and sugar-phosphate-backbone-modified target strands showed

117 the closeness of the two negatively charged sugar-phosphate backbones along the major groove in A-DN

118 logs with modified N3'-->P5' phosphoramidate sugar-phosphate backbones are stable and nuclease-resist

119 ," and it is likely that fluctuations of the sugar-phosphate backbones of dsDNA that result in mechan

120 gize to specifically interact with bases and sugar-phosphate backbones of the bound RRE.

121 wiching van der Waal's interactions from the sugar-phosphate backbones of the double helix similar to

122 igid) insertion of the chromophores into the sugar-phosphate backbones resulted in DNA constructs tha

123 ids has identified systems with a variety of sugar-phosphate backbones that are capable of Watson-Cri

124 ces arise from differential solvation of the sugar-phosphate backbones.

125 e pairs and all-atom models with approximate sugar-phosphate backbones.

126 Mutations of a methionine residue in the sugar phosphate binding site produced apparent cooperati

127 DNA polymerase beta (beta-pol) cleaves the sugar-phosphate bond 3' to an intact apurinic/apyrimidin

128 eleventh transmembrane segment of UhpT, the sugar phosphate carrier of Escherichia coli.

129 n pathway through UhpT, the Escherichia coli sugar phosphate carrier, has been assigned to a transmem

130 xperimentally about the relationship between sugar phosphate conformation and sequence directed bendi

131 The method gave the solution only after the sugar-phosphate conformation of the GpC step was manipul

132 the more recently recognized superfamily of sugar phosphate cyclases, which includes DHQ synthases,

133 her highlight the uniquely diverse DHQS-like sugar phosphate cyclases, which may provide new tools fo

134 dependent sugar phosphorylation activity and sugar phosphate-dependent sugar transphosphorylation act

135 n addition to PC-related structures, certain sugar phosphates (e.g. galactose 6-phosphate) are bound

136 rates a strand break containing 3'-OH and 5'-sugar phosphate ends.

137 ty of our method is illustrated by profiling sugar phosphates extracted from the leaves of five taxon

138 own quantities of authentic standards in the sugar phosphate extraction protocol, ranged from 40.0% t

139 ch are involved in the uptake of high-energy sugar phosphates from an external source.

140 ical ATP, ADP and CrP levels accumulation of sugar phosphates from glycolysis can stimulate SR Ca(2+)

141 for photosynthesis, which removes inhibitory sugar phosphates from the active sites of Rubisco, a pro

142 reaction), and transphosphorylation using a sugar phosphate (glucose-6-P for IIGlc and IIMan; mannit

143 ating a nick with 3'-hydroxyl and 5'-reduced sugar phosphate groups at the margins, and then a dNMP c

144 hate, inorganic pyrophosphate, or a range of sugar phosphates hydrolyzed by the liver enzyme.

145 phogluconate (6PG) is proposed to anchor the sugar phosphate in the active site and aid in orientatin

146 ensitive and reliable analysis of sugars and sugar phosphates in tissues and cells is essential for m

147 Accumulation of certain nonmetabolizable sugar-phosphates (including alpha-methyl glucoside-6-pho

148 nd that PfHAD1 dephosphorylates a variety of sugar phosphates, including glycolytic intermediates.

149 egulation of SR Ca(2+) release by glycolytic sugar phosphate intermediates in cat ventricular myocyte

150 In mammalian cells, the 5'-sugar phosphate is removed by the AP lyase activity of D

151 This sugar phosphate is then converted to UDP-GalA by a UDP-s

152 lls, a major source of glucose and the large sugar phosphates is gluconeogenesis.

153 usion of two distinct modules: an N-terminal sugar phosphate isomerase-like domain associated with DS

154 ne, and threonine), differences in sugar and sugar phosphate levels, and lower content of 2-oxoglutar

155 from the guanine nitrogen atom used for the sugar phosphate linkage in DNA.

156 aracterized predominantly encode enzymes for sugar phosphate metabolism, and are induced after severa

157 f of their hydrogen bonds to the protein via sugar-phosphate moieties, accounting, in part, for the b

158 ve site demonstrated a general similarity of sugar-phosphate moiety recognition of the incoming ribon

159 ng motif near the amino terminus, and bind a sugar phosphate molecule as the inducing signal.

160 odakaraensis, and these include aIF2alpha, a sugar-phosphate nucleotidyltransferase with sequence sim

161 used to evaluate morpholino and 2'-O-methyl sugar-phosphate oligonucleotides.

162 may be due to either toxicity of accumulated sugar-phosphates or to depletion of metabolic intermedia

163 but had essentially no activity on any other sugar phosphates, or on p-nitrophenyl phosphate.

164 ong the backbone, with hydrogen bonds to the sugar-phosphate oxygen atoms.

165 branch of TCA cycle, pyruvate synthesis, and sugar phosphate pathways, but the cells anabolic pathway

166 tensive substrate screen to be a broad-range sugar phosphate phosphatase.

167 on, as indicated by reaction of the released sugar-phosphate products with sodium thioglycolate.

168 thesis in this pathway and also removes a 5'-sugar phosphate residue by catalyzing a beta-elimination

169 a baseless site, removal of the 5'-terminal sugar-phosphate residue is achieved by deoxyribophosphod

170 yribophosphodiesterase acts to remove the 5' sugar-phosphate residue left by AP endonuclease.

171 and subsequently found to efficiently remove sugar-phosphate residues at incised 5' AP sites.

172 rotein of S3 was found to efficiently remove sugar-phosphate residues from DNA substrates containing

173 a sequence of space-fixed base pairs by the sugar-phosphate segments of single nucleotides and to ev

174 The ET cassette consists of a sugar-phosphate spacer with a FAM donor at the 3'-end, a

175 However, the sugar-phosphate specificity of the transport process dif

176 he method was validated by spiking authentic sugar phosphate standards into complex plant tissue extr

177 Sugar phosphate stress in Escherichia coli is sensed and

178 under different nutritional conditions when sugar-phosphate stress is induced.

179 ar accumulation and associated stress (i.e., sugar-phosphate stress) by producing a small RNA (sRNA)

180 tributes to the rescue of cell growth during sugar-phosphate stress.

181 th 14-3-3-binding phosphopeptides, the total sugar-phosphate synthase activity in plant extracts was

182 tabolism, in particular the emergence of the sugar phosphates that constitute glycolysis, the pentose

183 T promoter, which controls expression of the sugar phosphate transport system in Escherichia coli, po

184 system that controls expression of the UhpT sugar phosphate transporter in Escherichia coli in respo

185 UhpT, the sugar phosphate transporter of Escherichia coli, acts to

186 pA protein is required for expression of the sugar phosphate transporter UhpT in Escherichia coli and

187 on of the Escherichia coli uhpT gene for the sugar phosphate transporter UhpT in response to extracel

188 Expression of the Escherichia coli sugar phosphate transporter UhpT is induced by extracell

189 In the sugar phosphate transporter UhpT, gain-of-function deriv

190 HK protein which controls production of the sugar phosphate transporter UhpT.

191 ichia coli uhpT gene, encoding the inducible sugar phosphate transporter, is dependent on the respons

192 The uhpT gene, which encoded a sugar phosphate transporter, was the most frequently iso

193 olysis of 1-5 nucleotides 3' to the baseless sugar phosphate was deficient.

194 This effect of sugar phosphates was associated with a 13% decrease in S

195 Sugar phosphates were separated on a Primesep SB column

196 ualitative and quantitative determination of sugar phosphates, which are notoriously difficult to sep

197 isco is prone to inhibition by tight-binding sugar phosphates, whose removal is catalyzed by Rca.

198 th hydride transfer and the isomerization of sugar phosphates with proton transfer is proposed to be