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 me inhibited by its substrate RuBP and other sugar phosphates.

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

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

5 ase fails to engage and is not stimulated by sugar phosphates.

6 ctures liganded with Mn(2+) and a variety of sugar phosphates.

7 boxylase/oxygenase) to release tightly bound sugar phosphates.

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

28 decade ago in which the naturally occurring sugar phosphate backbone has been replaced by the N-(2-a

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

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

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

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

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

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

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

36 The sugar-phosphate backbone adopts a regular conformation s

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

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

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

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

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

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

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

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

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

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

47 therapeutics, chemical modifications of the sugar-phosphate backbone are frequently used to confer d

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

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

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

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

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

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

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

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

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

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

58 The sugar-phosphate backbone contributes most of the donors

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

60 the sites of vDNA joining, which exposes the sugar-phosphate backbone for IN-mediated strand transfer

61 , and shifting the population equilibrium of sugar-phosphate backbone geometry.

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

77 , we introduce chemical modifications to the sugar-phosphate backbone of Streptococcus pyogenes Cas9

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

99 would not be possible in the absence of the sugar-phosphate backbone which is essential for duplex f

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

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

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

103 estigated if restricting rotation around the sugar-phosphate backbone, by tethering two adjacent back

104 a site-specific neutralizing linkage in the sugar-phosphate backbone, demonstrating continuity in th

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

129 thermally induced local fluctuations of the sugar-phosphate backbones and bases - can populate metas

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

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

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

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

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

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

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

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

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

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

140 tes that the approach of increasing cellular sugar phosphates can be a generic tool to increase in vi

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

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

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

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

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

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

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

148 ction of agricultural products, and specific sugar-phosphate derivatives bind tightly to the active s

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

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

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

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

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

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

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

156 ermediates such as DHAP and GA3P, as well as sugar phosphates from the glycolysis and pentose phospha

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

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

159 RNA duplexes, such as base-base stacking and sugar-phosphate H-bond interactions.

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

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

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

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

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

165 d inhibited complexes while binding multiple sugar phosphates, including its substrate ribulose 1,5-b

166 ATP hydrolysis to the removal of inhibitory sugar phosphates, including the rubisco substrate ribulo

167 co activase (Rca) facilitates the release of sugar-phosphate inhibitors from the active sites of Rubi

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

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

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

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

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

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

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

175 structures varying the state of methylation, sugar, phosphate linkage, and base composition on 25mer

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

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

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

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

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

181 We find that sugar phosphates occupy the ancestral catalytic site in

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

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

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

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

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

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

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

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

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

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

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

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

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

195 eIF2B evolved to couple nutrient status via sugar phosphate sensing with the rate of protein synthes

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

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

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

199 Sugar phosphate stress in Escherichia coli is sensed and

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

217 Sugar phosphates were separated on a Primesep SB column

218 actose), to increase the levels of a pool of sugar phosphates which are connected to the biosynthesis

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

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

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