ライフサイエンスコーパス: depurination

1 r mutations other than those attributable to depurination.

2 unstable DNA crosslinks, that could undergo depurination.

3 g that wild-type L3 is required for ribosome depurination.

4 reamplification, probably via the process of depurination.

5 yl bond by DNA glycosylase or by spontaneous depurination.

6 ites were generated in DNA by partial acidic depurination.

7 tide interactions and protect ribosomes from depurination.

8 cytotoxicity because it reduced the rate of depurination.

9 ciently protected against 4-OH-E(1)-mediated depurination.

10 rates recruitment of RTA to the ribosome for depurination.

11 7 underwent glycolysis, followed by complete depurination.

12 ude faster than that of random "spontaneous" depurination.

13 d cytotoxicity without altering the ribosome depurination ability.

14 Depurination activity also occurs on stem-loop DNA with

15 ues were used to quantitatively describe PAP depurination activity and PAP-VPg interactions.

16 Further reduction in toxicity, depurination activity and ribosome binding was observed

17 rg176 are more important than Arg179 for the depurination activity and toxicity of Stx1A1 and Stx2A1.

18 A self-catalyzed, site-specific guanine-depurination activity has been found to occur in short g

19 The R235A mutation reduced toxicity and depurination activity more than any other single arginin

20 Mutation of a single arginine reduced the depurination activity of Stx1A1 more than that of Stx2A1

21 we examined the role of ribosome binding and depurination activity on inhibition of the UPR using mRT

22 A inhibits HAC1(u) mRNA splicing through its depurination activity on the ribosome without directly a

23 ed reduced binding to ribosomes but retained depurination activity, inhibited HAC1(u) mRNA splicing.

24 An active-site mutant with very low depurination activity, which bound ribosomes as WT RTA,

25 faster than would be expected by spontaneous depurination alone, suggesting that there may be residua

26 nce in the absence of ribosome binding, rRNA depurination and acidic PR protein production.

27 ification can yield important information on depurination and base oxidation.

28 quences with high A content (adenine) due to depurination and chain cleavage.

29 ified the amino acids important for ribosome depurination and cytotoxicity of PAP.

30 nct from the sequences required for ribosome depurination and cytotoxicity.

31 Methylation protection and interference, and depurination and depyrimidation interference provided a

32 ommon DNA lesions resulting from spontaneous depurination and excision of damaged nucleobases by DNA

33 We have found that depurination and prenicking at positions around the -10

34 We report the effects of depurination and prenicking at various positions of the

35 esidue at position 70 (N70A) delays ribosome depurination and the onset of translation arrest.

36 ediated cell death, indicating that ribosome depurination and translation inhibition do not account e

37 mechanism that occurs independently of rRNA depurination and translation.

38 as a minor nonspecific effect on the rate of depurination, and a major specific effect on the rate of

39 To elucidate the mechanism of RNA depurination, and to understand how PAP recognizes and t

40 Since nicking and depurination are known to destabilize DNA helical struct

41 An acidic depurination assay was developed that allowed the contro

42 Using novel array based depurination assays, we show that the depurination side

43 atography in combination with yeast ribosome depurination assays.

44 10(5)-fold faster than random "spontaneous" depurination at pH 5.

45 In addition, we have found that depurination at several positions inhibited open complex

46 t are not directly involved in the catalytic depurination at the active site exhibit >150-fold reduce

47 ard acid-catalyzed and glycosylase-catalyzed depurination by 2'-fluorination and toward base-catalyze

48 binding stimulates the catalysis of ribosome depurination by orienting the active site of RTA toward

49 d cleavage og the RNA by alpha-sacrin, where depurination by ricin A-chain was little affected.

50 Yet they inhibit depurination by ricin holotoxin and inhibit the cytotoxi

51 67 pair), reduced cleavage by sarcin whereas depurination by ricin was slightly increased.

52 reased cleavage by sarcin but did not affect depurination by ricin.

53 7.1 to 73.9 nm, making it more vulnerable to depurination by RIPs.

54 binding stimulates the catalysis of ribosome depurination by RTA.

55 least two arginines was necessary to reduce depurination by Stx2A1 to a level similar to that of Stx

56 We also demonstrate how depurination can be controlled and reduced by a novel de

57 ntly among primates, thereby conferring self-depurination capacity at codon 6.

58 bind to apurinic sites formed by spontaneous depurination, chemical attack, or other glycosylases.

59 -infected flies show a strong signal of rRNA depurination consistent with RIP-dependent modification

60 of Sulfolobus solfataricus likely undergoes depurination/depyrimidination frequently in vivo.

61 asic sites that arise in DNA from hydrolytic depurination/depyrimidination of the nitrogenous bases f

62 , as measured by the reduction of human rRNA depurination detected by our novel TaqMan-based RT-qPCR

63 enerated in nucleic acids due to spontaneous depurination, DNA damage or base excision of mismatched

64 In order to understand the implications of depurination during DNA synthesis, the detritylation kin

65 Furthermore, we demonstrate how to suppress depurination during the addition of adenine nucleotides.

66 d trimer oligonucleotides were used to study depurination during the chemical synthesis of oligonucle

67 Premethylation interference and depurination experiments with the car and argF operators

68 Ribosome depurination gradually decreased upon the sequential del

69 Depurination half-times obtained for dichloroacetic acid

70 genomes, occurring with higher frequency at "depurination hot spots." Recently, we discovered a site-

71 st be avoided because they damage the DNA by depurination, i.e. the cleavage of purine bases from the

72 ogues are more susceptible to acid-catalyzed depurination illustrating that the enzyme-catalyzed mech

73 ation of the catalytic intermediate for self-depurination in double-stranded DNA requires a stem-loop

74 obtaining maximum detritylation with minimum depurination in oligonucleotide synthesis.

75 We quantify the extent of rRNA depurination in vivo using a novel primer extension assa

76 Techniques that avoid acid depurination including in-gel hybridizations and UV irra

77 While acid hydrolysis does not result in depurination, internal fragments especially in the low m

78 Self-catalyzed DNA depurination is a sequence-specific physiological mechan

79 [Chemical reaction: See text] Depurination is an important degradation pathway for ant

80 These results indicate that self-catalyzed depurination is not unique to single-stranded DNA; rathe

81 y and show that the temporal pattern of rRNA depurination is similar to the pattern of PAP mRNA desta

82 ir requirement at the base of the loop: self-depurination is suppressed by 5'-C.G-3', 5'-A.T-3', or a

83 des and report on the susceptibility of X to depurination, its miscoding potential during replication

84 be only slightly less stable than guanine to depurination (k(X)/k(G) = 1.19), whereas at pH <or= 4 th

85 Analysis of ribosome depurination kinetics demonstrated that Stx2A1 depurinat

86 The strong dependence of the self-depurination kinetics on stem stability suggests that th

87 The variation in self-depurination kinetics with sequence changes in the loop

88 Self-catalyzed stem-loop-mediated depurination leading to flexible apurinic sites may ther

89 Inhibition of the UPR correlated with the depurination level, suggesting that ribosomes play a rol

90 dy, evidence is presented for self-catalyzed depurination mediated by cruciform formation in plasmid

91 RTA) and saporin-L1 (SAP) catalyze adenosine depurination of 28S rRNA to inhibit protein synthesis an

92 w that recombinant Spiroplasma RIP catalyzes depurination of 28S rRNAs in a cell-free assay, as well

93 Ricin A-chain (RTA) catalyzes the depurination of a single adenine at position 4324 of 28S

94 ribosomal inactivating activity arises from depurination of a single adenine from position A(4324) i

95 eir protein synthesis-inhibitory activity by depurination of a single adenine residue from the 28S rR

96 ) from castor beans catalyzes the hydrolytic depurination of a single base from a GAGA tetraloop of e

97 Catalytic depurination of a specific adenine has been proposed to

98 Ricin A-chain (RTA) catalyzes the hydrolytic depurination of a specific adenosine at position 4324 of

99 ) has, for many years, been considered to be depurination of a specific adenyl residue of ribosomal R

100 The deletions had no effect on the depurination of A4324 by ricin nor on the cleavage of th

101 Toxin A-chain (RTA) catalyzes the hydrolytic depurination of A4324, the first adenosine of the GAGA t

102 ARP-slot-blot assay, the rate of spontaneous depurination of calf thymus DNA was determined.

103 near the active-site pocket is required for depurination of cytosolic ribosomes but not for cap bind

104 It is based on specific acid-catalyzed depurination of DNA followed by mass spectrometric quant

105 DNA enzyme that catalyzes the site-specific depurination of DNA with a catalytic rate enhancement of

106 all but statistically significant signals of depurination of Drosophila rRNA in the Spiroplasma treat

107 us sequence for self-catalyzed site-specific depurination of G residues is explored.

108 nough to fix the loop structure required for depurination of its 5'-G residue.

109 ting proteins (RIPs) catalyze the hydrolytic depurination of one or more adenosine residues from euka

110 lso play a critical role in the PAP-mediated depurination of ribosomal RNA.

111 Further, VPg is a potent inhibitor of PAP depurination of RNA in wheat germ lysate and competes wi

112 In vivo depurination of rRNA was detected in transgenic tobacco

113 lanogaster embryos, to search for signals of depurination of rRNA, consistent with the activity of Ri

114 ng the same active site that is required for depurination of rRNA.

115 used to establish the kinetic parameters for depurination of short RNA, DNA, and RNA-DNA hybrids of G

116 The consensus sequences for self-depurination of such G- and A-loop residues occur in all

117 d activity assay that detects ricin mediated depurination of synthetic substrates was improved throug

118 Our previous studies showed that depurination of the 28S rRNA by ricin results in the inh

119 The observations suggest that self-catalyzed depurination of the 5' G residue of the loop consensus s

120 a stem-loop structure that can self-catalyze depurination of the 5'G residue of that codon.

121 he spectra, it appears that the slow rate of depurination of the N7Gua adducts during active repair m

122 Depurination of the ribosomal sarcin-ricin tetraloop (GA

123 al P-stalk for loading onto the ribosome and depurination of the sarcin-ricin loop, which halts prote

124 it (RTA) to the ribosomal P-stalk stimulates depurination of the sarcin/ricin loop by an unknown mech

125 The aptamer inhibited RTA depurination of the SRL and could partially protect tran

126 showed that ribosomal stalk is required for depurination of the SRL by ricin toxin A chain (RTA).

127 n binding of PAP to ribosomes and subsequent depurination of the SRL.

128 Depurination of the substrate by ricin was confirmed by

129 an ribosome-inactivating protein and allows depurination of the target adenine.

130 explored the acid-catalyzed (non-enzymatic) depurination of these substrates, which appears to follo

131 C terminus is also required for toxicity and depurination of tobacco ribosomes in vivo, but not for a

132 or antiviral activity, toxicity, and in vivo depurination of tobacco ribosomes.

133 Depurination of yeast 26S rRNA by ME1 and ME2 demonstrat

134 N-glycosidase activity as manifested by the depurination of yeast rRNA.

135 mmon DNA lesions that arise from spontaneous depurination or by base excision repair (BER) of modifie

136 plasmid or genomic calf thymus DNA via mild depurination or by simple incubation at physiological co

137 B1-N7-dG adduct undergoes either spontaneous depurination or imidazole-ring opening yielding formamid

138 a 1-h incubation and eliminates artifactual depurination or loss of AP sites during DNA isolation.

139 Stx2 have similar requirements for ribosome depurination, PAP has different requirements, providing

140 g to an elution solvent designed to minimise depurination (PCR buffer) facilitates the elution of int

141 lkylation by alkyltransferase-S-CH2CH2Br and depurination, plus another as yet uncharacterized system

142 In addition to the "n-x" sequences, depurination products, and incompletely deprotected olig

143 (k(X)/k(G) = 1.19), whereas at pH <or= 4 the depurination rate exceeded that of G by more than an ord

144 Depurination rates vary widely across genomes, occurring

145 The depurination reaction activates the ribotoxic stress res

146 O)2 effectively hinders any redox cycling or depurination reaction of CGenQ with DNA.

147 The depurination reaction of guanosine, protonated or modifi

148 Protonation accelerates the depurination reaction whereas N7-platination, the initia

149 kbone cleavage by a mechanism similar to the depurination reactions employed in the chemical degradat

150 )) and pH-independent (1.4 x 10(-8) x s(-1)) depurination reactions for dX as well as the dissociatio

151 Chemical mechanisms for enzymatic RNA depurination reactions include leaving group activation,

152 f redox cycling or directly damaging DNA via depurination reactions.

153 based depurination assays, we show that the depurination side reaction is the limiting factor for th

154 The depurination signal was slightly stronger in the treatme

155 10-base RNA stem-loop with adenosine at the depurination site (2.2 microM).

156 9-yl)-1,4-dideoxy-1,4-imino-D-ribitol at the depurination site binds four times better (0.57 microM)

157 with 1,4-dideoxy-1,4-imino-D-ribitol at the depurination site binds with a K(d) of 1.3 microM and im

158 roxymethyl)-3-hydroxytetrahydrofuran] at the depurination site binds with a Kd of 3.2 microM and tigh

159 (N-Bn) transition state analogue at the RTA depurination site in a circular GAGA motif.

160 D-ribitol moiety, a 4-azasugar mimic, at the depurination site in the tetraloop of a 14mer oligonucle

161 Stem-loop RNA with phenyliminoribitol at the depurination site increases the affinity substantially (

162 oop RNA with p-nitrophenyl O-riboside at the depurination site is not a substrate, but binds tightly

163 xymethyl)pyrrolidine was incorporated at the depurination site of a 14-base RNA stem-loop, the Kd was

164 Introduction of a deoxyadenosine at the depurination site of short RNA oligonucleotides restores

165 poration of the C-riboside formycin A at the depurination site provides an increased pKa of the adeni

166 ficity studies, the 2'-hydroxyl group at the depurination site seems to be critical for recruitment a

167 with a deoxyguanosine on the 5'-side of the depurination site was also synthesized on the basis of s

168 Replacing the adenosine of the RTA depurination site with deoxyadenosine in a small RNA ste

169 e specificities of RTA for the two adenylate depurination sites in a RNA substrate with a GAGA tetral

170 duplexes, suggesting misrepair at A-specific depurination sites.

171 suffer from greater rates of acid-catalyzed depurination than dG and are sensitive to the acidic deb

172 cleoside is more resistant to acid-catalyzed depurination than previously described 8-bromo-2'-deoxya

173 adducts, not the abasic sites resulting from depurination, that are responsible for the stimulation o

174 Since Gs are especially prone to depurination through a spontaneous hydrolysis of the gly

175 er expulsion of F- ion (lethal event) or (b) depurination to form Ade and hexose-derived 6-carboxyl f

176 es (CEQs) modify DNA by redox cycling and/or depurination via a Michael addition.

177 Self-catalyzed depurination was contingent on the plasmid being superco

178 n internal thymidine standard not subject to depurination was monitored by reverse phase HPLC analysi

179 Ribosome depurination was reduced when RTA was expressed in the D

180 ct indicated that some of the adducts led to depurination with the release of the Gly136-Arg147 pepti