ライフサイエンスコーパス: dAMP

1 dAMP and dGMP were found to be inserted opposite these O

2 dAMP is a weak competitive inhibitor with a Ki of approx

3 In the presence of Mg(2+), AMP, 2'-dAMP, and 3'-dAMP are incorporated into sym/sub by 3D(po

4 the current study, BPQ adducts of dGMP(3'), dAMP(3'), and dCMP(3') were prepared.

5 observed the exclusive formation of [32P]-3'-dAMP and no polymeric ADP-ribose molecules following che

6 the presence of Mg(2+), AMP, 2'-dAMP, and 3'-dAMP are incorporated into sym/sub by 3D(pol) at rates o

7 The position of the phosphate in 5'- and 3'-dAMP is observed to deactivate radical formation at the

8 Illumination of A(-H)* in dAdo, 3'-dAMP and 5'-dAMP in aqueous glasses at 143 K leads to 80

9 5'-dAMP > 5'dTMP >> 5'-dGMP and 3'-dGMP > 3'-dAMP approximately equal to 3'-dCMP approximately equal

10 e 3' and 5' heteroduplexes as judged by [32P]dAMP incorporation.

11 lumination of A(-H)* in dAdo, 3'-dAMP and 5'-dAMP in aqueous glasses at 143 K leads to 80-100% conver

12 of exchange following the trend 5'dCMP > 5'-dAMP > 5'dTMP >> 5'-dGMP and 3'-dGMP > 3'-dAMP approxima

13 Next, N(6)-dAMP is converted into the triphosphate form by first pr

14 yl)-2'-deoxyadenosine-5'-monophosphate (N(6)-dAMP).

15 o-furan-2-yloxymethyl]-phosphonic acid) is a dAMP (2'-deoxyadenosine monophosphate) analog that maint

16 t adenine-deoxyadenosine 5'-monophosphate (A-dAMP) mismatches.

17 ition showed a 10-fold preference for adding dAMP to the ends of DNA over that of the other three nuc

18 On templates containing dG-AF, dAMP, dTMP, and dCMP were incorporated opposite the lesi

19 Human N(6)-methyl-AMP/dAMP aminohydrolase has been shown to be involved in met

20 -dependent phosphorylation of AMP to ADP and dAMP to dADP, can also catalyze the conversion of nucleo

21 adenine and phosphorus than dideoxy-AMP and dAMP.

22 2-dG adducts pair preferentially to dCMP and dAMP during translesional synthesis in a process that is

23 567A mutant of RB69pol inserts both dCMP and dAMP opposite 8-oxoG rapidly and with equal efficiency.

24 ol alpha catalyzed incorporation of dCMP and dAMP opposite all four stereoisomers of dG-N2-tamoxifen,

25 both pol kappa and pol eta inserted dCMP and dAMP opposite the 4-OHEN-dC and extended past the lesion

26 g spectra; direct incorporations of dCMP and dAMP were observed, along with lesser amounts of dGMP an

27 Pol beta promoted incorporation of dCMP and dAMP, along with small amounts of one-base and two-base

28 while increasing the K(I)(slope) of dGMP and dAMP less than 2-fold.

29 deficient cells can be prevented by dGMP and dAMP supplementation, providing conclusive evidence that

30 leotide (dTMP) opposite the lesion, dGMP and dAMP were inserted with a comparable frequency.

31 incorporated incorrect nucleotides, dGMP and dAMP, opposite the lesion more preferentially than the c

32 und substantial misincorporation of dTMP and dAMP opposite 2-AP-6-SCH3 and 2-AP-6-SO3H, respectively.

33 ol alpha catalyzed incorporation of dTMP and dAMP opposite epsilon dC, accompanied by lesser amounts

34 he strand-specific incorporation of dTMP and dAMP.

35 sincorporation rates for dGMP.G, dTMP.G, and dAMP.G mispairs.

36 ts that were identified as dAMP-glycerol and dAMP-Tris.

37 AMP and two products that were identified as dAMP-glycerol and dAMP-Tris.

38 eoxyadenosine 5'-monophosphoryl group (2'-Az-dAMP) from the analogous 5'-triphosphate (2'-Az-dATP) on

39 ng were identified: 1 BPQ-dGMP adduct, 2 BPQ-dAMP adducts, and 3 BPQ-dCMP adducts.

40 The BPQ-dGMP, BPQ-dAMP, and BPQ-dCMP adduct standards were used in 32P pos

41 ctural identities of the novel BPQ-dGMP, BPQ-dAMP, and BPQ-dCMP adducts were confirmed by acid phosph

42 At equivalent concentrations, dAMP is less efficient than AMP as an allosteric activat

43 preferentially elongated primers containing dAMP opposite the model abasic template site.

44 ld increase in the apparent K(m) for correct dAMP incorporation.

45 accompanied by much smaller amounts of dCMP, dAMP, and dGMP and some one- and two-base deletions.

46 oted incorporation of small amounts of dCMP, dAMP, and dTMP opposite the lesion.

47 cleavage sites for the enzyme by deaminating dAMP and dCMP in DNA to dIMP and dUMP, respectively.

48 bility of bypass polymerases to insert dTMP, dAMP, or dGMP opposite 1,N(6)-gamma-HMHP-dA and detected

49 remely high fidelity, misincorporating dTMP, dAMP, and dGMP opposite a template G target with efficie

50 y small amounts of misincorporation of dTMP, dAMP and dGMP.

51 -DNA adduct, promoted small amounts of dTMP, dAMP, and dGMP misincorporation opposite the lesion (tot

52 g C to 2 x 10(-)(3) microM(-)(1) s(-)(1) for dAMP opposite templating C.

53 We have found that except for dAMP, the barriers are on the order of 6 kcal/mol, sugge

54 e to the deprotonated nucleotides except for dAMP.

55 h sequence contexts, whereas the Vmax/Km for dAMP incorporation increased 4.7-fold when the base pair

56 n across from AP sites and a lesser role for dAMP insertion.

57 nts of HeLa extract, CldAMP substitution for dAMP within the TATA box decreased in vitro pol II trans

58 ra-AMP-terminated DNA (Km = 7.1 pM) than for dAMP-terminated DNA of otherwise identical sequence (Km

59 fold greater efficiency compared to that for dAMP insertion.

60 P, and dTMP and the least negative value for dAMP.

61 ns opposite dG-AAF followed the order dCMP > dAMP > dGMP > dTMP; the frequency of dNTP insertion oppo

62 sions, frequently mispairs with the incoming dAMP during mammalian DNA replication.

63 both polymerases preferentially incorporate dAMP opposite the natural abasic site and tetrahydrofura

64 ey the A-rule and preferentially incorporate dAMP without instruction from the template.

65 blunt-end additions only if all incorporated dAMPs are extrahelical, leading to predominantly single

66 The polymerase incorporates dAMP across the lesion under crystallization conditions,

67 l kappa bypassed the lesion by incorporating dAMP and dCMP, respectively, opposite the lesion and ext

68 rone synthesis, preferentially incorporating dAMP and dGMP opposite gamma-OH-PdG.

69 ed the correct dTMP as well as the incorrect dAMP opposite the DE-dA adducts derived from both BaP an

70 gly, oxidation of 8-oxoG was found to induce dAMP and dGMP insertion opposite the lesion by Kf exo- w

71 ve site to direct insertion of the initiator dAMP during the initiation reaction.

72 the 5'-T of the dimer, whereas it can insert dAMP with efficiency comparable to that opposite the 3'-

73 encounter an AP site, they generally insert dAMP.

74 nly Y-family member to preferentially insert dAMP opposite 7,8-dihydro-8-oxo-2'-deoxyguanosine (8-oxo

75 Pol eta inserted dAMP opposite 4-OHEN-dC, accompanied by lesser amounts o

76 vicinity of the abasic lesion and inserting dAMP with a frequency of 67% opposite the abasic site.

77 se from bacteriophage RB69 (RB69pol) inserts dAMP and dGMP with low efficiency when situated opposite

78 adduct when C, A, or T was 5' to the lesion; dAMP and dTMP were misincorporated at a frequency of 2-4

79 d(Tp1meApT) and even 5'-phosphorylated 1-me-dAMP were relatively efficiently demethylated, and compe

80 Consequently, 1-me-dAMP(5') was identified as the minimal effective AlkB su

81 ytic subunit alone primarily misincorporated dAMP and dGMP opposite the BaP DE-dG adducts, and incorp

82 protonated forms of the four mononucleotides dAMP, dCMP, dGMP, and dTMP was studied experimentally by

83 entified 2'-deoxyadenosine-5'-monophosphate (dAMP) as a ligand.

84 y after incorporating the correct nucleotide dAMP opposite the 3'-thymine moiety of the lesion.

85 The incorporation of the correct nucleotide, dAMP, by hpol eta opposite cross-linked T was 3-5-fold m

86 enow fragment promotes blunt end addition of dAMP; this reaction was much less efficient than inserti

87 Synthesis starts with aminoethylation of dAMP and continues with rearrangement of N(1)-(2-aminoet

88 the lesion, accompanied by lesser amounts of dAMP and dGMP incorporation.

89 incorporation of dTMP and lesser amounts of dAMP and dGMP.

90 dG lesion, accompanied by a small amounts of dAMP and dTMP incorporation and one- and two-base deleti

91 tions catalyzed by pol eta, small amounts of dAMP misincorporation and one-base deletions were detect

92 the biphasic pre-steady-state time course of dAMP insertion opposite an abasic site which indicates t

93 has been tested in the dephosphorylation of dAMP, the hydrolysis of oligo(A)12, and the oligomerizat

94 mechanism of dimer bypass, the efficiency of dAMP and pyrene nucleotide insertion opposite the thymin

95 e found that the incorporation efficiency of dAMP opposite dT decreased 10(2)-10(3)-fold even when on

96 cus kodakaraensis catalyzed the formation of dAMP and two products that were identified as dAMP-glyce

97 Incorporation of dAMP (29%) and dCMP (53%) opposite the abasic lesion at

98 Pol eta promoted incorporation of dAMP and dCMP at the dA-N(6)-3MeE lesion, while with pol

99 uently observed, along with incorporation of dAMP and dCMP opposite the lesion.

100 deletions as well as direct incorporation of dAMP and dCMP.

101 E produced small amounts of incorporation of dAMP and deletions.

102 ted small amounts of direct incorporation of dAMP and deletions.

103 along with small amounts of incorporation of dAMP and dGMP, was detected.

104 adduct promote significant incorporation of dAMP and lesser amounts of dTMP opposite the lesion.

105 vitro predict preferential incorporation of dAMP at abasic sites in mammalian cells.

106 Pol alpha strongly favors incorporation of dAMP directly opposite the lesion.

107 ntributing to the selective incorporation of dAMP in full-length products was preferential extension

108 show that the preferential incorporation of dAMP is lost with the R283A mutant.

109 e-directed 8-oxo-dG lesion, incorporation of dAMP opposite 8-oxo-dG was slightly favored over dCMP de

110 ule" reflects the preferred incorporation of dAMP opposite abasic lesions in Escherichia coli in vivo

111 ni rather than preferential incorporation of dAMP opposite PdG.

112 ccount for the preferential incorporation of dAMP opposite the 3'-T of the photoproducts.

113 ceeds with the preferential incorporation of dAMP opposite the lesion and, depending on the sequence

114 e cross-links resulted from incorporation of dAMP opposite the template base, in agreement with the s

115 ength product resulted from incorporation of dAMP residues opposite PdG.

116 along with small amounts of incorporation of dAMP, dGMP, and dCMP opposite the lesion.

117 letions, accompanied by the incorporation of dAMP.

118 y encode almost exclusively the insertion of dAMP and dGMP (encoding G --> T and G --> C transversion

119 f nucleotide incorporation; the insertion of dAMP and dGMP was favored over that of the correct nucle

120 7A mutant that allows efficient insertion of dAMP opposite 8-oxoG.

121 on was much less efficient than insertion of dAMP opposite an abasic site.

122 o translocate the DNA following insertion of dAMP opposite an abasic site.

123 tate kinetic parameters for the insertion of dAMP opposite dT using primer/templates (P/T)-containing

124 We proposed that indiscriminate insertion of dAMP opposite the 3'-T of each photoproducts takes place

125 lts suggest that the error-free insertion of dAMP opposite the 3'-T of the cis-syn thymine dimer happ

126 utside the active site, whereas insertion of dAMP opposite the 5'-T takes place with the photoproduct

127 de by all three polymerases are insertion of dAMP opposite the AP site.

128 In contrast to the biphasic insertion of dAMP, pre-steady-state time courses for the insertion of

129 eotide but greatly inhibits the insertion of dAMP.

130 r rates involving stable misincorporation of dAMP and dGMP.

131 the site of the lesion; misincorporation of dAMP and dTMP also was observed.

132 substantial frequency of misincorporation of dAMP opposite N(6)-CMdA and, to a lesser extent, misinse

133 MdA and, to a lesser extent, misinsertion of dAMP and dTMP opposite N(4)-CMdC.

134 d by vinyl compounds reflect misinsertion of dAMP opposite this adduct.

135 This mode of dAMP binding is not compatible with the nucleotide being

136 complementary dNMP decreases in the order of dAMP > dGMP > dTMP > dCMP, from a high of 5.8 when dAMP

137 Furthermore, only dAMP was incorporated opposite template Ug and Tg and th

138 N2-TAM promoted small amounts of dTMP and/or dAMP incorporations and deletions.

139 n the newly incorporated nucleotide (dCMP or dAMP) and the templating 8-oxoG.

140 tide incorporation; the insertion of dGMP or dAMP was slightly favored over the insertion of the corr

141 hree types of abasic sites follows the order dAMP > dGMP > dCMP > dTMP.

142 nucleotide incorporation followed the order: dAMP > dGMP > dTMP > dCMP, which did not correlate with

143 Left unrepaired the syn-8-oxoG/dAMP base pair results in a G-C to T-A transversion.

144 meshift mutations within poly(dGMP) and poly(dAMP) runs.

145 the exo(-)Klenow fragment of DNA polymerase, dAMP (22%), TMP (16%), dGMP (5.3%) and dCMP (1.2%) were

146 extended primers incorporated predominantly dAMP opposite the template lesion.

147 lic attack at the beta-phosphorus to produce dAMP and inorganic pyrophosphate.

148 For protonated dAMP, on the other hand, the charge-carrying N3 group is

149 Consistent with previous reports, dAMP and dCMP are inserted selectively opposite 8-oxoG w

150 In accordance with the "A-rule," dAMP is preferentially incorporated opposite the lesion.

151 The crystal structure of the SAP-dAMP complex determined at 2.8 A resolution (R = 0.232,

152 The SAP-dAMP decamer is stabilized mainly by base-stacking of ad

153 the nontemplating nature of the abasic site, dAMP is often preferentially inserted opposite the lesio

154 critical for the stability of the correct T.dAMP base pair when the 5'-CTGG sequence is present in t

155 ax = 0.053 pmol/min/mg) than for 3'-terminal dAMP (Vmax = 1.96 pmol/min/mg).

156 However, 3'-terminal dAMP and subsequently other deoxynucleotides were readil

157 yme was no longer able to excise 3'-terminal dAMP from a freshly added normal 21-mer annealed to M13m

158 rene nucleotide with greater efficiency than dAMP opposite the 3'-T of an undimerized or dimerized T

159 , that is incorporated more efficiently than dAMP opposite abasic sites.

160 etic parameters of incorporation showed that dAMP was inserted opposite Ug more efficiently than oppo

161 imase-coupled pol alpha activity showed that dAMP was preferentially incorporated opposite the abasic

162 e two calcium ions of SAP are bridged by the dAMP phosphate group and five hydrogen bonds are formed

163 by electrostatic interactions involving the dAMP phosphate groups; decamerization buries 1000 A2 (2.

164 B69pol) prefers to insert dCMP as opposed to dAMP when situated opposite 8-oxoG by >2 orders of magni

165 echanism, dPMP was inserted in preference to dAMP opposite the 3'-T of all the photoproducts with the

166 D with about a 120:1 selectivity relative to dAMP.

167 dGMP > dTMP > dCMP, from a high of 5.8 when dAMP is to be inserted following a T to a low of 0.5 whe

168 requency of chain extension was highest when dAMP was positioned opposite a natural abasic site.

169 xception of the trans,syn-I product, whereas dAMP was inserted in preference to dPMP opposite the 5'-

170 ion of a series of complex products in which dAMP is incorporated opposite M(1)dG in the 3'-GXT-5' te

171 We recently proposed a mechanism for why dAMP is primarily inserted opposite both T's of photopro

172 As with dAMP, the DNA fails to translocate following insertion o