ライフサイエンスコーパス: blunt end

1 ng restriction endonuclease that generates a blunt end.

2 unction with 25-bp arms, each of which had a blunt end.

3 ate, whereas the WRN exonuclease acts at the blunt end.

4 enzyme digestion and religate the resulting blunt ends.

5 d for efficient end joining, particularly of blunt ends.

6 e across the surface, they move toward their blunt ends.

7 dded dNTPs reduced all 3' or 5' overhangs to blunt ends.

8 enerate 3' overhangs and then processed into blunt ends.

9 ard arrowCTG sequences as indicated, leaving blunt ends.

10 that can allow for fill-in DNA synthesis, to blunt ends.

11 aks with single-base 3' overhangs as well as blunt ends.

12 aves RGCY sites between the G and C to leave blunt ends.

13 stest, followed by 3' overhangs, followed by blunt ends.

14 kes four-base WC duplexes having hydrophobic blunt ends.

15 staggered ends rather than generally assumed blunt ends.

16 AMPs), such as double-strandedness and dsRNA blunt ends.

17 teracts with the dsRNA backbone and not with blunt ends.

18 dian size of deletions when joining DNA with blunt ends.

19 slowly trims 3'-phosphoglycolate-terminated blunt ends.

20 in which each 'arm' of the 4-way junction is blunt-ended.

21 f of the chromosomes in flowering plants are blunt-ended.

22 echanical link (rupture force ~85 pN) across blunt-end 5'-phosphorylated DSBs and restores torsional

23 We show that RIG-I's selectivity for blunt-ended 5'-ppp dsRNAs is approximately 3000 times hi

24 were used to construct duplexes with either blunt ends, 5'-overhangs, 3'-overhangs, a flap or a fork

25 the structure of these complexes formed with blunt-ended, 5'-extended, and 3'-extended DNA.

26 In contrast, the enzyme strand-separated blunt-ended, 5'-tailed, and 3'-tailed duplex DNA equally

27 Surprisingly, poliota's ability to blunt-end a 1 bp recessed terminus is dependent upon the

28 The Klenow fragment promotes blunt end addition of dAMP; this reaction was much less

29 d over dNTPs as substrates for non-templated blunt-end addition, which typically entails the incorpor

30 crystallography to establish a mechanism for blunt-end additions catalyzed by Sulfolobus solfataricus

31 tacking pattern can be applied to subsequent blunt-end additions only if all incorporated dAMPs are e

32 Here we show that blunt-ended alpha-helical barrels, that is, preassembled

33 mpanied by a drastic loss of fidelity during blunt end and 5' overhang DSB repair.

34 Unwinding of the blunt end and 5'-overhang substrates appeared to initiat

35 exonuclease function is 2.5-7-fold higher on blunt end and 5'-recessed double-stranded DNA substrates

36 For substrates with a blunt end and a 3' overhanging end, Ku, XRCC4/Ligase IV,

37 ron pathways due to different affinities for blunt ends and backbone of the dsRNA.

38 cy, but addition of Ku suppresses joining of blunt ends and homologous ends with 3' overhangs.

39 We find that Mre11 preferentially binds blunt ends and is required to evict Ku from these DSB en

40 The DNA fragments were repaired to create blunt ends and ligated to a new BAC vector.

41 lecules with a variety of termini, including blunt ends and single-stranded overhangs.

42 se repairs sticky ends more efficiently than blunt ends and that the ligation efficiency is influence

43 labeled with (1) the TUNEL assay to identify blunt-ended and 3' protruding termini of breaks in doubl

44 hip-like, tapered tail tip, the male tail is blunt-ended and round.

45 required for RecBCD to initiate unwinding of blunt-ended and twin (dT)(6)-tailed DNA reflect processe

46 0-nucleotide 5'-overhang, a 50-bp dsDNA with blunt ends, and a Holliday junction with 25-bp arms, eac

47 are characterized by short microhomologies, blunt ends, and short insertions.

48 emplated nucleotides to primer-templates and blunt ends, and their preference for rNTPs versus dNTPs.

49 roviral DNA made by reverse transcription is blunt-ended, and the viral integrase protein must remove

50 Linear dsDNAs with recessed complementary or blunt ends are not utilized.

51 Thus, although single-base 3' overhangs and blunt ends are present in apoptotic nuclei, the specific

52 Extracts depleted of Ku and DNA-PKcs rejoin blunt ends, as well as homologous ends with 3' or 5' pro

53 ctly in the crystals, even though the DNA is blunt-ended at the active site.

54 Several DNA donors containing either normal blunt-ended att sites or different end mutations did not

55 phosphate (ppp) moiety in conjunction with a blunt-ended, base-paired region at the 5'-end (reviewed

56 Blunt-ended breaks bearing 5' phosphates were detected i

57 Recessing the DNA from a blunt end by even one nucleotide caused the RT to reorie

58 igation between injected molecules that have blunt ends can also occur within the germ line.

59 but, surprisingly, only when 5' overhangs or blunt ends can be generated.

60 , and the Ku-dependence of Artemis action at blunt ends can be reconciled with the other nucleolytic

61 Once the trocar is removed, the blunt-ended cannula can be advanced or can be subject to

62 hemical steps in Tn5 transposition result in blunt end cleavage of the transposon from the donor DNA.

63 Our in vivo blunt-end cloning method and destabilization-domain-fuse

64 Dynamic blunt end contacts promote error correction and network

65 leolytic" families branched out, separating "blunt end cutters" from "5' four-base overhand cutters."

66 Our kinetic studies indicated that the first blunt-end dATP incorporation was 80-fold more efficient

67 Although a blunt-ended derivative of the pre-miR-30 stem-loop remai

68 hes the fluorescence less efficiently than a blunt end dG-dC or dC-dG base pair.

69 Ends with 3' extensions or blunt ends did not show enhanced frequencies of errors,

70 In contrast, we show that blunt-ended dimers are able to form nanofibers with a un

71 foster fibrillogenesisthat is, as opposed to blunt-ended discrete speciesthe terminal quarters of the

72 gical change from unpeeling "ram's horns" to blunt-ended dissociation at the microtubule end.

73 binding modules are required for ligation of blunt ended DNA substrates.

74 functions in vivo and in vitro by incubating blunt-end DNA constructs having vertebrate telomeric end

75 hich vaccinia virus topoisomerase bound to a blunt-end DNA joins the covalently held strand to a 5' r

76 s to target Srs2, under optimized conditions blunt-end DNA substrates are also dissociated by this pr

77 A 2.05 A resolution structure of Dpo4*(blunt-end DNA)*ddATP revealed that the base and sugar of

78 ere found to bind to the surface-immobilized blunt-end DNA, and translocate along the DNA substrates

79 mplate-independent nucleotide additions onto blunt-end DNA.

80 es in mouse meiosis using a method that maps blunt-ended DNA after ssDNA digestion.

81 d to describe the ATP-dependent unwinding of blunt-ended DNA by RecBCD in vitro is a sequential n-ste

82 ggested that it might be a useful enzyme for blunt-ended DNA cloning.

83 roximately 6 bp upon binding to the end of a blunt-ended DNA duplex in a Mg(2+)-dependent but ATP-ind

84 ave found that the Tte-UvrD helicase unwinds blunt-ended DNA duplexes as well as substrates possessin

85 leaves that target at its center to generate blunt-ended DNA fragments.

86 nded DNA overhang but not of 5' overhangs or blunt-ended DNA fragments.

87 mia virus reverse transcriptase complexed to blunt-ended DNA in three distinct lattices.

88 In contrast, we find that blunt-ended DNA is a better substrate for the biological

89 Both cohesive- and blunt-ended DNA molecules were end-joined, although the

90 occurs via a two-step mechanism leading to a blunt-ended DNA product, followed by a classical 3'-proc

91 corporated approximately 20-25% of the input blunt-ended DNA substrate into the stabilized ISD comple

92 f-site integration products are reduced with blunt-ended DNA substrate that must first be processed b

93 ease activities, and unwinds and digests the blunt-ended DNA until a specific eight-nucleotide sequen

94 Interestingly, RecQ[Bs] unwinds blunt-ended DNA with structural features, including nick

95 s the exonuclease activity of Artemis toward blunt-ended DNA, and promotes slow and limited endonucle

96 It had little or no activity on blunt-ended DNA, DNA with a 3' protruding strand, or sin

97 With blunt-ended DNA, Ku protected against Exo1 in a manner t

98 As with blunt-ended DNA, RecBCD unwinding of DNA possessing 3'-(

99 n by increased ionic strength than repair of blunt-ended DNA.

100 on for bleomycin-induced DSBs as compared to blunt-ended DNA.

101 -stranded 3'-extension efficiently generates blunt-ended DNA.

102 tes unwinding much slower than RecBCD from a blunt-ended DNA.

103 eferentially cleaved 3'-overhangs and RNA in blunt-ended DNA/RNA duplexes.

104 have found that the helicase does not unwind blunt-ended DNAs or substrates with 3'-ss tails.

105 se activity results in increased fidelity of blunt-end double-strand break repair in vivo by virtue o

106 (ss-DNA), primer-template DNA (pt-DNA), and blunt-end double-stranded DNA (ds-DNA) show that the bin

107 addition to the well described Cas9-induced blunt-end double-stranded DNA breaks, we provide evidenc

108 cleaves at its restriction site, yielding a blunt-ended double strand, which is then digested by exo

109 k in the leading strand template generates a blunt-ended double-strand break (DSB).

110 e DNA modifications by generating RNA-guided blunt-ended double-strand breaks.

111 show that LGP2, like RIG-I, prefers binding blunt-ended double-stranded (ds) RNAs over internal dsRN

112 RIG-I is activated by blunt-ended double-stranded (ds)RNA with or without a 5'

113 ited state in the cytoplasm and activated by blunt-ended double-stranded (ds)RNAs carrying a 5' triph

114 ds weakly to single-stranded DNA (ssDNA) and blunt-ended double-stranded DNA (dsDNA) but strongly to

115 The identification of blunt-ended double-stranded DNA breaks at the embedded h

116 It does not bind to blunt-ended double-stranded DNA.

117 igate short, complementary overhangs but not blunt-ended double-stranded DNA.

118 Total RNA was extracted and converted to blunt-ended, double-stranded cDNA by oligo(dT)-mediated

119 However, if a blunt-ended ds oligonucleotide contained the 22-bp Rep b

120 vation, no helicase activity was detected on blunt-ended ds oligonucleotide substrates unless they al

121 NIHCOLE promoted the ligation efficiency of blunt-ended DSBs.

122 plexes with a 3'-overhang but is inactive on blunt-ended dsDNA and 5'-overhung duplexes.

123 ctures of RecBCD alone and in complex with a blunt-ended dsDNA show significant conformational hetero

124 PB unwinds dsDNA with 3' extensions, but not blunt-ended dsDNA, unless it contains a lesion, as shown

125 residues are involved in the recognition of blunt-ended dsRNA and 5' ppp dsRNA.

126 Here, we show that RIG-I CTD binds blunt-ended dsRNA in a different orientation compared to

127 acentrifugation demonstrated that LGP2 binds blunt-ended dsRNA of different lengths, forming complexe

128 y for 5' triphosphate (ppp) dsRNA as well as blunt-ended dsRNA.

129 is approximately 3000 times higher than non-blunt ended dsRNAs commonly found in cellular RNAs.

130 interface as a barrier to select against non-blunt ended dsRNAs.

131 stronger than the corresponding 36-mer with blunt ends due to slower dissociation.

132 Instead of forming a blunt end duplex with two a+.c mispairs and six Watson-C

133 mplate DNA but not to single-stranded DNA or blunt-end duplex DNA.

134 Instead of the expected blunt-end duplex with four consecutive G x U pairs, the

135 owever, NS3 was not able to rapidly unwind a blunt-end duplex.

136 e of nucleocapsid protein, and nature of the blunt-ended duplex (DNA/DNA versus RNA/DNA) had only lim

137 er, both enzymes efficiently unwind the same blunt-ended duplex containing a centrally located 12 nt

138 o-crystal structure of Taq polymerase with a blunt-ended duplex DNA bound to the polymerase active-si

139 t out approximately 5-6 bp upon binding to a blunt-ended duplex DNA in a Mg(2+)-dependent, but ATP-in

140 A blunt-ended duplex DNA primer was not utilized by telome

141 : (i) non-templated nucleotide addition to a blunt-ended duplex DNA primer; (ii) non-templated additi

142 s) catalyse the exonucleolytic hydrolysis of blunt-ended duplex DNA substrates and the endonucleolyti

143 winds a variety of DNA substrates, including blunt-ended duplex DNA.

144 y adenylated LigIII that positions a pair of blunt-ended duplex DNAs for efficient and specific inter

145 e ternary complexes were not observed with a blunt-ended duplex substrate.

146 dp1 has a preference for single-stranded and blunt-ended duplex substrates over nicked and tailed dup

147 for the incoming dNTP with an RT bound to a blunt-ended duplex was at least 1000-fold higher than wi

148 ot significantly digest single-stranded DNA, blunt-ended duplex, or a protruding strand of a partial

149 and five DNA substrates (long forked duplex, blunt-ended duplex, single-stranded DNA, 5'-overhang dup

150 ffected by the sequence at the 3' end of the blunt-ended duplex.

151 angs relative to the 3' overhangs but not to blunt-ended duplex.

152 of efficient addition of nucleotides to the blunt-ended duplex; this activity was also apparent in t

153 Binding of T5 exonuclease to either blunt-ended duplexes or single-stranded oligonucleotides

154 Interestingly, eIF4A is able to unwind blunt-ended duplexes.

155 nable to inhibit activation of RLRs by dsRNA blunt ends (end capping).

156 is similar to that observed for nontemplated blunt-end extension, suggesting that stacking interactio

157 regions or RNA overhangs and associates with blunt-ends faster than with overhangs.

158 pen-source bioinformatics pipeline, BLENDER (blunt end finder), then identifies off-target sequences

159 The final joining of these blunt ends followed the same kinetics as signal joint fo

160 en the fourth and fifth nucleotide to give a blunt-ended fragment.

161 as evaluated by detection of DNA damage with blunt end fragments, whereas apoptosis was assessed by t

162 nts containing 5' or 3' overhangs but not of blunt-ended fragments.

163 added to the 5' end of the primer to form a blunt-end hairpin when the primer is not incorporated in

164 ix peptides that form three target parallel, blunted-ended heterodimers in preference to any of the o

165 OH processing, and the DNA was predominantly blunt ended in the complex.

166 icted to leave short 3' overhangs as well as blunt ends in digestion of chromatin.

167 unwind substrates with 5' or 3' overhangs or blunt ends in vitro.

168 Moreover, joining of SmaI-generated blunt ends is generally imprecise in the yeast strain us

169 succeeded in separating this mechanism from blunt-end joining by the biochemical fractionation of ex

170 gation of a singly nicked DNA duplex but not blunt-end joining.

171 o IgG1 in vitro showed a significant loss of blunt end joins and an increase in insertions as compare

172 reference sequences and junction structure (blunt-ended junctions or junctions with insertions or mi

173 elomerase will extend the newly synthesized, blunt-ended leading strand.

174 interactions between short DNAs (sDNAs) with blunt ends, leading to the formation of 3D nematic (N) a

175 ng hydroxyl group to the 5' phosphate of the blunt end, leaving the other strand unjoined.

176 ase activity by X4-LIV and the efficiency of blunt-end ligation are determined by structural configur

177 d that the major mechanism of joining was by blunt-end ligation following removal or fill-in of the s

178 However, blunt-end ligation was markedly more efficient than both

179 DNA double-strand breaks (DSBs) and promotes blunt end-ligation by non-homologous end joining (NHEJ)

180 Modification of the blunt ends of the double-stranded stems was found to be

181 he junction compared with binding one of the blunt ends of the four-way junction to initiate unwindin

182 rhang substrates appeared to initiate at the blunt ends of these substrates.

183 icient exonuclease activity directed at both blunt ends of this substrate, whereas no activity is obs

184 d remains stacked and sandwiched between the blunt-ends of two adjacent Z-DNA duplexes, while the ove

185 nverted to a hairpin end on coding DNA and a blunt end on the neighboring recombination signal sequen

186 g-range ordering of DNA crossover tiles with blunt ends on lipid bilayers is investigated using atomi

187 DNase I footprinting of linear DNA with one blunt end, one primer-template junction, and binding sit

188 template/DNA primer duplexes having either a blunt end or a 3'-DNA overhang end.

189 DNAs, but exhibits no detectable activity on blunt end or single-stranded DNA.

190 Termini with 5' overhangs, blunt ends or 3' termini with non-telomeric sequences at

191 Bleomycin DSBs are composed of blunt ends or ends containing a single 5'-base overhang.

192 The enzyme generates blunt ends or ends with 1-base 5'-overhangs possessing 5

193 ATM is activated by DSBs with blunt ends or short single-stranded overhangs (SSOs).

194 ingle-stranded tail or a forked end, but not blunt-ended or 3'-tailed duplexes.

195 ding modes depending on whether the break is blunt-ended or has a short 5' or 3' overhang.

196 remains controversial whether Cas9 generates blunt-ended or staggered-ended breaks with overhangs in

197 RecJ cannot resect duplex DNA that is either blunt-ended or terminated with 3'-ssDNA; however, such D

198 helicase can initiate resection of DNA with blunt-ends or 3'-ssDNA overhangs by DNA unwinding.

199 models (DNA constructs containing a nick, a blunt end, or a 3' extension) was evaluated.

200 erences for phosphorylation of 5' overhangs, blunt ends, or recessed ends, none of them displays the

201 The ends of a dsDNA break can be blunt-ended, or they may possess either 5'- or 3'-single

202 and decelerate the aging process as well as blunt end organ damage from obesity.

203 ingle-stranded DNA, double-stranded DNA with blunt ends, partially double-stranded DNA containing for

204 al DSBs and reveal that Ku selectively binds blunt ends, potentially explaining why replication-depen

205 econdary structure within the extension or a blunt-ended pri-miRNA hairpin blocked Drosha cleavage.

206 ied Euplotes telomerase has no activity with blunt-ended primers.

207 hat there are multiple pathways that process blunt ends prior to end-joining.

208 Subsequent in situ ligation with blunt-ended probes revealed no 3' overhangs in necrotic

209 leases (EcoRV and HincII) that also generate blunt-ended products, and to a structurally distinct enz

210 and one using Pfu polymerase, which produces blunt-ended products.

211 d incorporation of the linearized, repaired, blunt-ended, rearranged genes into a suitable plasmid pe

212 within this gap are substrates for Alu I, a blunt end restriction enzyme.

213 base 3'-overhang with 3'-DNA residues on the blunt end result in a duplex form which directs dicing t

214 The preference of LGP2 for blunt-end RNA binding, its insensitivity to Cap0/Cap1 mo

215 structures of human pol beta complexed with blunt-ended segments of DNA show that, although the crys

216 cial case because the RNA-DNA hybrid forms a blunt end, shown previously to resist cleavage when test

217 and show that lymphocyte flow begins within blunt-ended sinuses.

218 l dysgenesis with an abrupt termination of a blunt-ending spinal cord.

219 rent principle: the geometric arrangement of blunt-end stacking interactions.

220 greatly facilitated the secondary cut on the blunt-ended substrate, suggesting that NC compensates fo

221 substrates for half-site reactions than are blunt-ended substrates, which require the removal of two

222 n translocation along DNA is able to protect blunt-ended telomeres but is deficient in DNA repair.

223 We have previously suggested that blunt-ended telomeres in Arabidopsis thaliana are protec

224 Plants possess unusual blunt-ended telomeres that are unable to form t-loops or

225 This suggests that Ku physically sequesters blunt-ended telomeres within its DNA binding channel, sh

226 Run-off transcripts on a blunt-ended template were initially extended by 2-11 nt

227 oss from abasic sites and as 3'-overhangs on blunt-ended templates.

228 efficiency recircularization of cohesive and blunt-end terminated linear plasmid DNAs following trans

229 of purines and the O2 of pyrimidines at the blunt-end terminus.

230 RN is capable of unwinding duplex DNA from a blunt-ended terminus or from an internal nick.

231 eptide and form canonical heterodimers with "blunt-ends" that could not associate longitudinally.

232 mpletes the assembly of short (0.45 microns) blunt-ended thick filaments.

233 hat generate a single-stranded 3' end from a blunt end, thus activating the end for telomerase extens

234 These results suggest that small blunt-ended tiles can be used as a platform to organize

235 "Blunt-ended" tiles do not have single-stranded complemen

236 IN juxtaposes two DNA blunt ends to form the synaptic complex, which is the in

237 n a model incorporating DNA end breathing of blunt ends to form transient single to double strand bou

238 iated with growth (sheetlike projections and blunt ends) to those associated with shortening (rams' h

239 g 3' terminus into an exonuclease III-active blunt end, triggering the digestion of the probe into mo

240 a downstream A-rich tract (ENE+A) to form a blunt-ended triple helix composed of nine U*A-U triples

241 3'-terminal A of the A-rich tract to form a blunt-ended triplex lacking unpaired nucleotides at the

242 DNA containing a 3' single-stranded end, or blunt end, unlike the Rep68 and Rep52 enzymes, which hav

243 electrophoresis, using recombinant IN with a blunt-ended viral DNA substrate, we identified the synap

244 unter with the triphosphorylated terminus of blunt-ended viral RNA duplexes, the receptor changes con

245 etween two ends with 3'-PSS, and between two blunt ends was most Ku dependent.

246 e detection of double-strand DNA breaks with blunt ends was performed by in situ ligation.

247 3'-phosphoglycolate-terminated overhangs and blunt ends were also processed by Artemis but much more

248 x fragments were converted to fragments with blunt ends, whereas protected fragments retained their c

249 n which leading-strand synthesis generates a blunt end while lagging-strand synthesis produces a long

250 osed conformations preferentially bind dsRNA blunt ends while open conformations prefer binding the b

251 However, NHEJ of blunt ends, while very inefficient, is not further reduc

252 For a blunt end with either a 3'-phosphoglycolate or 3'-hydrox

253 e that most of the broken DNA molecules have blunt ends with 3'-hydroxyl groups.

254 risingly, exo1Delta pol4Delta mutants repair blunt ends with a very low frequency of deletions.

255 zed by programming the stacking bonds (quasi-blunt-ends) within the junction to induce prescribed coa