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1 tty acids, or 5-aminoimidazole-4-carboxamide ribonucleotide.
2 at is very frequently introduced into DNA, a ribonucleotide.
3 l beyond the typical dimension of the single ribonucleotide.
4 vage model for Top1-dependent mutagenesis at ribonucleotides.
5 ated by alkaline cleavage of DNA at embedded ribonucleotides.
6 rectly generated by Top1 at sites of genomic ribonucleotides.
7 including 3-phosphoglyceric acid (3PGA) and ribonucleotides.
8 s for the molecular recognition of adenosine ribonucleotides.
9 inB2 can incorporate at least 16 consecutive ribonucleotides.
10 e 3-OH nick terminus consists of two or more ribonucleotides.
11 of repair mechanisms to remove incorporated ribonucleotides.
12 archaeal RNaseH2 rapidly cleaves at embedded ribonucleotides (200-450 s(-1)), but exhibits an approxi
14 lymerases that discriminate strongly against ribonucleotides, a property that, in the case of DinB1,
15 hat the substitution of deoxynucleotide with ribonucleotide abolishes the need for WEE1 under replica
17 avage of the substrate strand at an internal ribonucleotide adenosine (rA) site, resulting in release
19 depletion or 5-aminoimidazole-4-carboxamide ribonucleotide (AICAR), leading to attenuated phosphoryl
22 recursor ZMP (5-aminoimidazole-4-carboxamide ribonucleotide, also known as AICAR) brings about any me
24 l-mediated elimination of H2O to deoxygenate ribonucleotides, an example of 'spin-centre shift', duri
25 g DNA synthesis, at the price of embedding a ribonucleotide and a pyrophosphate linkage in the repair
28 nocyte-derived macrophages, have argued that ribonucleotides and their analogs can, intriguingly, imp
29 the hypothesis that the mutant incorporates ribonucleotides and/or accumulates single-stranded DNA g
30 y of DNA polymerases to discriminate against ribonucleotides, and by the capacity of repair mechanism
31 ing and completing repair of misincorporated ribonucleotides, archaea such as Thermococcus rely only
37 dual incision/excision assays, we find that ribonucleotides are not efficiently targeted by the huma
38 ile of DnaE, we propose that misincorporated ribonucleotides are removed by NER followed by error-pro
44 the replicative polymerases that incorporate ribonucleotides at elevated frequencies, our ribonucleot
47 how that ZMP (5-aminoimidazole-4-carboxamide ribonucleotide) binds to and activates a conserved ribos
49 bstitution not only permits incorporation of ribonucleotides but also causes the enzyme to favor fait
50 emonstrated the synthesis of pyrimidine beta-ribonucleotides, but at the cost of ignoring ribose amin
51 ase that is naturally adept at incorporating ribonucleotides by virtue of a leucine in lieu of a cano
52 ex mispairs formed by an oxidized base and a ribonucleotide can compromise BER and RER in repeated se
53 In the absence of RNase H2, such embedded ribonucleotides can be used to track DNA polymerase acti
55 the LarB C terminus resembles aminoimidazole ribonucleotide carboxylase/mutase, LarC binds Ni and cou
58 spacer part bound Cascade and the resulting ribonucleotide complex containing a 41-nt-long crRNA spe
59 the 2'OH in RNA has a profound effect in the ribonucleotide conformational balance, adding an extra l
60 ine dimer formation was markedly enhanced in ribonucleotide-containing DNA, providing a mechanism for
62 e and initiate their removal by incising the ribonucleotide-containing strand of an RNA:DNA hybrid.
63 re of TDP2 bound to a substrate bearing a 5'-ribonucleotide defines a mechanism through which RNA can
64 equential Top1 cleavage as the mechanism for ribonucleotide-dependent deletions and provide new insig
66 Saccharomyces cerevisiae revealed widespread ribonucleotide distribution, with a strong preference fo
67 NRF1 alone by 5-aminoimidazone-4-carboxamide ribonucleotide does not rescue the phenotype, which, in
71 ch as in Aicardi-Goutieres patients, genomic ribonucleotides either persist or are processed by DNA t
77 als conservation of the overall mechanism of ribonucleotide excision repair across domains of life.
78 STINGand is associated with reduced cellular ribonucleotide excision repair activity and increasedDNA
79 ea perhaps suggests a more ancestral form of ribonucleotide excision repair compared with the eukaryo
81 ensis both in vitro and in vivo and a robust ribonucleotide excision repair pathway is critical to ke
83 Contrary to our expectation, impairment of ribonucleotide excision repair, as well as virtually all
86 ry activity for aminoimidazole-4-carboxamide ribonucleotide formyltransferase (AICARFT), an enzyme in
89 and 11 were potent inhibitors of glycinamide ribonucleotide formyltransferase in de novo purine biosy
92 insulin- and 5-aminoimidazole-4-carboxamide ribonucleotide formyltransferase/IMP cyclohydrolase-medi
93 MTX inhibits 5-aminoimidazole-4-carboxamide ribonucleotide formyltransferase/inosine monophosphate c
95 tical role in targeting the removal of these ribonucleotides from DNA, and defects in RNase H2 activi
96 H2) complex, known for its role in removing ribonucleotides from DNA-RNA duplexes, as suppressor mut
100 ls have hence developed mechanisms to remove ribonucleotides from the genome and restore its integrit
101 y our high-throughput annotation of modified ribonucleotides (HAMR) pipeline to identify and classify
103 ribonucleotides at elevated frequencies, our ribonucleotide identification method was adapted to map
107 rlying the link between defective removal of ribonucleotides in AGS and SLE, and these findings will
109 vidence for a functional role of misinserted ribonucleotides in DNA, leading to beneficial consequenc
114 d ribonucleotides, the high concentration of ribonucleotides in the nucleus and the imperfect accurac
116 also did not degrade 3PGA and accumulated no ribonucleotides, including ATP, during incubation for 8
117 mitochondria lack mechanisms for removal of ribonucleotides incorporated by the mtDNA polymerase.
118 a source of DSBs and genome instability when ribonucleotides incorporated by the replicative polymera
120 ntext of replication and reflect incision at ribonucleotides incorporated during leading-strand synth
121 al dNTPs and the amount of the corresponding ribonucleotides incorporated in mitochondrial DNA, while
123 ion, incorrect nucleotide incorporation, and ribonucleotide incorporation by exonuclease-deficient po
127 lay a major role in the cellular response to ribonucleotide incorporation in genomic DNA in human cel
129 ne and guanosine, and identified hotspots of ribonucleotide incorporation in nuclear and mitochondria
135 ould therefore investigate the changes, upon ribonucleotide incorporation, of the structural and conf
136 comes important to understand the effects of ribonucleotides incorporation, starting from their impac
137 e AMP mimetic 5-aminoimidazole-4-carboxamide ribonucleotide increases the inhibitory phosphorylation
138 significant amounts of 3PGA and accumulated ribonucleotides, indicative of RNA degradation, and thes
140 s in tandem repeats; in the specific case of ribonucleotide-initiated events, mutations reflect seque
145 rase beta (POL beta) capacity to incorporate ribonucleotides into trinucleotide repeated DNA sequence
147 hereas RnhA does not incise an embedded mono-ribonucleotide, it can efficiently cleave within tracts
148 nlike cytomegaloviruses, EEHV genomes encode ribonucleotide kinase B subunit (RRB), thymidine kinase
149 Non-enzymatic oligomerization of activated ribonucleotides leads to ribonucleic acids that contain
150 factor recruitment, ribosomal RNA synthesis, ribonucleotide levels, and affects ribosomal DNA stabili
151 urine nucleotides suggests that 8-oxo-purine ribonucleotides may have played a key role in primordial
152 ind that 5-FU and FUDR act through bacterial ribonucleotide metabolism to elicit their cytotoxic effe
154 Additionally, RNase H2 can remove single ribonucleotides misincorporated into DNA during replicat
155 tial role for genome stability as it removes ribonucleotides misincorporated into genomic DNA by repl
156 Viral genetic diversity is created by the ribonucleotide misincorporation frequency of the viral R
158 oth positive and negative effects of genomic ribonucleotide misincorporation in various organisms, ai
160 ase H2 the only enzyme able to remove single ribonucleotide-monophosphates (rNMPs) embedded in DNA.
161 discriminate against rNTPs and incorporated ribonucleotides must be removed by ribonucleotide excisi
162 unt separately for the pyrimidine and purine ribonucleotides; no divergent synthesis from common prec
163 orated dNs occurring at 1 per 10(3) to 10(5) ribonucleotide (nt) in mRNA, rRNAs and tRNA in human cel
164 o-oligomer DNA sequences containing 10 deoxy-ribonucleotides of thymine, adenine, cytosine, or guanin
165 ication, DNA polymerases tolerate patches of ribonucleotides on the parental strands to different ext
167 amage-stalled replication by inserting deoxy-ribonucleotides opposite DNA damage sites resulting in e
168 y incorporates deoxyribonucleotides, but not ribonucleotides, opposite an abasic site, with kinetic p
170 tyrosine linked to a single misincorporated ribonucleotide or to polyribonucleotides, which expands
171 rolyze RNA to release 2'-deoxyribonucleotide-ribonucleotide pairs (dNrN) that are then quantified by
172 mitochondrial DNA, while in nuclear DNA the ribonucleotide pattern was only altered in the absence o
173 DNA polymerases incorporate as many as 1,000 ribonucleotides per genome, RNaseH2 must be efficient at
175 for maintaining cellular guanine deoxy- and ribonucleotide pools needed for DNA and RNA synthesis.
176 l) formimino)-5-aminoimidazole-4-carboxamide-ribonucleotide (PRFAR) in the histidine biosynthesis pat
178 e incorporation of incorrect nucleotides and ribonucleotides primarily through reduced nucleotide bin
180 yl)formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (ProFAR) to N'-((5'-phosphoribulosyl) for
181 d retained self-immune complexes composed of ribonucleotide proteins, autoantibody, and complement.
183 homologous to the small subunit of class Ic ribonucleotide reductase (R2c) but has a completely diff
184 y of their respective rate-limiting enzymes, ribonucleotide reductase (RNR) and deoxycytidine kinase
186 ates accumulate during activation of class I ribonucleotide reductase (RNR) beta subunits, which self
193 t does not suppress their sensitivity to the ribonucleotide reductase (RNR) inhibitor hydroxyurea (HU
199 Many pathogenic organisms require class Ib ribonucleotide reductase (RNR) to catalyze the conversio
201 cifically incorporated into E. coli class Ia ribonucleotide reductase (RNR) using the recently evolve
202 ive copies of nrdB, encoding beta-subunit of ribonucleotide reductase (RNR), a critical enzyme involv
205 of dNTP biosynthesis in mammals, the enzyme ribonucleotide reductase (RNR), impacts cancer susceptib
210 ath pathways using the large subunit (R1) of ribonucleotide reductase (RR) to suppress apoptosis by b
211 l2 reduces intracellular dNTPs by inhibiting ribonucleotide reductase activity, thereby providing ins
212 ext two deal with specific cases, the enzyme ribonucleotide reductase and iron/manganese homeostasis
213 on of the gene encoding the small subunit of ribonucleotide reductase and of the K3L gene to allow ad
215 likely involves the allosteric regulation of ribonucleotide reductase and severe limitations of the d
216 and that negative feedback between dATP and ribonucleotide reductase ensures tight control of dNTP c
217 many DNA damage induced genes, including the ribonucleotide reductase genes, which regulate cellular
218 work by Wang et al. (2014), reveal that HSV ribonucleotide reductase has opposing activities in eith
220 idine-2-carboxaldehyde thiosemicarbazone), a ribonucleotide reductase inhibitor, has been extensively
224 ystem II, the phytochrome photoreceptor, and ribonucleotide reductase R2 illustrate the power and ver
226 ne non-redundant homologous genes, including ribonucleotide reductase small subunit (a gene conserved
229 nown mechanisms of upregulated expression of ribonucleotide reductase, 14-3-3sigma expression is dram
230 active site similar to that in hemerythrin, ribonucleotide reductase, and methane monooxygenase, all
231 . patens proliferating cell nuclear antigen, ribonucleotide reductase, and minichromosome maintenance
232 The rate-limiting enzyme of dNTP synthesis, ribonucleotide reductase, is inhibited by endogenous lev
233 S phase, and DNA polymerase-alpha, PCNA, and ribonucleotide reductase, which are essential for the in
234 rofolate reductase, thymidylate synthase and ribonucleotide reductase, while also spotlighting new en
246 A fascinating discovery in the chemistry of ribonucleotide reductases (RNRs) has been the identifica
249 s Ib (NrdEF) and anaerobic class III (NrdDG) ribonucleotide reductases (RNRs) that perform the essent
252 educing equivalents for cofactor assembly in ribonucleotide reductases and highlight issues associate
253 R2) subunit of the class 1a Escherichia coli ribonucleotide reductases by reaction with O2 followed b
254 and likely repair of the metallocofactor of ribonucleotide reductases in both bacteria and the buddi
256 lication and repair suggesting that impaired ribonucleotide removal contributes to AGS pathogenesis.
257 general DNA repair mechanisms contribute to ribonucleotide removal from DNA in human cells is not kn
258 Our analysis uncovers major differences in ribonucleotide repair between the two genomes and provid
261 logically relevant beta-anomer form of these ribonucleotides, revealing abiotic mechanisms by which n
262 es that remove both R-loops and incorporated ribonucleotides (rNs) from DNA, grow slowly, suggesting
263 ble to extend RNA primers in the presence of ribonucleotides (rNTPs), and that these reactions are an
264 dicates that miRNAs posess a highly selected ribonucleotide sequence structure, are part of an evolut
265 charomyces cerevisiae, we developed embedded ribonucleotide sequencing (emRiboSeq), which uses recomb
268 ng of eitherRNA:DNAhybrid or genome-embedded ribonucleotide substrates is thought to lead to activati
269 enzyme is responsible for reducing all four ribonucleotide substrates, with specificity regulated by
272 of solid tissues contains many more embedded ribonucleotides than that of cultured cells, consistent
274 o the similarity of deoxyribonucleotides and ribonucleotides, the high concentration of ribonucleotid
275 red cells, consistent with the high ratio of ribonucleotide to deoxynucleotide triphosphates in tissu
276 ution of DNA:RNA hybrids and misincorporated ribonucleotides to chromosome instability also was uncer
277 NRs) studied to date couple the reduction of ribonucleotides to deoxynucleotides with the oxidation o
279 tases (RNRs) are ancient enzymes that reduce ribonucleotides to deoxyribonucleotides and thus prime D
280 reductases (RNRs) catalyze the conversion of ribonucleotides to deoxyribonucleotides in all organisms
281 reductase (RNR) catalyzes the conversion of ribonucleotides to deoxyribonucleotides to provide the m
282 Ribonucleotide reductase (RNR) converts ribonucleotides to deoxyribonucleotides, a reaction that
283 reductases (RNRs) catalyze the conversion of ribonucleotides to deoxyribonucleotides, and represent t
286 e reductase (RNR) catalyzes the reduction of ribonucleotides to the corresponding deoxyribonucleotide
287 reductases (RNRs) catalyze the reduction of ribonucleotides to the corresponding deoxyribonucleotide
288 8) and ATIC (5-aminoimidazole-4-carboxamide ribonucleotide transformylase/inosine monophosphate cycl
289 le most DNA polymerases discriminate against ribonucleotide triphosphate (rNTP) incorporation very ef
290 nt form of DNA aberration, as high ratios of ribonucleotide triphosphate:deoxyribonucleotide triphosp
293 magnitude slower than those for amino-sugar ribonucleotides under the same conditions, and copying o
294 mitochondrial genomes incorporate and remove ribonucleotides, we challenged these processes by changi
296 ys preserves the capacity to remove a single ribonucleotide when paired to an oxidized base or to inc
297 Most, however, reflect enzyme incision at ribonucleotides, which are the most abundant noncanonica
298 molecules (hundreds of basepairs) containing ribonucleotides, which is based on a modified protocol f
299 life, depletion of prebiotically synthesised ribonucleotides would have driven the evolution of a bio
300 elevation of 5-aminoimidazole 4-carboxamide ribonucleotide (ZMP) and growth inhibition in NCI-H460 a
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