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1 (imitating a product of spontaneous cytosine deamination).
2 in part on their frequency of formation and deamination.
3 transferases and spontaneous methyl-cytosine deamination.
4 A is, by contrast, highly proficient at C/mC deamination.
5 -stranded nucleic acids and is important for deamination.
6 tosine (m(3)C) as a pre-requisite for C-to-U deamination.
7 ther PPR protein is believed to catalyze the deamination.
8 -41, whose neural expression is dependent on deamination.
9 ation hotspots are largely determined by AID deamination.
10 curring somatic mutations caused by cytosine deamination.
11 from DNA, particularly those resulting from deamination.
12 off-target changes via sgRNA-independent DNA deamination.
13 he presence of A3A did not yield evidence of deamination.
14 mation (or sugar pucker) are compatible with deamination.
15 ' to 5' directional preference in processive deamination.
16 pair to remove uracils arising from cytosine deamination.
17 mice, but energy charge was preserved by AMP deamination.
18 ytidine is favored for substrate binding and deamination.
19 nonfunctional virus in addition to cytosine deamination.
20 te the role played by the C3 hydroxyl during deamination, 3-deutero-3-fluoro analogues of both substr
21 ptor 2C (5-HT2CR) by site-specific adenosine deamination (A-to-I pre-mRNA editing) substantially incr
23 artially purified NTD did not show intrinsic deamination activity and did not enhance the activity of
28 virus (HBV), we found that Hsp90 stimulates deamination activity of APOBEC-3G (A3G), A3B, and A3C du
29 tively regulates the potentially harmful DNA deamination activity of APOBEC3H while, at the same time
30 lobal metabolite analysis indicated that the deamination activity of GDH might regenerate 2-oxoglutar
32 in locus RNA substrates to stimulate AID DNA deamination activity on its in vivo substrate sequences
34 argets have adopted to escape the impacts of deamination activity, including changing the GC content
35 cular Hsp90, stimulate APOBEC-3-mediated DNA deamination activity, suggesting a potential physiologic
36 ntify mutations in Coq6 that abrogate the C4-deamination activity, whereas preserving the C5-hydroxyl
44 nfectivity factor Vif, through deoxycytidine deamination and a deamination-independent mechanism.
45 nd that xanthosine is derived from guanosine deamination and a second source, likely xanthosine monop
46 nce-intrinsic properties, which regulate AID deamination and affect the preferential access of downst
47 3A that are known to be required for its DNA deamination and anti-retrotransposition activities were
49 -effect relationships for APOBEC3A-catalyzed deamination and mutagenesis in driving multiple human ca
50 reactions including oxidative demethylation/deamination and myeloperoxidation, it is unclear whether
51 : T mispairs caused by 5-methylcytosine (mC) deamination and other lesions including uracil (U) and 5
52 mechanistic insights into APOBEC3A-mediated deamination and provide the structural basis for further
53 herichia coli and other bacteria, sequential deamination and reduction steps in riboflavin biosynthes
56 work, we examined the mechanism of cytosine deamination and the response of the uncatalyzed reaction
57 s of its C4-aminated substrate, allowing its deamination and ultimately its conversion into coenzyme
58 d cytidine deaminase (AID) mediates cytosine deamination and underlies two central processes in antib
59 identify CBEs with reduced Cas9-independent deamination and validate via whole-genome sequencing tha
60 gated their sensitivity toward oxidation and deamination and we studied the C-C bond cleaving reactiv
61 ucturally diverse enzymes which catalyze the deamination and/or isomerization of amino acids in natur
62 lying selection of cytosines by APOBEC3A for deamination, and demonstrate the utility of UPD-Seq.
63 ne dinucleotides are 'hotspots' for cytosine deamination, and others experience little or no editing
64 ute an essential time window for AID-induced deamination, and provide a novel DNA damage mechanism re
66 arguing against a 1,2-migration mechanism of deamination-and that homolysis of SAM concomitant with H
68 in multiply mutated clones, suggesting that deaminations are catalyzed processively within a stalled
70 sidues shared many attributes with bisulfite deamination artifacts and were observed at comparable le
72 ral infection and highlight APOBEC3-mediated deamination as a previously unidentified mechanism for a
73 iruses were susceptible to APOBEC3B-mediated deamination as evidenced by lower viral titres, lower in
74 s observation, the immunoglobulin (Igh) gene deamination as measured by uracil accumulation occurs pr
77 OBEC1-YTH expression in cells induces C-to-U deamination at sites adjacent to m(6)A residues, which a
78 lection of local dinucleotide substrates for deamination but is unlikely to be part of the higher lev
79 ymidine inhibited mycoplasma-associated dFdC deamination but were efficiently catabolized (removed) b
80 stematically evaluate genome-wide off-target deamination by ABEs using the EndoV-seq platform we deve
81 rstand the molecular basis for DNA adenosine deamination by adenine base editors (ABEs), we determine
84 In spite of this in vitro activity, cytidine deamination by virion-packaged APOBEC3 of MMTV early rev
86 tudy informs how methylation, oxidation, and deamination can interplay in the genome and suggests A3A
87 tor has faster local motions than GMP in the deamination complex but is more constrained than IMP in
89 and fibroblasts have an adenosine to inosine deamination defect caused by reduction of adenosine deam
94 es has the ability to restrict HIV-1 through deamination-dependent and deamination-independent mechan
96 kage into virions and restrict HIV-1 through deamination-dependent or deamination-independent inhibit
99 all ox-mCs by >3700-fold, arguing that ox-mC deamination does not contribute substantially to demethy
102 found in melanomas, suggesting that cytosine deamination encountered by the replicative polymerase ha
103 thway involving separate decarboxylation and deamination enzymatic steps from tyrosine to the key int
105 re, we observe a comparable frequency of AID deamination events between the c-myc intronic sequence a
106 hese mutations are a consequence of cytosine deamination events occurring on the non-target strand of
108 Importantly, we analyzed monoallelic AID deamination footprints on both DNA strands occurring wit
109 However, precise mechanisms regulating AID deamination frequency remain incompletely understood.
110 re W is A or T and R is A or G) and that the deamination frequency remains constant across the entire
111 .1 channels undergo a specific enzymatic RNA deamination, generating a channel with a single amino ac
115 de the first demonstration that A3G cytosine deamination hotspots are defined by both the sequence co
117 DNA synthesis, as well as excessive cytidine deamination (hypermutation) of the DNAs that are synthes
118 e transcriptase inhibition, and DNA cytidine deamination.IMPORTANCE APOBEC3 proteins are host factors
120 of different CBEs to induce Cas9-independent deamination in Escherichia coli and in human cells.
122 e RNA (sgRNA)-independent off-target adenine deamination in genomic DNA and very low levels of adenin
125 ision of thymine that is not generated by mC deamination, in A.T pairs and in polymerase-generated G.
134 n progress can be monitored by following the deamination-induced change in fluorescence of the (th)A-
136 find that whereas photoproduct formation and deamination is greatly inhibited for the CPDs closest to
142 ta background, indicating that Fcy1-mediated deamination is one cause of breakage and contractions in
144 ranscriptional RNA modification by adenosine deamination, known as A-to-I RNA editing, diversifies th
145 ream acceptor S-region targets AID-generated deamination lesions at, potentially, any of hundreds of
146 e deaminase (AID) initiates CSR by promoting deamination lesions within Smu and a downstream acceptor
147 filamentous ascomycetes, involving adenosine deamination mechanisms distinct from metazoan ADARs.
152 ults obtained are consistent with amino acid deamination occurring by a stepwise E1 cB elimination me
153 an IGHV3-23*01 target show strongly favored deaminations occurring in the antigen-binding complement
155 ss of genome editing tools based on directed deamination of 2-deoxyadenosines in DNA/RNA hybrids.
157 s the repair of G.T mismatches that arise by deamination of 5-methylcytosine (mC), and it excises 5-f
158 ine from mutagenic G.T mispairs arising from deamination of 5-methylcytosine (mC), and it processes o
159 ial step in the demethylation process can be deamination of 5-methylcytosine producing the TpG altera
163 on double-stranded RNA (ADARs) catalyze the deamination of adenosine (A) to produce inosine (I) in d
164 the identification of RNA modification by C6 deamination of adenosine (A) to produce inosine (I) in d
166 human tRNA ADAT2/3 enzyme and we confirm the deamination of adenosine to inosine and the formation of
167 ich catalyzes in double-stranded RNA the C-6 deamination of adenosine to produce inosine, which is re
168 emonstrate that MftD catalyzes the oxidative deamination of AHDP, forming an alpha-keto moiety on the
169 vulinic acid as nucleophile in the oxidative deamination of an N-acetylneuraminic acid thioglycoside
170 ation or decarboxylation-dependent oxidative deamination of aromatic l-amino acids to produce aromati
171 sp(3) carbon (2-methylaza-arenes) occurs via deamination of benzylamine followed by C-sp(3)-H bond ac
173 G cells, IFNgamma and TNF-alpha each induced deamination of cccDNA and interfered with its stability;
175 mily consists of seven enzymes that catalyze deamination of cytidine nucleotides to uridine nucleotid
176 enter (GC) B cells and are initiated through deamination of cytidine to uracil by activation-induced
182 Although the generation of mutations through deamination of cytosine to uracil in single-stranded HIV
189 ylase (PyNP) activity indirectly potentiated deamination of dFdC: the natural pyrimidine nucleosides
190 ely used cytosine base editors (CBEs) induce deamination of DNA cytosines using the rat APOBEC1 enzym
191 repeat instability: one mediated by cytosine deamination of DNA engaged in R-loops and the other by M
193 roposed to function in DNA demethylation via deamination of either 5-methylcytosine (mC) or TET-oxidi
197 thosine is exclusively generated through the deamination of guanosine by GSDA in A. thaliana, excludi
199 nylalanine quinone (TPQ) capable of inducing deamination of Lys e-amino groups and formation of the c
202 dehydrogenase (MADH) catalyzes the oxidative deamination of methylamine to formaldehyde and ammonia.
203 difference can be attributed to spontaneous deamination of methylated cytosine residues in the colon
206 itochondrial enzyme that catalyzes oxidative deamination of neurotransmitters and dietary amines.
207 is a membrane flavoenzyme that catalyzes the deamination of neutral and aromatic l-amino acids into a
208 use lethal hypermutation of retroviruses via deamination of newly reverse-transcribed viral DNA.
209 AL) isoforms that catalyze the non-oxidative deamination of Phe to trans-cinnamic acid, the committed
212 OBEC1 can cause extensive transcriptome-wide deamination of RNA cytosines in human cells, inducing te
213 hermotoga maritima was shown to catalyze the deamination of S-adenosylhomocysteine (SAH) to S-inosylh
218 These reactions occur via initial reductive deamination of sulfonamides to sulfinates via an NHC-cat
220 ethionine (SAM) enzyme that catalyzes the C4-deamination of TDP-4-amino-4,6-dideoxyglucose through a
222 encoded by exon 5 (E5) allows very efficient deamination of the AID target regions but greatly impact
223 A study of the mechanism of the oxidative deamination of the N-nitroso-N-acetyl sialyl glycosides
225 nding by APOBEC3H influences recognition and deamination of viral DNA and describe two possible route
226 restricts its viral targets through cytidine deamination of viral DNA during reverse transcription or
227 Inhibition of HIV replication occurs by both deamination of viral single-stranded DNA and a deaminati
228 to explain how T. brucei escapes 'wholesale deamination' of its genome while harbouring both enzymes
230 ng either decarboxylation or decarboxylation-deamination on various combinations of aromatic amino ac
232 eful nucleophiles employed in this oxidative deamination process to include phenols and thiophenols,
235 ytic cleft with consequent inhibition of the deamination process. In silico mutagenesis examinations
238 6-methyl-(d)AMP, followed by ADAL1-catalyzed deamination producing (d)IMP that can enter the nucleoti
239 addition of acetic acid, gives an oxidative deamination product, in which the AcN(NO)-C5 bond is rep
240 thymine and 5-hydroxymethyluracil (i.e., the deamination products of 5mC and 5hmC) when paired with a
242 ow determined the photoproduct formation and deamination rates for 10 consecutive T=(m)CG CPDs over a
244 ine the influence of nucleosome structure on deamination rates in vivo, we determined the deamination
245 deamination rates in vivo, we determined the deamination rates of CPDs at TCG sites in a stably posit
247 s to bind with greater affinity and enhances deamination rates, suggesting that RNA binding must be d
248 synthesis of coenzyme Q from pABA requires a deamination reaction at position C4 of the benzene ring
249 es, cytidines are converted to uridines by a deamination reaction in the process termed RNA editing.
250 nditions of high ammonia concentration, this deamination reaction is reversible and hence there is co
252 phenylalanine and l-tyrosine, conferring the deamination reaction through either the Friedel-Crafts o
255 ploiting differential kinetics of hydrolytic deamination reactions of cytosine and its naturally occu
257 to determine kinetic parameters of A3Gctd's deamination reactions within a 5'-CCC hot spot sequence.
258 um yields because the excited states undergo deamination reactions, and for all cresols the formation
259 c acid (TCA) cycle intermediate, through two deamination reactions, the first requiring glutaminase (
262 impact of known mutational mechanisms - CpG deamination, replication error by polymerase zeta, and p
265 he observed mutational pattern resembles the deamination signature of cytidine to uridine carried out
266 n to the C > U modifications due to cytosine deamination, so represents a time-dependent process of D
268 anesulfonate as nucleophile in the oxidative deamination step when the 5-O-triflyl KDN derivative is
269 from the positions of AID-mediated cytidine deamination, suggesting DNA end resection before strand
270 -tyrosine is a substrate for TATN-1-mediated deamination, suggesting that TATN-1 also metabolizes m-t
273 l A3 proteins, the precise details regarding deamination target selection are not fully understood.
276 d synergistically modulate CPD formation and deamination that contribute to C to T mutations associat
278 tic resolution by tandem hydrodefluorination/deamination, thus giving the corresponding amines with u
279 ltaneous enantioselective dehalogenation and deamination to form the corresponding acetophenone deriv
281 ons, both mA3 and hA3G preferentially induce deaminations toward the 5' end of minus-strand viral DNA
282 ctural data suggest that ABE8e catalyzes DNA deamination up to ~1100-fold faster than earlier ABEs be
284 in MLV particles does not induce detectable deaminations upon infection, its deaminase activity is e
285 comparative analysis of site selection of A3 deamination using six of the seven purified A3 member en
286 t a green and efficient method for oxidative deamination, using water as the oxidant, catalyzed by a
288 agreement with earlier reports, uncatalyzed deamination was found to proceed at very similar rates f
289 knockout mice to determine whether cytidine deamination was important for APOBEC3's anti-MMTV activi
290 methylated cytosine (mC) on DNA, and this mC deamination was proposed to be involved in the demethyla
291 Consistent with the in vitro observations, deamination was slower for one CPD located at an interme
292 of nucleosome structure on CPD formation and deamination, we have developed a circular permutation sy
293 e, all four haplotypes that were active in C deamination were also highly active on methylated C (mC)
296 osomes can modulate both their formation and deamination, which could contribute to the UV mutation h