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1 RNase H active antisense oligonucleotides (ASOs) or smal
2 RNase H can act in a polymerization-dependent or polymer
3 RNase H can carry out primary and secondary cleavages du
4 RNase H can even effectively replace oligo(dT)-based met
5 RNase H cleavage and U1 protection assays suggest that p
6 RNase H cleavage and zinc coordination by NC were requir
7 RNase H enzymes facilitate the organisms to survive in t
8 RNase H enzymes sense the presence of ribonucleotides in
9 RNase H reduction was compounded by intrinsic RNase H de
14 ur findings provide insights into how type 2 RNase H activity is directed during genome replication a
15 in the polymerase region of RT, and the 428, RNase H Primer Grip Adjacent, and 507 sites, located in
18 -6, and -7 for M-MuLV significantly affected RNase H cleavage efficiency, while positions -7 and -12
19 P resistance without significantly affecting RNase H activity, whereas mutation in p51 caused NVP res
23 ique clade of RecA-like ATPase domain and an RNase H-like nuclease domain tethered by a regulatory li
26 These results suggest that pUL15 uses an RNase H-like, metal ion-mediated catalysis mechanism for
29 n analysis of R-loops in vivo, we develop an RNase-H-based approach; this reveals predominant R-loop
31 ) possesses both DNA polymerase activity and RNase H activity that act in concert to convert single-s
32 ed the elevated strand transfer activity and RNase H activity, in addition to the loss of azidothymid
33 tations in the connection subdomain (CN) and RNase H domain of HIV-1 reverse transcriptase (RT) were
34 show that mixing the RT polymerase, CN, and RNase H domains from different subtypes can underestimat
35 e shown that mutations in the connection and RNase H domains of HIV-1 RT may also contribute to resis
37 we analyzed the polymerase, connection, and RNase H domains of RT in HIV-2 patients failing NRTI-con
39 eling studies based on both the HIV-1 IN and RNase H catalytic core domains provided new structural i
50 , thereby attaining what has eluded RNAi and RNase H experiments: elimination of MRP RNA in the major
52 report the synthesis, thermal stability, and RNase H substrate activity of 2'-deoxy-2',4'-difluoroara
53 e to the thumb and connection subdomains and RNase H domain of the p66 subunit as well as the thumb a
54 ported that the absence of Topoisomerase and RNase H activity in Escherichia coli or Saccharomyces ce
57 es, consistently inhibited HIV RT-associated RNase H and polymerase with IC50s in low to submicromola
58 ues consistently inhibited HIV RT-associated RNase H in the low micromolar range in the absence of si
59 man and HIV reverse transcriptase-associated RNase H-mediated cleavage of the complement RNA strand c
64 s RT pausing and RNA template degradation by RNase H activity of the RT, subsequently leading to stra
66 e nucleotide modifications than tolerated by RNase H or RISC-dependent ASOs, with the goal of improvi
67 isense oligonucleotides (ASOs) that catalyze RNase H-mediated degradation of huntingtin mRNA, we demo
69 ovirus and siphovirus orthologs and cellular RNase H, delineating a new evolutionary lineage among a
78 ect initial rates of the polymerase-directed RNase H activity but only polymerase-independent cleavag
81 d on these results, we propose that enhanced RNase H cleavage near the primer terminus plays a role i
82 s, a hydrolytic activity of the same enzyme (RNase H) is required to remove genomic RNA of the RNA/DN
84 s target all HIV enzymatic activities except RNase H, which has proven to be a very difficult target
85 pendent exonuclease III, lambda exonuclease, RNase H, RNase HII, AP endonuclease, duplex-specific nuc
92 raction with residues in the ribonuclease H (RNase H) active site and thumb subdomain of the p66 RT s
94 ed to allosterically inhibit ribonuclease H (RNase H) activity of human immunodeficiency virus type 1
95 rse transcriptase-associated ribonuclease H (RNase H) are both selective targets for HIV-1 chemothera
96 ng protein (MBP) and E. coli ribonuclease H (RNase H) as our model proteins, we monitored their unfol
99 s polymerization-independent ribonuclease H (RNase H) cleavages of the donor template necessary for s
100 he interface between the p66 ribonuclease H (RNase H) domain and p51 thumb of human immunodeficiency
101 or the Q509L mutation in the ribonuclease H (RNase H) domain of HIV-1 reverse transcriptase (RT), whi
102 of ancestral proteins of the ribonuclease H (RNase H) family using ancestral sequence reconstruction
103 ranscriptase (RT) associated ribonuclease H (RNase H) for human immunodeficiency virus (HIV) drug dis
104 e well-characterized protein ribonuclease H (RNase H) from Escherichia coli populates an on-pathway i
105 ch the reverse transcriptase ribonuclease H (RNase H) has created a nick or short gap in the donor te
107 ranscriptase (RT)-associated ribonuclease H (RNase H) remains the only virally encoded enzymatic func
108 ranscriptase (RT) associated ribonuclease H (RNase H) remains the only virally encoded enzymatic func
109 vectors of Escherichia coli ribonuclease H (RNase H) were determined by NMR spin relaxation and comp
113 evious studies of bacterial ribonucleases H (RNases H) from the thermophile Thermus thermophilus and
116 chemotypes have been reported to inhibit HIV RNase H biochemically, few show significant antiviral ac
118 en the case for allosteric inhibition of HIV RNase H activity, providing a platform for designing imp
120 favorable binding to the active site of HIV RNase H, providing a basis for the design of more potent
122 ajor challenge of specifically targeting HIV RNase H arises from the general lack of selectivity over
123 ossible challenges may be that targeting HIV RNase H is confronted with a steep substrate barrier.
124 simulations are reported for five homologous RNase H proteins of varying thermostabilities and enzyma
128 on in p51 caused NVP resistance and impaired RNase H, demonstrating that NVP resistance may occur ind
129 C5 position that led to drastically improved RNase H inhibition and significant antiviral activity.
130 ation of the inhibitor and HIV-1 RT improves RNase H active site inhibitors and may circumvent the ob
131 explaining why R-tracts do not accumulate in RNase H-deficient cells, while double-strand breaks do.
136 observed that the effect of the reduction in RNase H cleavage on NNRTI resistance is dependent upon t
138 nalysis shows that the catalytic residues in RNase H are preorganized on ps-ns time scales via a netw
139 ge assays, we show that degradation of RT in RNase H N-terminal mutants occurs in the absence of acti
140 is not required for the degradation of RT in RNase H N-terminal mutants, suggesting a role for a cell
141 e residues differs drastically from those in RNase H-like nucleases, suggesting a drifting of the act
142 the possibility of developing dual HIV-1 IN/RNase H inhibitors and obtaining new information for the
143 motherapy, and the identification of dual IN/RNase H inhibitors is an attractive strategy for new dru
146 ion-dependent and polymerization-independent RNase H were found to be important in creating efficient
148 ing modified nucleic acid residues to induce RNase H-mediated degradation of CUG-repeat transcripts.
149 ith an N-1 methyl group (9 and 10) inhibited RNase H in low micromolar range without significantly in
150 s the N-1 unsubstituted subtype 11 inhibited RNase H in submicromolar range and RT polymerase in low
154 ient reverse transcriptase, (ii) introducing RNase H to break up the DNA:RNA hybrid, and (iii) adding
155 8495 bound to the active site of an isolated RNase H domain of HIV-1 RT at a resolution limit of 1.71
157 tion and a crystal structure of the isolated RNase H domain reveals that this compound can also bind
158 s with the C-terminal domain of eRF1 via its RNase H domain to sterically occlude the binding of pept
161 wimpy testis (PIWI) domain, which folds like RNase H and is responsible for target RNA cleavage in RN
164 f protein folding and unfolding; both modern RNases H evolved to be more kinetically stable than thei
166 nary DRIPc-seq experiments identified mostly RNase H-resistant but exosome-sensitive RNAs that mapped
167 to the division of labor among mycobacterial RNases H by deleting the rnhA, rnhB, rnhC and rnhD genes
171 cular, we found that the first amino acid of RNase H never varied in over 1,850 isolates of HIV-1 tha
172 e motion is achieved through the addition of RNase H, which selectively hydrolyses the hybridized RNA
176 et out to trap the transient intermediate of RNase H at equilibrium by selectively destabilizing the
177 RP3-dependent responses, and introduction of RNase H, which degrades such hybrids, into infected cell
178 vels were altered by in vivo manipulation of RNase H levels did not form detectable R-loops, suggesti
179 scriptional efficiency, or overexpression of RNase H or C(1-3)A RNA can severely impair the type II t
181 ranscription is performed in the presence of RNase H, which specifically digests the RNA strands with
183 that dictate the potency and selectivity of RNase H inhibition as well as the observed antiviral act
187 ficant differences between the disruption of RNase Hs and Top1 in regards to the orientation-specific
196 rnhA mutant, which is incapable of producing RNase H and thus harbors increased levels of RNA:DNA hyb
197 e were interested in one particular protein, RNase H, that is cleaved from reverse transcriptase.
198 t formation of a complex with the prototypic RNase H inhibitor beta-thujaplicinol is slow, and, once
202 rted to enhance NRTI resistance, also reduce RNase H cleavage and enhance NNRTI resistance in the con
203 we hypothesized that these mutations reduce RNase H cleavage and provide more time for the NNRTI to
204 549N, Q475A, and Y501A mutants, which reduce RNase H cleavage, enhance resistance to nevirapine (NVP)
207 site influence the three types of retroviral RNase H activity: internal, DNA 3'-end-directed, and RNA
208 monstrate that all three modes of retroviral RNase H cleavage share sequence determinants that may be
212 s that efficiently inhibit the ribonuclease (RNase) H activity of the human immunodeficiency virus ty
215 substrate, the C-terminal helix E of the RT RNase H domain is dynamic, characterized by severe excha
217 tary elements that rely on the PPT sequence: RNase H sequence preference and incompatibility of the p
219 s indicates that, in contrast to active site RNase H inhibitors, these thienopyrimidinones destabiliz
221 the folding trajectories of the three-state RNase H and the two-state RNase H, proteins with the sam
222 of the three-state RNase H and the two-state RNase H, proteins with the same native-state topology bu
226 tructure in the unfolded state of C. tepidum RNase H is more restricted than that of T. thermophilus.
227 ilus RNase H, the folding core of C. tepidum RNase H plays an important role in the unfolded state of
229 esembling those of bacteriophage terminases, RNase H, integrases, DNA polymerases, and topoisomerases
230 MD calculations support the hypothesis that RNase H can accommodate three divalent metal ions in its
238 7u, and 8g were the most active against the RNase H activity of reverse-transcriptase, with IC50 val
243 reveals that this compound can also bind the RNase H site and retains the metal-dependent binding mod
245 e relative titer of the virus and caused the RNase H of RSV RT to lose the ability to cleave the PPT
256 mical correlates of fitness by measuring the RNase H and polymerization activities of recombinant mut
257 rs closely mimic natural substrates near the RNase H domain, while their binding within the polymeras
258 pounds inhibited the polymerase, but not the RNase H function of Moloney Murine Leukemia Virus (MoMLV
261 a previously uncharacterized version of the RNase H fold with multiple distinctive Zn-chelating moti
262 against IN and a moderate inhibition of the RNase H function of RT, confirming the possibility of de
264 results also indicate the importance of the RNase H N-terminal residue in the dimerization of RT sub
265 domain (amino acids 1-400, consisting of the RNase H, S1, 5'-sensor, and DNase I subdomains) of E. co
268 hese thermophilic proteins, we subjected the RNase H from Chlorobium tepidum to similar studies.
269 icinal chemistry data also revealed that the RNase H biochemical inhibition largely correlated the an
273 he bound nucleic acid prevents access to the RNase H active site, which represents a possible biochem
277 extra structural elements in addition to the RNase H-like fold core and variations in local architect
278 ce degradation of complementary RNAs via the RNase H pathway and much is understood about that proces
279 RNA/DNA and increased interactions with the RNase H domain, including the interaction of a 2'-OH wit
280 ribed as well as its binding mode within the RNase H catalytic site to rationalize its selectivity.
281 sons with similar studies on T. thermophilus RNase H, identify new residues involved in this residual
282 c proteins reveals that like T. thermophilus RNase H, the folding core of C. tepidum RNase H plays an
284 the polypurine tract (PPT), is resistant to RNase H-mediated hydrolysis and subsequently serves as a
287 of genuine R-loops that responded in vivo to RNase H levels and displayed classical features associat
290 AB mutant Escherichia coli, deficient in two RNase H enzymes that remove both R-loops and incorporate
291 the riboswitch regulatory mechanism, we used RNase H cleavage assays to probe the structure of nascen
292 ranscript is cleaved within the intron using RNase H, both the 5' and 3' cleavage fragments are detec
293 an inhibitor of human immunodeficiency virus RNase H, inhibited pUL89 endonuclease activity at low-mi
294 s (D67N, K70R, T215Y, and K219Q) on in vitro RNase H activity and AZT monophosphate (AZTMP) excision.
295 se stability, activity in vitro and in vivo, RNase H activation and cleavage patterns (both human and
297 ng treatment of the transcribed plasmid with RNase H, which removes mRNA hybridized with the template
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