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   1                                              NS3 and NS5 are highly conserved among the four serotype
     2                                              NS3 features two conserved RecA-like domains (D1 and D2)
     3                                              NS3 has NS2B-dependent protease, RNA helicase, and 5'-RN
     4                                              NS3, encoded by Seg-10 of the BTV genome, fulfills key r
     5                                              NS3-dependent cleavage of the HCV polyprotein is require
     6 ing and duplex unwinding, we show that JFH-1 NS3 binds RNA much more rapidly than the previously stud
     7 ike NS3 variants from other genotypes, JFH-1 NS3 binds RNA with high affinity in a functionally activ
     8 e other superfamily 2 (SF2) helicases, JFH-1 NS3 does not require long 3' overhangs, and it unwinds d
     9 e 1b NS3, which has been well studied, JFH-1 NS3 is a superhelicase with strong RNA affinity and high
    10 is, we solved the crystal structure of JFH-1 NS3, revealing a novel conformation that contains an ope
  
    12 eveal that the genetic variability of Seg-10/NS3 differentially modulates BTV replication kinetics in
    13 ghlights that genetically distant BTV Seg-10/NS3 influence BTV biological properties in a host-specif
    14  this study, we revealed that various Seg-10/NS3 proteins alter BTV replication kinetics in mammals b
  
    16   Indeed, unlike the inefficient genotype 1b NS3, which has been well studied, JFH-1 NS3 is a superhe
    17 d potency of current inhibitors against GT-3 NS3/4A protease is elucidated with structure determinati
    18 residues within HCV nonstructural protein 3 (NS3) by analyzing diverse sequences of this protein usin
    19 phism, Q80K, in the nonstructural protein 3 (NS3) gene encoding the viral protease, which has been as
  
    21 protein followed by nonstructural protein 3 (NS3), NS2A, and NS5 were the most targeted proteins.    
  
  
    24 o recognize the HCV nonstructural protein 3 (NS3):1406-1415 epitope with high specificity when presen
  
  
  
    28 t that the novel vasopressin conjugate 99mTc(NS3)(CN-AVP(an)) is a desirable compound for imaging onc
  
  
  
  
  
    34 al chelator (the tris(2-mercaptoethyl)amine (NS3)) and the monodentate isocyanide ligand (CN-peptide)
    35 5A inhibitor, and paritaprevir (ABT-450), an NS3/4A protease inhibitor dosed with ritonavir (ombitasv
    36 lication complex inhibitor), asunaprevir (an NS3 protease inhibitor), and BMS-791325 (a non-nucleosid
    37 svir (an NS5A inhibitor) and grazoprevir (an NS3/4A protease inhibitor) are direct-acting antiviral a
    38 svir (an NS5A inhibitor) and grazoprevir (an NS3/4A protease inhibitor) are direct-acting antiviral a
    39 vir, an NS5A inhibitor, and paritaprevir, an NS3/4A protease inhibitor dosed with ritonavir, plus rib
    40  inhibitor), paritaprevir, and ritonavir (an NS3/4A protease inhibitor)-an interferon- and ribavirin-
    41 f 3 weeks of response-guided therapy with an NS3 protease inhibitor and dual NS5A inhibitor-NS5B nucl
    42 ase 3 clinical trials in combination with an NS3 protease inhibitor with ritonavir (r) (ABT-450/r) an
  
    44 cific order, with "early" sites (NS1/2-3 and NS3-4) being cleaved rapidly and three "late" sites (NS4
    45    We evaluated this model using BVDV E2 and NS3 proteins formulated in poly-(D, L-lactic-co-glycolic
  
    47 cant virus-neutralizing activity, and E2 and NS3 specific antibodies were observed in both Vaccine-NP
  
  
    50 hat when expressed individually, MNV NS3 and NS3 encoded by human Norwalk virus (NV) induced the form
  
    52 line hepatitis C virus (HCV) NS5A, NS5B, and NS3 resistance-associated substitutions (RASs) on respon
  
  
  
  
    57   The intrahepatic immunity of wild-type and NS3/4A-transgenic mice was determined by Western blot, E
  
  
  
    61 ds targeting the HCV non-structural antigens NS3, NS4, and NS5, were previously reported to induce ro
  
  
    64 l protein 5A [NS5A] inhibitor), asunaprevir (NS3 protease inhibitor), and beclabuvir (nonnucleoside N
    65 ication complex inhibitor) plus asunaprevir (NS3 protease inhibitor) in patients with genotype 1b inf
    66 ference was lost with replication-attenuated NS3-5B JFH1 RNAs, showing that cyclosporine sensitivity 
    67  for a serotype-specific interaction between NS3 and NS5 as well as specific interdomain interaction 
  
    69 gs, the kinetics of the interactions between NS3 protease inhibitors and enzyme from genotypes 1a, 1b
  
  
    72 ors (PIs) to the protease active site blocks NS3-dependent polyprotein processing but might impact ot
  
  
  
  
  
    78 omponents of the genome replication complex (NS3, double-stranded RNA, and cellular lipids, including
    79 n the third, D290N mutation in the conserved NS3 Walker B motif appeared >/=16 days post-transfection
    80 ENV4 NS5 MTase or POL domain or in the DENV2 NS3 helicase domain in the DENV2 chimera RNAs by repeate
    81 3 peptide spanning residues 566-585 disrupts NS3-NS5 interaction but not the null-peptide bearing the
  
    83 nally, the differential behavior of distinct NS3 helicase knockout mutations hints that certain confo
  
  
  
  
    88 the smA1' mutant virus that does not express NS3 and NS4 replicated in HAE-ALI as effectively as the 
  
  
    91 te that, in addition to being a cofactor for NS3 protease, flavivirus NS2B also functions in viral RN
  
    93 ds 51 to 95) alone of NS2B is sufficient for NS3 protease activity, whereas the role of transmembrane
  
  
    96 an 8-week regimen combined with grazoprevir (NS3/4A inhibitor; 100 mg once daily) and an NS5A inhibit
    97 y available sequences of the genotype 1a HCV NS3 protein, leading to a group of sites for which HCV a
    98 cacy and safety of grazoprevir (MK-5172; HCV NS3/4A protease inhibitor) and two doses of elbasvir (MK
  
   100 ve treatment duration of grazoprevir (an HCV NS3/4A protease inhibitor) combined with elbasvir (an HC
   101 drug regimen of grazoprevir (MK-5172; an HCV NS3/4A protease inhibitor; 100 mg/day) plus ruzasvir (MK
   102 pentane macrocyclic inhibitors guided by HCV NS3 protease assays, the cellular replicon system, struc
  
  
   105 simeprevir, a one-pill, once-daily, oral HCV NS3/4A protease inhibitor versus placebo, plus peginterf
   106 simeprevir, a one pill, once-daily, oral HCV NS3/4A protease inhibitor, plus peginterferon alfa 2a pl
  
   108 ed genotype 1a-derived HLA-A2-restricted HCV NS3-1073 or NS5-2594 epitope were generated from a genot
   109  COSMOS study that evaluated simeprevir (HCV NS3/4A protease inhibitor) + sofosbuvir (HCV nucleotide 
  
   111 ion and/or deep sequence analyses of the HCV NS3, NS5A, and NS5B genes were performed on blood sample
  
  
   114 ation with genetic vaccines encoding the HCV NS3-NS5b nonstructural proteins during DAA treatment res
  
   116 specific antibody and T-cell response to HCV NS3 in this viremia-resolved marmoset was boosted by rec
   117 features in the binding of danoprevir to HCV NS3 protease and proved invaluable to our iterative stru
  
   119 rrent clinical-stage hepatitis C virus (HCV) NS3 protease inhibitors, there is a need for new inhibit
  
  
   122 ocyclic inhibitor of hepatitis C virus (HCV) NS3/4A protease and was developed for treating chronic H
   123 an oral, once-daily, hepatitis C virus (HCV) NS3/4A protease inhibitor for the treatment of chronic H
   124  Telaprevir (TVR), a hepatitis C virus (HCV) NS3/4A protease inhibitor, has been approved to treat ge
  
   126 anner and increases our understanding of how NS3 proteins contribute to the outcome of BTV infection.
   127 n) showed that positions 56, 156, and 168 in NS3 were most impactful because they diminished protein-
   128 epatic Th1 cells and IFN-gamma(+) T cells in NS3/4A-transgenic mice decreased, whereas the amount of 
   129 sistent with the detection of R155K/D168A in NS3 from virologic failures treated with simeprevir but 
   130 tance-associated substitutions identified in NS3 from GT1a-infected patients who failed therapy with 
   131 ighly conserved phosphomimetic RxEP motif in NS3 was essential for the binding of 14-3-3varepsilon.  
  
  
  
  
  
   137 ts were constructed with coding sequences in NS3/4- and NS6/7-coding regions replaced with sequences 
  
   139 more, we identified 2 other substitutions in NS3 that may interact with Q80K and contribute to its st
  
   141 rect-acting antivirals against HCV including NS3/4A protease inhibitors (PIs) has greatly improved tr
   142 in mice expressing a functional or inhibited NS3/4A protease to analyze its effect on NS3/4A-mediated
   143 not responding to treatment intensification, NS3 resistance variants changed (D168Y to D168T; R155K t
  
  
   146 l protein (NS)5A inhibitor ledipasvir (LDV), NS3 protease inhibitor vedroprevir (VDV), non-nucleoside
   147  NS3(172-618) helicase and covalently linked NS3(172-618)-NS5(320-341) reveals a rigid and compact fo
  
  
   150 mly assigned to receive grazoprevir (100 mg, NS3/4A protease inhibitor) and elbasvir (50 mg, NS5A inh
   151 ngs: those requiring expression of a minimum NS3-5A and those requiring expression of a minimum NS3-5
   152 h K1240N inhibiting replication as a minimum NS3-5A polyprotein whereas V1665G and S1977P only impair
  
   154 -derived vesicular structures induced by MNV NS3 were highly motile and dynamic in nature, and their 
   155 in, an indicator of cholesterol content, MNV NS3 displayed a greater association with flotillin and s
   156 served that when expressed individually, MNV NS3 and NS3 encoded by human Norwalk virus (NV) induced 
   157 is study reveals that murine norovirus (MNV) NS3 is intimately associated with the viral replication 
   158 NAJC14's folding activity normally modulates NS3/4A/2K cleavage events to liberate appropriate levels
  
  
  
   162 al-time live-cell reporter, termed the NIrD (NS3-4A Inducible rtTA-mediated Dual-reporter) system, wh
  
  
  
  
   167 and the 3'-UTR and, similar to HCV, the NPHV NS3-4A protease can cleave mitochondrial antiviral-signa
   168 TCRs) recognizing the HCV nonstructural (NS) NS3 or NS5 viral peptide target were examined by mRNA tr
  
  
   171  found that the other NS proteins (NS1, NS2, NS3, and NS4) are not required for the expression of VP 
  
   173 udy identified three novel NS proteins, NS2, NS3, and NS4, and suggests an important function of the 
   174  direct-acting antiviral targeting DENV, NS2/NS3 protease is a promising target for inhibitor design.
   175 ized as an autoprotease that cleaves the NS2/NS3 junction, NS2, primarily via its N-terminal region, 
  
  
  
  
   180 h is demonstrated with the dengue virus NS2B-NS3 protease in complex with a high-affinity ligand cont
   181  virus (DENV) and West Nile Virus (WNV) NS2B-NS3 proteases are attractive targets for the development
  
  
   184  not NS5A(S25-K215), enabled the NS5BDelta21-NS3 helicase complex to be stably associated with the te
   185 ribution of MNV and NV NS3s were similar, NV NS3 displayed a higher level of colocalization with the 
   186 by HCV GT/subtype and presence or absence of NS3 Q80K polymorphism [GT1b, GT1a with Q80K, GT1a withou
   187 ecombinants allowed for direct comparison of NS3 protease and NS5A inhibitors against HCV strains of 
   188 I1373-1380 located in the helicase domain of NS3 in people who inject drugs (PWID) exposed predominan
  
   190 translated region, and tested the effects of NS3 protease and NS5A inhibitors on these recombinants. 
  
  
  
   194 ntains potent activity against a majority of NS3 resistance-associated amino acid substitutions, incl
   195 This work reveals that DNAJC14 modulation of NS3/4A site processing is an important mechanism to ensu
  
  
  
   199 dy reveals a previously unidentified role of NS3/4A in regulation of host BCR signaling during HCV in
   200  analysis revealed a pre-activation state of NS3 helicase in complex with GTPgammaS, in which the tri
   201 tructure deviates significantly from that of NS3 of other genera in the Flaviviridae family in D3, as
  
  
  
  
   206 ortance of this protein, mechanistic work on NS3 has been conducted almost exclusively on variants fr
  
   208 sbuvir and velpatasvir plus the pangenotypic NS3/4A protease inhibitor voxilaprevir (sofosbuvir-velpa
   209 mbitasvir (NS5A inhibitor) and paritaprevir (NS3/4A protease inhibitor; co-dosed with ritonavir) plus
  
  
  
  
  
   215 expression of the hepatitis C virus protease NS3/4A, which efficiently cleaves TRIF and IFN-beta prom
  
  
  
  
  
  
   222 ulture-adaptive mutations in H77S.2, Q1067R (NS3) had reverted to Q1067 and S2204I (NS5A) was replace
   223 w model where an LGP2-MDA5 oligomer shuttles NS3 to the mitochondria to block antiviral signaling.   
  
  
  
  
  
  
  
   231 T-PCR for the NS3:N570A mutant suggests that NS3-NS5 interaction plays an important role in the balan
  
  
  
   235 overexpressed wild-type DNAJC14 affected the NS3/4A and NS4A/2K cleavage sites, resulting in altered 
   236 t possessed subnanomolar potency against the NS3 protease in a subgenomic replicon-based cellular ass
  
   238   Of patients treated with LDV, SOF, and the NS3/4A protease inhibitor GS-9451 for 6 weeks, 76% (38 o
   239 vir, the NS5A inhibitor velpatasvir, and the NS3/4A protease inhibitor GS-9857 in patients with hepat
   240 vir, the NS5A inhibitor velpatasvir, and the NS3/4A protease inhibitor GS-9857 in these patients.    
   241  with the NS5A inhibitor velpatasvir and the NS3/4A protease inhibitor GS-9857, in patients with hepa
  
   243 erone function to modulate processing at the NS3/4A site as a mechanism ensuring virus replication.  
   244 e introduced amino acid substitutions at the NS3/4A site to alter the levels of the NS3 and NS4A prod
  
  
   247 d in a concentration-dependent manner by the NS3 protease inhibitors telaprevir, boceprevir, asunapre
   248  of which produced a clinical candidate: the NS3 protease inhibitor asunaprevir (64), marketed as Sun
  
   250 l remain unclear, including the role for the NS3 protein, one of seven nonstructural viral proteins, 
   251 nd RNA synthesis by real time RT-PCR for the NS3:N570A mutant suggests that NS3-NS5 interaction plays
  
   253 tis C virus (HCV) requires proteins from the NS3-NS5B polyprotein to create a replicase unit for repl
  
  
   256 the NS4B5A boundary (S1977P), another in the NS3 helicase (K1240N), and a third in NS4A (V1665G).    
   257 require mutations after viral passage in the NS3 protease or NS5A domain-I regions targeted by the dr
   258 equired for viral RNA replication lie in the NS3-5B region, while virion assembly requires expression
   259  with previously identified mutations in the NS3-helicase (F1464L), NS4A (A1672S), and NS5B (D2979G) 
   260 replication by a noncytotoxic mechanism, the NS3-specific TCR-redirected CTLs were polyfunctional and
   261 t the NS3/4A site to alter the levels of the NS3 and NS4A products and examined their effects on YFV 
  
  
   264 itical regulation of the conformation of the NS3-4A protease and the NS5B polymerase, membrane-bound 
  
   266 tripeptidic acylsulfonamide inhibitor of the NS3/4A enzyme is currently in phase III clinical trials 
  
   268 ety of treatment with the combination of the NS3/4A protease inhibitor glecaprevir and the NS5A inhib
   269 s approach, we showed that, depending on the NS3 considered, BTV replication kinetics varied in mamma
  
   271 therapy against hepatitis C virus target the NS3/4A protease, the NS5A protein, and the NS5B polymera
  
   273 mpetitive NS3-NS5 interaction ELISA that the NS3 peptide spanning residues 566-585 disrupts NS3-NS5 i
  
  
  
   277  response at 12 weeks (SVR12) rate using the NS3/4A protease inhibitor grazoprevir and the NS5A inhib
   278 nd regulatory approval to market it with the NS3/4A protease inhibitor asunaprevir for the treatment 
   279 ion systems colocalize, the results point to NS3-5A playing a role in facilitating the integration of
  
  
  
  
  
  
   286 type I interferon (IFN), inhibition of viral NS3/4A protease, or a combination of these mechanisms.  
   287 covery of a back-up to the hepatitis C virus NS3 protease inhibitor asunaprevir (2) is described.    
  
   289    We therefore set out to determine whether NS3 from the replicatively efficient genotype 2a strain 
   290     NS5A resistance variants persisted while NS3 resistance variants generally decayed, suggesting a 
   291 estored IFN induction after attenuation with NS3/4A protease, a process accompanied by preservation o
  
  
   294 chy of the DENV nonstructural proteins, with NS3, NS5, and NS1 being dominant in both donor cohorts. 
   295 avior--a characteristic probably shared with NS3 helicases from all Flaviviridae members--that could 
  
  
   298 NS4B protein), and the immunorecessive YTM9 (NS3 protein)-and used these TCRm mAbs to stain WNV-infec
  
  
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