nirmatrelvir

尼马特雷韦
  • 文章类型: Journal Article
    PAXLOVID™(Nirmatrelvir与利托那韦的联合包装)已被批准用于治疗2019年冠状病毒病(COVID-19)。实验的目的是使用超高效液相色谱串联质谱(UPLC-MS/MS)创建一种准确,直接的分析方法,以同时定量大鼠血浆中的尼马特雷韦和利托那韦,并研究这些药物在大鼠体内的药代动力学特征。用乙腈沉淀蛋白质后,Nirmatrelvir,利托那韦,采用超高效液相色谱(UPLC)分离内标(IS)洛匹那韦。这种分离是通过由乙腈和0.1%甲酸水溶液组成的流动相实现的,使用具有二元梯度洗脱的反相柱。采用多反应监测(MRM)技术,在正电喷雾电离模式下检测分析物。在尼马特雷韦2.0-10000ng/mL和利托那韦1.0-5000ng/mL的校准范围内观察到良好的线性,分别,在血浆样本内。达到的定量下限(LLOQ)为尼马特雷韦2.0ng/mL和利托那韦1.0ng/mL,分别。两种药物的日间和日间精确度均低于15%,准确度从-7.6%到13.2%不等。分析物的提取回收率高于90.7%,没有明显的基质效应。同样,在不同条件下,稳定性均满足分析方法的要求。这种UPLC-MS/MS方法,其特征在于能够准确和精确地定量血浆中的尼马特雷韦和利托那韦,有效地用于大鼠体内药代动力学研究。
    PAXLOVID™ (Co-packaging of Nirmatrelvir with Ritonavir) has been approved for the treatment of Coronavirus Disease 2019 (COVID-19). The goal of the experiment was to create an accurate and straightforward analytical method using ultra performance liquid chromatography tandem mass spectrometry (UPLC-MS/MS) to simultaneously quantify nirmatrelvir and ritonavir in rat plasma, and to investigate the pharmacokinetic profiles of these drugs in rats. After protein precipitation using acetonitrile, nirmatrelvir, ritonavir, and the internal standard (IS) lopinavir were separated using ultra performance liquid chromatography (UPLC). This separation was achieved with a mobile phase composed of acetonitrile and an aqueous solution of 0.1% formic acid, using a reversed-phase column with a binary gradient elution. Using multiple reaction monitoring (MRM) technology, the analytes were detected in the positive electrospray ionization mode. Favorable linearity was observed in the calibration range of 2.0-10000 ng/mL for nirmatrelvir and 1.0-5000 ng/mL for ritonavir, respectively, within plasma samples. The lower limits of quantification (LLOQ) attained were 2.0 ng/mL for nirmatrelvir and 1.0 ng/mL for ritonavir, respectively. Both drugs demonstrated inter-day and intra-day precision below 15%, with accuracies ranging from -7.6% to 13.2%. Analytes were extracted with recoveries higher than 90.7% and without significant matrix effects. Likewise, the stability was found to meet the requirements of the analytical method under different conditions. This UPLC-MS/MS method, characterized by enabling accurate and precise quantification of nirmatrelvir and ritonavir in plasma, was effectively utilized for in vivo pharmacokinetic studies in rats.
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  • 文章类型: Journal Article
    目的:建立中国COVID-19患者尼马特雷韦的群体药动学(PopPK)模型,为完善SARS-CoV-2感染患者尼马特雷韦的给药策略提供参考。
    方法:从35例轻度中度COVID-19患者中采集80份血液样本,这些患者口服尼马特雷韦/利托那韦片。Nirmatrelvir的PopPK模型是使用非线性混合效应建模方法开发的。通过拟合优度和Bootstrap方法的组合评估最终模型的稳定性和预测。使用蒙特卡洛模拟模拟了各种临床情景中nirmatrelvir的暴露。
    结果:尼马特雷韦的药代动力学通过一级吸收的单室模型得到了很好的表征,以肌酐清除率(Ccr)为显著协变量。Ccr为95.5mL·min-1的患者的表观清除率和分布体积的典型人群参数估计分别为3.45L·h-1和48.71L,分别。引导和视觉预测检查程序证明了最终模型的令人满意的预测性能和鲁棒性。
    结论:最终模型能够提供不同尼马特雷韦给药方案的药物浓度范围的早期预测,并优化确诊SARS-CoV-2感染个体的尼马特雷韦剂量方案。
    OBJECTIVE: To establish a population pharmacokinetics (PopPK) model of nirmatrelvir in Chinese COVID-19 patients and provide reference for refining the dosing strategy of nirmatrelvir in patients confirmed to be infected with SARS-CoV-2.
    METHODS: A total of 80 blood samples were obtained from 35 mild to moderate COVID-19 patients who were orally administered nirmatrelvir/ritonavir tablets. The PopPK model of nirmatrelvir was developed using a nonlinear mixed effects modelling approach. The stability and prediction of the final model were assessed through a combination of goodness-of-fit and bootstrap method. The exposure of nirmatrelvir across various clinical scenarios was simulated using Monte Carlo simulations.
    RESULTS: The pharmacokinetics of nirmatrelvir was well characterised by a one-compartment model with first-order absorption, and with creatinine clearance (Ccr) as the significant covariate. Typical population parameter estimates of apparent clearance and distribution volume for a patient with a Ccr of 95.5 mL·min-1were 3.45 L·h-1 and 48.71 L, respectively. The bootstrap and visual predictive check procedures demonstrated satisfactory predictive performance and robustness of the final model.
    CONCLUSIONS: The final model was capable of offering an early prediction of drug concentration ranges for different nirmatrelvir dosing regimens and optimise the dose regimen of nirmatrelvir in individuals with confirmed SARS-CoV-2 infection.
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  • 文章类型: Journal Article
    目的:本研究旨在评估口服抗病毒药物和疫苗接种在预防全因死亡率和严重COVID-19进展中的因果效应,并将抗病毒药物和疫苗接种视为干预措施。
    方法:我们确定了住院的成年患者(即18岁或以上)在3月16日之间在香港确诊的SARS-CoV-2感染,2022年12月31日,2022年。使用具有时间依赖性预测因子的逆概率加权(IPW)Andersen-Gill模型来解决不朽的时间偏差,并为口服抗病毒药物和疫苗接种对严重COVID-19的保护作用提供因果估计。
    结果:在确诊感染后五天内开出处方,尼马特雷韦-利托那韦在预防全因死亡和发展为重症COVID-19方面比莫努比拉韦更有效。CoronaVac和Comirnaty在降低全因死亡率和进展为严重COVID-19的有效性方面没有显着差异。
    结论:对于住院的SARS-CoV-2患者,口服抗病毒药物和疫苗接种可降低全因死亡率和进展为严重COVID-19的风险。
    背景:健康与医学研究基金,香港。
    OBJECTIVE: This study aims to estimate the causal effects of oral antivirals and vaccinations in the prevention of all-cause mortality and progression to severe COVID-19 in an integrative setting with both antivirals and vaccinations considered as interventions.
    METHODS: We identified hospitalized adult patients (i.e. aged 18 or above) in Hong Kong with confirmed SARS-CoV-2 infection between March 16, 2022, and December 31, 2022. An inverse probability-weighted (IPW) Andersen-Gill model with time-dependent predictors was used to address immortal time bias and produce causal estimates for the protection effects of oral antivirals and vaccinations against severe COVID-19.
    RESULTS: Given prescription is made within 5 days of confirmed infection, nirmatrelvir-ritonavir is more effective in providing protection against all-cause mortality and development into severe COVID-19 than molnupiravir. There was no significant difference between CoronaVac and Comirnaty in the effectiveness of reducing all-cause mortality and progression to severe COVID-19.
    CONCLUSIONS: The use of oral antivirals and vaccinations causes lower risks of all-cause mortality and progression to severe COVID-19 for hospitalized SARS-CoV-2 patients.
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  • 文章类型: Journal Article
    背景:尼马特雷韦(NMV)在中国COVID-19患者中的药代动力学(PK)和药效学(PD)特征未知。
    目的:为了了解PK,以及NMV的PK-PD特征,以优化中国COVID-19患者的剂量。
    方法:我们招募了141名参与者,他们接受了NMV300mg/利托那韦(RTV)100mgb.i.d.持续5天。使用251个血液样品分析NMV浓度。使用非线性混合效应模型研究了这些COVID-19患者的NMVPK/PD。
    结果:患者的平均年龄为82岁(范围,34-97).该中国队列中NMV的吸收速率常数和表观清除率分别为0.253h-1和6.83L/h,分别,类似于高加索患者。没有协变量影响NMV清除率。在300mgNMV/100mgRTVb.i.d下的预测峰(Cmax)和谷浓度(Cmin)分别为4004和1498ng/mL,分别。尽管较高的AUC和Cmin与病毒基因的循环阈值(CT)数量略有增加弱相关,没有发现显著的相关性,表明药物暴露与疗效(CT)之间的关系较弱。
    结论:总而言之,我们的研究结果表明没有种族PK差异,药物暴露和疗效之间的微弱和临床上微不足道的关系,根据PK参数,适合中国患者(包括老年人)的剂量,以及由于个体间的差异,需要进一步的研究来确定高危患者的最佳治疗方案。
    BACKGROUND: The pharmacokinetic (PK) and pharmacodynamic (PD) characteristics of nirmatrelvir (NMV) are unknown in Chinese patients with COVID-19.
    OBJECTIVE: To understand the PK, as well as PK-PD characteristics of NMV for optimizing the dose in Chinese patients with COVID-19.
    METHODS: We enrolled 141 participants who received NMV 300 mg/ritonavir (RTV) 100 mg b.i.d. for 5 days. The NMV concentrations were analyzed using 251 blood samples. PK/PD of NMV was investigated in these COVID-19 patients using a nonlinear mixed-effects model.
    RESULTS: The patients had a mean age of 82 years (range, 34-97). The absorption rate constant and apparent clearance of NMV in this Chinese cohort were 0.253 h-1 and 6.83 L/h, respectively, similar to Caucasian patients. No covariates affected NMV clearance. Predicted peak (Cmax) and trough concentration (Cmin) under 300 mg NMV/100 mg RTV b.i.d. were 4004 and 1498 ng/mL, respectively. Although higher AUC and Cmin were weakly associated with a slight increase in the number of cycle threshold (CT) of viral genes, no significant correlation was found, indicating a weak relationship between drug exposure and efficacy (CT).
    CONCLUSIONS: In all, our findings suggest no ethnic PK differences, a weak and clinically insignificant relationship between drug exposure and efficacy, suitable dosage for Chinese patients (including the elderly) based on PK parameters, and the need for further studies to determine optimal regimens for high-risk patients due to inter-individual variability.
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  • 文章类型: Journal Article
    Paxlovid®,由含有两种活性成分的单独片剂组成的共同包装药物,奈马特雷韦(NRV)和利托那韦(RTV),对2019年冠状病毒病(COVID-19)表现出良好的疗效。然而,NRV/RTV片的大小使一些患者难以吞咽,尤其是老年人和吞咽困难的人。因此,需要能够克服该缺点并改善患者依从性的口服液体制剂。在这项研究中,我们开发了一种含有NRV和RTV的液体制剂,采用了使用助溶剂和表面活性剂来提高溶解度和抑制可能的重结晶的策略。体外释放结果表明,NRV和RTV可以在溶液中保持高浓度一定时间。大鼠体内研究显示NRV/RTV溶液的口服生物利用度显著增强。与Paxlovid®片剂相比,NRV和RTV的AUC(0-t)分别增加了6.1和3.8倍,分别,而两者的Cmax增加了5.5倍。此外,证实了RTV吸收对NRV生物利用度的促进作用。用比格犬进行的实验显示出类似的趋势。还在4°C下进行了稳定性研究,25°C,和40°C持续90天,这表明口服液体制剂是物理和化学稳定的。这项研究可以用作在临床环境中开发和应用口服液NRV/RTV制剂的宝贵资源。
    Paxlovid®, a co-packaged medication comprised of separate tablets containing two active ingredients, nirmatrelvir (NRV) and ritonavir (RTV), exhibits good effectiveness against coronavirus disease 2019 (COVID-19). However, the size of the NRV/RTV tablets makes them difficult for some patients to swallow, especially the elderly and those with dysphagia. Therefore, an oral liquid formulation that can overcome this shortcoming and improve patient compliance is required. In this study, we developed a liquid formulation containing NRV and RTV by adopting strategies that used co-solvents and surfactants to enhance the solubility and inhibit possible recrystallization. The in vitro release results showed that NRV and RTV could be maintained at high concentrations in solution for a certain period in the investigated media. In vivo studies in rats showed that the oral bioavailability of NRV/RTV solution was significantly enhanced. Compared to Paxlovid® tablets, the AUC(0-t) of NRV and RTV increased by 6.1 and 3.8 times, respectively, while the Cmax increased by 5.5 times for both. Furthermore, the promoting effect of the absorption of RTV on the bioavailability of NRV was confirmed. Experiments with a beagle showed a similar trend. Stability studies were also conducted at 4 °C, 25 °C, and 40 °C for 90 days, indicating that the oral liquid formulation was physically and chemically stable. This study can be used as a valuable resource for developing and applying oral liquid NRV/RTV formulations in a clinical context.
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  • 文章类型: Journal Article
    背景:已经开发并批准了几种治疗SARS-CoV-2的疗法;尼马特雷韦是其中之一。尼马特雷韦的药物靶标是Mpro,因此,有必要了解Mpro-nirmatrelvir复合物的结构和分子相互作用。
    方法:综合生物信息学,系统生物学,和统计模型用于分析大分子复合物。
    结果:使用两种大分子复合物,这项研究说明了相互作用的残基,H-bonds,和交互式界面。它通报了第一个和第二个复合物的六个和九个H键形成,分别。观察到的最大键长为3.33µ。第一个复合物的配体结合袋的表面积和体积分别为303.485和295.456和295.3,第二个复合物为308.397和304.865。通过分析复合物的NMA迁移率来评估结构蛋白质组动力学,特征值,可变形性,B因子。相反,我们建立了一个模型来评估尼马特雷韦的治疗状态.
    结论:我们的研究揭示了Mpro-nirmatrelvir复合物的结构和分子相互作用景观。这项研究将指导研究人员设计更多的广谱抗病毒分子模拟尼马特雷韦,这有助于对抗SARS-CoV-2和其他传染性病毒。它还将有助于为未来的流行病或流行病做好准备。
    BACKGROUND: Several therapeutics have been developed and approved against SARS-CoV-2 occasionally; nirmatrelvir is one of them. The drug target of nirmatrelvir is Mpro, and therefore, it is necessary to comprehend the structural and molecular interaction of the Mpro-nirmatrelvir complex.
    METHODS: Integrative bioinformatics, system biology, and statistical models were used to analyze the macromolecular complex.
    RESULTS: Using two macromolecular complexes, the study illustrated the interactive residues, H-bonds, and interactive interfaces. It informed of six and nine H-bond formations for the first and second complex, respectively. The maximum bond length was observed as 3.33 Å. The ligand binding pocket\'s surface area and volume were noted as 303.485 Å2 and 295.456 Å3 for the first complex and 308.397 Å2 and 304.865 Å3 for the second complex. The structural proteome dynamics were evaluated by analyzing the complex\'s NMA mobility, eigenvalues, deformability, and B-factor. Conversely, a model was created to assess the therapeutic status of nirmatrelvir.
    CONCLUSIONS: Our study reveals the structural and molecular interaction landscape of Mpro-nirmatrelvir complex. The study will guide researchers in designing more broad-spectrum antiviral molecules mimicking nirmatrelvir, which assist in fighting against SARS-CoV-2 and other infectious viruses. It will also help to prepare for future epidemics or pandemics.
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  • 文章类型: Journal Article
    2021年12月,美国食品和药物管理局(FDA)批准了Paxlovid®作为COVID-19的抗病毒治疗的紧急授权。Paxlovid®由两片组成,尼玛特雷韦和利托那韦.在肾功能不全的情况下,剂量调整是必要的。本研究的目的是建立同时测定人血清中尼马特雷韦/利托那韦的LC-HRMS方法,用于治疗药物的监测。在25μL人血清样品中加入内标沙奎那韦,然后用甲醇沉淀样品。分析物在C18柱上通过梯度洗脱分离,使用0.1%甲酸-水和甲醇的流动相,在0.4毫升/分钟的流速。注射体积为2μL,分析时间为5min。分析物的测定通过电喷雾电离以正模式通过全质量监测进行。检测到的尼马特雷韦离子,利托那韦和沙喹那韦分别为m/z500.24792、721.32004和671.39155。尼马特雷韦的线性浓度范围为78.13-20000ngmL-1,利托那韦的线性浓度范围为15.63-4000ngmL-1(r2>0.9900)。准确度范围为87.45%~104.63%,日内和日间精度RSD<15%。尼马特雷韦的回收率为98.72%~109.83%,利托那韦的比例为95.41~112.36%。尼马特雷韦的基质效应为88.31~97.73%,利托那韦的比例为85.17~103.05%。该方法用于测量17例患者的尼马特雷韦/利托那韦的谷浓度。nirmatrelvir的谷浓度为1331.7-8352.5ng/mL,利托那韦的浓度为53.4-1325.5ngmL-1,个体差异较大。方法简单,敏感,具体,和可重复的,可用于监测尼马特雷韦/利托那韦在COVID-19患者中的血药浓度和药代动力学研究。
    In December 2021, the U.S. Food and Drug Administration (FDA) granted emergency authorization for Paxlovid® as an antiviral treatment for COVID-19. Paxlovid® is composed of two tablets, nirmatrelvir and ritonavir. Dose adjustment is necessary in cases of renal insufficiency. The aim of present study is to establish a LC-HRMS method for simultaneous determination of nirmatrelvir/ritonavir in human serum for therapeutic drug monitoring. Internal standard saquinavir was added in 25 μL human serum samples, and then the samples were precipitated with methanol. The analytes were separated by gradient elution on a C18 column, using a mobile phase of 0.1 % formic acid-water and methanol, at a flow rate of 0.4 mL/min. The injection volume was 2 μL, and the analysis time was 5 min. The determination of the analytes was performed by electrospray ionization in positive mode by full mass monitoring. The detected ions of nirmatrelvir, ritonavir and saquinavir were m/z 500.24792, 721.32004 and 671.39155, respectively. The linear concentration range for nirmatrelvir was 78.13-20000 ng mL-1, for ritonavir was 15.63-4000 ng mL-1 (r2>0.9900). The accuracy ranged from 87.45 %∼104.63 %, and the intra-day and inter-day precision RSD was <15 %. The recovery of nirmatrelvir ranged from 98.72 %∼109.83 %, and that of ritonavir was 95.41∼112.36 %. The matrix effect of nirmatrelvir was 88.31∼97.73 %, and that of ritonavir was 85.17∼103.05 %. This method was used to measure the trough concentrations of nirmatrelvir/ritonavir in 17 patients. The trough concentration of nirmatrelvir was 1331.7-8352.5 ng/mL, and that of ritonavir was 53.4-1325.5 ng mL-1, with large individual differences. The method is simple, sensitive, specific, and reproducible, and can be used for monitoring the blood concentration and pharmacokinetic study of nirmatrelvir/ritonavir in COVID-19 patients.
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  • 文章类型: Journal Article
    Nirmatrelvir是Paxlovid的有效成分,第一个口服抗病毒药物获得FDA紧急使用授权。Nirmatrelvir在老年患者中广泛使用,以治疗2019年冠状病毒病(COVID-19)感染。在这项研究中,利用临床研究数据进行群体药代动力学建模,以探索尼马特雷韦在中国老年COVID-19感染患者中的药代动力学特征.结果表明,nirmatrelvir的药代动力学特征可以通过该研究人群中具有一阶吸收和消除的一室模型来描述。计算的表观间隙(CL/F),表观分布体积(V/F),典型患者的吸收率常数(ka)为4.16L/h,39.1L,和0.776。典型的中国老年人的nirmatrelvir曲线下面积(AUC)比中国和西方年轻成年志愿者的AUC高约三倍。在相同的剂量下,模拟AUC增加了26%,43%,72%,在肌酐清除率为60、45、30和15mL/min的虚拟人群中,为135%,分别。我们的研究为中国老年人尼马特雷韦剂量选择提供了指导性参考。
    Nirmatrelvir is an effective component of Paxlovid, the first oral antiviral drug granted emergency use authorization by the FDA. Nirmatrelvir is prescribed extensively in older adult patients to treat the coronavirus disease 2019 (COVID-19) infection. In this study, population pharmacokinetic modeling with clinical study data was employed to explore the pharmacokinetic profile of nirmatrelvir in older adult Chinese patients with COVID-19 infection. The result suggests that the pharmacokinetic profile of nirmatrelvir can be described by a one-compartment model with first-order absorption and elimination in this study population. The calculated apparent clearance (CL/F), apparent volumes of distribution (V/F), and absorption rate constant (ka) for the typical patient were 4.16 L/h, 39.1 L, and 0.776, respectively. The area under the curve (AUC) of nirmatrelvir in the typical Chinese older adult was approximately three-fold higher than the AUCs in Chinese and Western young adult volunteers. At the same doses, the simulated AUCs were increased by 26%, 43%, 72%, and 135% in virtual populations with creatinine clearances of 60, 45, 30, and 15 mL/min, respectively. Our research provides an instructive reference for nirmatrelvir dose selection in older Chinese adults.
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  • 文章类型: Meta-Analysis
    我们的研究旨在获得Paxlovid治疗的2019年冠状病毒病(COVID-19)患者的疗效和安全性结果。根据纳入和排除标准,数据库用于检索2020年1月1日至2023年1月1日的文章.文章筛选,完成质量评价和数据提取并进行交叉核对。使用RevMan进行荟萃分析和试验序贯分析(TSA),StataMP,和TSA软件。共收录42篇原创文章。总体荟萃分析结果显示,对于死亡,住院治疗,死亡或住院,急诊科(ED)访问,重症监护病房(ICU)入院,和额外的氧气需求结果,各比值比(OR)<1,p<0.05.对于反弹结果,OR>1,p>0.05。对于不良事件(AE)结果,OR>1,p<0.05。总之,Paxlovid有效降低了死亡风险,住院治疗,死亡或住院,ED访问,入住ICU,和额外的氧气需求。考虑反弹,没有显著的统计学差异。但是人们应该注意可能的不良事件。然而,对于反弹和AE结果,在某些亚组中的观察得出的结论与总体荟萃分析相反.试验序贯分析表明,这两种结果存在假阴性或假阳性结论的风险,因此需要更多的原始研究进行进一步验证.
    Our study is aimed to access the efficacy and safety outcomes for coronavirus disease 2019 (COVID-19) patients treated with Paxlovid. According to inclusion and exclusion criteria, databases were used to retrieve articles from 1 January 2020 to 1 January 2023. Article screening, quality evaluation and data extraction were completed and cross-checked. The meta-analysis and trial sequential analysis (TSA) were conducted using RevMan, StataMP, and TSA software. A total of 42 original articles were included. Overall meta-analysis results showed that for death, hospitalisation, death or hospitalisation, emergency department (ED) visit, intensive care unit (ICU) admission, and extra oxygen requirement outcomes, every odds ratio (OR) was <1 and p < 0.05. For rebound outcome, the OR was >1 and p > 0.05. For adverse events (AEs) outcome, the OR was >1 and p < 0.05. In conclusion, Paxlovid effectively reduced the risks of death, hospitalisation, death or hospitalisation, ED visit, ICU admission, and extra oxygen requirement. There was no significant statistical difference considering rebound, but people should pay attention to possible AEs. However, for rebound and AEs outcomes, observations in certain subgroups suggested conclusions contrary to the overall meta-analysis. Trial sequential analysis indicated these two outcomes have a risk of false negative or false positive conclusions, so additional original studies are needed for further validation.
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  • 文章类型: Journal Article
    量子力学二阶Møller-Plesset(MP2)微扰理论和密度泛函理论(DFT)Becke,3参数,进行了Lee-Yang-Parr(B3LYP)和明尼苏达州2006年局部功能(M06L)计算,以优化nirmatrelvir的结构并计算Merz-Kollman静电势(MKESP),自然人口分析(NPA),Hirshfeld,电荷模型5(CM5),和Mulliken的部分指控.nirmatrelvir的mulliken部分电荷分布与MP2,B3LYP中的MKESP电荷的相关性较差,和M06L分别计算。NPA,Hirshfeld,Nirmatrelvir的CM5部分电荷方案表明在B3LYP和M06L计算中与MKESP电荷分配具有合理的相关性。包含隐式溶剂化模型并没有改善上述相关性。MKESP和CM5部分电荷在MP2和两种DFT方法的结果之间显示出强相关性。三个优化的结构与尼马特雷韦的晶体生物活性构象存在一定程度的差异,表明nirmatrelvir-酶复合物在诱导拟合模型中形成。在MP2计算中,π键的强度相对较弱,证明了弹头亲电子腈的反应性。nirmatrelvir氢键受体在三个计算中始终显示出孤对电子的强离域,而在MP2计算中发现氢键供体对重氮原子具有高度极化。这项工作有助于参数化nirmatrelvir的力场,提高分子对接和合理抑制剂设计的准确性。
    Quantum mechanical second order Møller-Plesset (MP2) perturbation theory and density functional theory (DFT) Becke, 3-parameter, Lee-Yang-Parr (B3LYP) and Minnesota 2006 local functional (M06L) calculations were performed to optimize structure of nirmatrelvir and compute the Merz-Kollman electrostatic potential (MK ESP), natural population analysis (NPA), Hirshfeld, charge model 5 (CM5), and mulliken partial charges. The mulliken partial charge distribution of nirmatrelvir exhibits a poor correlation with the MK ESP charges in MP2, B3LYP, and M06L calculations respectively. The NPA, Hirshfeld, and CM5 partial charge scheme of nirmatrelvir indicate a reasonable correlation with MK ESP charge assignments in B3LYP and M06L calculations. The above correlations were not improved by the inclusion of implicit solvation model. The MK ESP and CM5 partial charges show a strong correlation between the results of MP2 and two DFT methods. The three optimized structures present a certain degree of differences from the crystal bioactive conformation of nirmatrelvir, suggesting the nirmatrelvir-enzyme complex is formed in the induced-fit model. The Reactivity of warhead electrophilic nitrile is justified by the relatively weaker strength of π bonds in the MP2 calculations. The nirmatrelvir hydrogen bond acceptors consistently show strong delocalization of lone pair electrons in three calculations, whereas hydrogen bond donors are found to have high polarization on the heavy nitrogen atoms in MP2 computations. This work helps to parametrize the force field of nirmatrelvir and improve accuracy of molecular docking and rational inhibitor design.
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