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Enhanced Selectivity by Planar Hyper-Coordinate Transition Metals for Biosensing 平面超配位过渡金属在生物传感中的选择性增强
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-15 DOI: 10.1002/adts.202501599
Zihan Zhang, Rajeev Ahuja, Wei Luo

Selectivity in sensitive biosensing requires avoiding multi-enzyme-like activity, but suppressing the multi-enzyme-like activity of transition metals remains challenging. Recently, planar hyper-coordinate states have led to an emerging family of 2D materials with strong planar confinement. Here, we propose a possible strategy to enhance the selectivity of biosensing using planar hyper-coordinate transition metals, and verified our strategy through simulations of the planar hyper-coordinate 2D materials ScCN3B6 and the non-planar 2D material YCN3B6 for the adsorption of biomolecules, including adenosine, ascorbic acid, and nucleobases. Breaking the planar confinement of ScCN3B6 leads to enhanced adsorption of analytes. In contrast, YCN3B6 does not show selectivity in the same systems compared with ScCN3B6. Therefore, whether the planar confinement is broken provides a possible route to enhance selectivity. Moreover, the arrangement and synergy of transition metal active sites improve the adsorption energy to specific molecular structures. The development of planar hyper-coordinate transition metals opens a fertile playground for highly selective label-free biosensing.

敏感生物传感中的选择性需要避免多酶样活性,但抑制过渡金属的多酶样活性仍然具有挑战性。近年来,平面超坐标态导致了一类具有强平面约束的二维材料的出现。在此,我们提出了一种利用平面超配位过渡金属来提高生物传感选择性的可能策略,并通过模拟平面超配位二维材料ScCN 3b6和非平面二维材料YCN 3b6对生物分子(包括腺苷、抗坏血酸和核碱基)的吸附来验证我们的策略。打破scc3b6的平面约束导致分析物的吸附增强。相比之下,yc3b6在相同的体系中与scc3b6相比没有表现出选择性。因此,是否打破平面约束为提高选择性提供了可能的途径。此外,过渡金属活性位点的排列和协同作用提高了对特定分子结构的吸附能。平面超坐标过渡金属的发展为高选择性无标签生物传感开辟了广阔的领域。
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引用次数: 0
Exploring the Bulk Phase of 2D MA2Z4 Family 二维ma2z4族体相的探索
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-13 DOI: 10.1002/adts.202501011
Ata Ur Rahman, Muhammad Ikram, Ghulam Hussain, Zhengbiao Ouyang
<div> <p>Although 2D <span></span><math> <semantics> <mrow> <msub> <mi>MA</mi> <mn>2</mn> </msub> <msub> <mi>Z</mi> <mn>4</mn> </msub> </mrow> <annotation>${rm MA}_2{rm Z}_4$</annotation> </semantics></math> materials exhibit exceptional physical properties, their bulk counterparts remain largely unexplored. In this study, we conduct a comprehensive theoretical investigation of the structural stability, mechanical characteristics, electronic, and optical properties of bulk <span></span><math> <semantics> <mrow> <msub> <mi>MoSi</mi> <mn>2</mn> </msub> <msub> <mi>P</mi> <mn>4</mn> </msub> </mrow> <annotation>${rm MoSi}_2{rm P}_4$</annotation> </semantics></math> and <span></span><math> <semantics> <mrow> <msub> <mi>WSi</mi> <mn>2</mn> </msub> <msub> <mi>P</mi> <mn>4</mn> </msub> </mrow> <annotation>${rm WSi}_2{rm P}_4$</annotation> </semantics></math>, representative members of the <span></span><math> <semantics> <mrow> <msub> <mi>MA</mi> <mn>2</mn> </msub> <msub> <mi>Z</mi> <mn>4</mn> </msub> </mrow> <annotation>${rm MA}_2{rm Z}_4$</annotation> </semantics></math> family, to assess their feasibility and stability in bulk form. Ground-state energy calculations identify AB stacking as the most stable configuration, while ab initio molecular dynamics (AIMD) and phonon analyses indicate the thermodynamic stability of bulk <span></span><math> <semantics> <mrow> <msub> <mi>MoSi</mi> <mn>2</mn> </msub> <msub> <mi>P</mi> <mn>4</mn> </msub> </mrow> <annotation>${rm MoSi}_2{rm P}_4$</annotation> </semantics></math> and <span></span><math> <semantics> <mrow> <msub> <mi>WSi</mi> <mn>2</mn> </msub> <msub> <mi>P</mi> <mn>4</mn> </msub> </mrow>
尽管二维材料表现出特殊的物理特性,但它们的块状材料在很大程度上仍未被探索。在这项研究中,我们进行了一个全面的理论研究的结构稳定性,机械特性,电子和光学性质的体和代表成员的家族,以评估其可行性和稳定性的体形式。基态能量计算确定AB堆叠是最稳定的构型,而从头算分子动力学(AIMD)和声子分析表明了体和结构的热力学稳定性。此外,计算的弹性常数和导出的模量验证了两种体材料的力学稳定性,符合Born稳定性准则。我们发现,使用PBE (HSE06)泛函计算,bulk和wsi2p4是间接带隙分别为0.89(1.65)和0.78 (1.50)eV的半导体。介电函数分析表明,()具有较强的光学各向异性,具有较高的静态介电常数(19.2)和(12.5)。这两种材料在红外和紫外区域都表现出明显的吸收峰,突出了它们在光电应用方面的良好潜力。此外,高折射率和强等离子体共振(19.5-19.6 eV)强调了它们在光子和红外器件中的潜力。总的来说,这些发现支持了块状材料的实验可实现性,为其潜在的合成和集成到实际设备中铺平了道路。
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引用次数: 0
Quantum Mechanical Transport Analysis in Formamidinium-Based Perovskite Solar Cells 甲脒基钙钛矿太阳能电池的量子力学输运分析
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-10 DOI: 10.1002/adts.202501291
Kousar Jan, Aaqib Rashid, M. Ashraf Bujran, Rumaisa Jan, Masarat Fayaz Bhat, Mohd Ikram

We analyze the quantum transport properties of FA-based perovskite solar cells, emphasizing the role of Cs+${rm Cs}^+$ and Br${rm Br}^-$ co-doping in enhancing both charge transport and structural stability. Within the framework of Density Functional Theory (DFT) and the Non-Equilibrium Green's Function (NEGF) formalism, we examine how doping alters the electronic structure, reshaping transport pathways at the quantum level. The results indicate that Cs+${rm Cs}^+$ stabilizes the perovskite lattice by suppressing structural instabilities, while Br${rm Br}^-$ modifies the bandgap, facilitating more efficient charge extraction and suppressing non-radiative recombination. The combined effect of these modifications is a substantial reduction in tunneling barriers and defect-induced scattering, enabling transport that is nearly ballistic under optimal conditions. These findings suggest a direct correspondence between atomic-scale doping mechanisms and large-scale device performance, providing a theoretical basis for the controlled design of high-efficiency perovskite photovoltaics. The broader implications extend beyond a specific material system, offering insight into the interplay of quantum mechanical effects and device-scale efficiency, with potential relevance to the development of next-generation photovoltaic architectures.

我们分析了FA基钙钛矿太阳能电池的量子输运特性,强调了和共掺杂在增强电荷输运和结构稳定性方面的作用。在密度泛函理论(DFT)和非平衡格林函数(NEGF)形式主义的框架内,我们研究了掺杂如何改变电子结构,在量子水平上重塑输运途径。结果表明,通过抑制结构不稳定性来稳定钙钛矿晶格,同时改变带隙,促进更有效的电荷提取和抑制非辐射复合。这些改进的综合效果是大幅减少隧道障碍和缺陷引起的散射,从而在最佳条件下实现接近弹道的输运。这些发现表明原子尺度掺杂机制与大规模器件性能之间存在直接对应关系,为高效钙钛矿光伏电池的可控设计提供了理论基础。更广泛的影响超出了特定的材料系统,提供了对量子力学效应和器件规模效率的相互作用的见解,与下一代光伏架构的发展具有潜在的相关性。
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引用次数: 0
Multifunctional Graphene Space–Time Coding Metasurface for Terahertz Holographic Imaging 用于太赫兹全息成像的多功能石墨烯空时编码超表面
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-08 DOI: 10.1002/adts.202501952
Baojun Chen, Zhongzheng Geng, Zhenglin Yuan, Yuanrun Tang, Jiantan Jiang, Yanjie Ju

In recent years, the integration of electromagnetic metasurfaces with holographic imaging has witnessed significant progress. By engineering the array configuration of coding metasurfaces to manipulate both the amplitude and phase of scattered waves, high-resolution imaging can be achieved. Nevertheless, conventional metasurfaces are usually restricted to reconstructing only a single holographic image on the imaging plane, which greatly limits their versatility. Here, we propose a graphene-based terahertz space–time coding metasurface (STGDM) that employs 2-bit unit cells together with temporal modulation to achieve equivalent 3-bit phase control, enabling independent amplitude and phase modulation at the ±1st harmonics. Leveraging this mechanism, the STGDM achieves multiple advanced functionalities, including dual-hologram reconstruction, simultaneous holography and beam steering, and controllable generation of dual vortex beams. Full-wave simulations confirm that the proposed strategy effectively suppresses undesired harmonics while enhancing the system's degrees of freedom and functional reconfigurability. These results highlight the potential of STGDMs as compact and versatile platforms for high-resolution imaging, security screening, multimodal sensing, and future 6G communication technologies.

近年来,电磁超表面与全息成像的结合取得了重大进展。通过设计编码超表面的阵列结构来控制散射波的振幅和相位,可以实现高分辨率成像。然而,传统的超表面通常仅限于在成像平面上重建单个全息图像,这极大地限制了它们的多功能性。在这里,我们提出了一种基于石墨烯的太赫兹时空编码超表面(STGDM),它采用2位元胞和时间调制来实现等效的3位相位控制,从而实现±1次谐波的独立幅度和相位调制。利用这一机制,STGDM实现了多重先进功能,包括双全息图重建、同时全息和光束转向以及双涡旋光束的可控产生。全波仿真结果表明,该策略有效地抑制了不期望的谐波,同时提高了系统的自由度和功能可重构性。这些结果突出了stgdm作为高分辨率成像、安全筛查、多模态传感和未来6G通信技术的紧凑通用平台的潜力。
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引用次数: 0
Comparative Study of Buffer Layers in Carbon Nanotube Based Heterostructure Solar Cells: A Numerical Simulation Approach 碳纳米管异质结构太阳能电池缓冲层的比较研究:数值模拟方法
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-08 DOI: 10.1002/adts.202501917
Tanmoy Biswas, Md Shoeb Akter, Muhammad Athar Uddin

Heterostructure solar cells attract significant interest due to the demand for high-efficiency and low-cost photovoltaic technologies. The buffer layer plays a crucial role in determining band alignment, reducing interfacial defects, and improving charge transport, stability, and device performance. This study investigates a ZnO/Buffer Layer/SWCNT/Cu2O solar cell structure using SCAPS-1D, where Single-Walled Carbon Nanotubes serve as the absorber and Cu2O as the back surface field. Three buffer materials PCBM, WO3 and C60 are analyzed, and the SWCNT absorber thickness, acceptor concentration, and defect density are varied to determine optimal conditions. The optimal configuration is achieved with PCBM at an absorber, NA = 4 × 1016 cm−3 and W = 1000 nm at 300 K, producing a power conversion efficiency of 32.90%, JSC = 42.98 mA/cm2, VOC = 0.89 V, and FF = 85.87% under AM 1.5G illumination. PCBM shows superior performance compared to WO3 (32.28%) and C60 (30.93%) due to favorable energy-band alignment and lower recombination rate. The findings indicate that buffer-layer engineering plays a significant role in improving heterostructure solar cell performance and supports the development of efficient, environmentally friendly, and scalable photovoltaic technologies. Furthermore, the materials are non-toxic and abundant in the Earth's crust, making the structure suitable for photovoltaic applications.

由于对高效率和低成本光伏技术的需求,异质结构太阳能电池引起了人们的极大兴趣。缓冲层在确定带对准、减少界面缺陷、改善电荷传输、稳定性和器件性能方面起着至关重要的作用。本研究利用SCAPS‐1D研究了ZnO/缓冲层/ swcnts / cu2o太阳能电池结构,其中单壁碳纳米管作为吸收剂,cu2o作为后表面场。对三种缓冲材料PCBM、wo3和c60进行了分析,并对swcnts吸收层厚度、受体浓度和缺陷密度进行了变化,以确定最佳条件。在AM 1.5G照明条件下,以PCBM为吸收体,N = 4 × 10 16 cm−3,W = 1000 nm,达到最佳配置,功率转换效率为32.90%,jsc = 42.98 mA/cm 2, V OC = 0.89 V, FF = 85.87%。与wo3(32.28%)和c60(30.93%)相比,PCBM表现出更好的性能,因为它具有良好的能带对准和较低的复合率。研究结果表明,缓冲层工程在提高异质结构太阳能电池性能方面发挥着重要作用,并支持高效、环保和可扩展的光伏技术的发展。此外,这些材料无毒且在地壳中含量丰富,使得这种结构适合光伏应用。
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引用次数: 0
A Novel Discrete Domain Force/Displacement Hybrid Compensation Method for Space Manipulator Docking Hardware-in-the-Loop Simulation Accuracy Loss in Complex Contact 空间机械臂对接环内硬件仿真精度损失的一种离散域力/位移混合补偿方法
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-08 DOI: 10.1002/adts.202501144
Simiao Yu, Zelei Tong, Chuqing Cao, Sizhe He, Qianyi Zhang, Nan Ao, Dongmei Xu

Hardware-in-the-loop (HIL) simulation of manipulator docking is a significant way to simulate docking process of space manipulator. However, robot's response delay makes HIL simulation exist position and force errors, which severely affects stability and accuracy of the simulation. Aiming at the dragging stage of space manipulator docking with complex and unknown single-mass, multi-stiffness, and multi-damping (SM-MS-MD) contact, this paper presents a force/displacement hybrid compensation method (F/D HCM) based on online identification of “intermediate” parameters. A Kalman filter was applied to identify the time-varying intermediate parameters; subsequently, a discrete domain force compensation model was established for compensating contact force deviation. Meanwhile, to address the unknown motion frequency and uncertainty dynamic response delay of the parallel robot, a solution model of docking dynamics frequency based on parameter identification was derived; combined with the linear interpolation method with the frequency domain analysis of parallel robot, an adaptive lead-lag controller was designed to compensate parallel robot's response delay and to reduce displacement deviation. Finally, experiments were performed on this F/D HCM, which shows that this method can ensure space manipulator HIL-SS simulate dragging stage with high accuracy, and is of great significance to the success of real docking.

机械臂对接半在环仿真是仿真空间机械臂对接过程的重要手段。然而,机器人的响应延迟使得HIL仿真存在位置和力误差,严重影响了仿真的稳定性和精度。针对空间机械臂对接拖曳阶段复杂未知的单质量、多刚度、多阻尼(SM-MS-MD)接触,提出了一种基于“中间”参数在线辨识的力/位移混合补偿方法(F/D HCM)。采用卡尔曼滤波对时变中间参数进行辨识;随后,建立了离散域力补偿模型,对接触力偏差进行补偿。同时,针对并联机器人运动频率未知和动态响应延迟不确定的问题,建立了基于参数辨识的对接动力学频率求解模型;将线性插值方法与并联机器人的频域分析相结合,设计了一种自适应超前滞后控制器来补偿并联机器人的响应延迟和减小位移偏差。最后,在该F/D HCM上进行了实验,实验结果表明,该方法能够保证空间机械臂hl - ss模拟拖曳阶段的精度,对实际对接的成功进行具有重要意义。
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引用次数: 0
Ultra-Broadband and High-Gain Microstrip Circularly Polarized Antenna with Reflective Quasi-Achromatic-Focused Metasurface 反射准消色差聚焦超表面超宽带高增益微带圆极化天线
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-08 DOI: 10.1002/adts.202502089
Wentao Ye, Jingcheng Zhao, Xia Cao, Bin Cai, Hui Luo, Fu Chen, Yongzhi Cheng, Xiangcheng Li

In this paper, an ultra-broadband circularly polarized (CP) antenna equipped with quasi-achromatic-focused metasurface (MS) is proposed. To enhance the C-shaped CP antenna's radiation performance, we designed a MS-based on Pancharatnam-Berry (PB) phase theory. Positioning the initial C-shaped CP antenna at the focal point of the designed quasi-achromatic-focused MS enabled an antenna loaded with MS achieving CP radiation. This MS antenna system demonstrated a peak gain of 13.77 dBic with an average gain exceeding 10 dBic over the 4.52–12.82 GHz band (relative bandwidth: 95.7%). Concurrently, its 3-dB axial ratio bandwidth reached 89.1%, covering 4.6–12 GHz. This work provides an efficient method to enhance antenna gain in wideband wireless communication systems.

提出了一种具有准消色差聚焦超表面的超宽带圆极化天线。为了提高c形CP天线的辐射性能,设计了一种基于Pancharatnam-Berry (PB)相位理论的ms。将初始c形CP天线定位在设计的准消色差聚焦MS的焦点处,使加载MS的天线能够实现CP辐射。该系统在4.52 ~ 12.82 GHz频段(相对带宽:95.7%)的峰值增益为13.77 dBic,平均增益超过10 dBic。同时,其3db轴比带宽达到89.1%,覆盖4.6-12 GHz。该研究为提高宽带无线通信系统中的天线增益提供了一种有效的方法。
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引用次数: 0
Investigating the Dissociation Mechanisms of Nitroimidazole Ions Via Direct Dynamics Simulations 通过直接动力学模拟研究硝基咪唑离子的解离机制
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-06 DOI: 10.1002/adts.202501484
Himani Priya, Manikandan Paranjothy

Nitroimidazoles represent an important class of compounds due to their distinct biological activities and potential therapeutic applications. Among them, 2-nitroimidazole (2-NI) is known for its radiosensitizing effects in radiation therapy, while 4-nitroimidazole (4-NI) exhibits notable antimicrobial activity. Despite their significance, the fragmentation chemistry of nitroimidazole ions remains poorly understood. In this study, the fragmentation behavior of protonated and deprotonated 2-NI and 4-NI ions was investigated using electronic structure calculations combined with direct dynamics simulations under collision-induced dissociation (CID) conditions. All dynamics simulations were performed at the density functional M06-2X/6-31+G* level of theory. Ion activation was modeled through collisions with an Ar atom, and the resulting fragment ions were thoroughly analyzed. The simulations revealed a wide variety of dissociation pathways and product ions. Notably, the CID trajectories were dominated by a direct, non-statistical shattering mechanism, leading to deviations from experimental fragmentation patterns. To account for these differences, statistical unimolecular dissociation simulations were also conducted at fixed total energies. The resulting product branching ratios showed improved agreement with experimental observations, offering deeper insight into the underlying dissociation mechanisms.

硝基咪唑因其独特的生物活性和潜在的治疗应用而成为一类重要的化合物。其中,2‐硝基咪唑(2‐NI)在放射治疗中具有致敏作用,而4‐硝基咪唑(4‐NI)具有显著的抗菌活性。尽管它们具有重要意义,但硝基咪唑离子的断裂化学仍然知之甚少。在本研究中,利用电子结构计算结合碰撞诱导解离(CID)条件下的直接动力学模拟,研究了质子化和去质子化2 - NI和4 - NI离子的碎裂行为。所有动力学模拟均在理论密度泛函M06‐2X/6‐31+G*水平下进行。离子活化是通过与Ar原子碰撞来模拟的,并对产生的碎片离子进行了彻底的分析。模拟揭示了各种各样的解离途径和产物离子。值得注意的是,CID轨迹由直接的、非统计的破碎机制主导,导致与实验破碎模式的偏差。为了解释这些差异,还在固定总能量下进行了统计单分子离解模拟。所得到的产物分支比与实验观察结果一致,为潜在的解离机制提供了更深入的了解。
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引用次数: 0
Design and Comparative Analysis of Highly Sensitive CNT/PIB/LiNbO3 Hetero-Structure SAW Resonator 高灵敏度CNT/PIB/ linbo3异质结构SAW谐振器的设计与比较分析
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2026-01-06 DOI: 10.1002/adts.202501984
Ashish Tiwary, Jitendra Kumar, Vivek Lukose, Basudeba Behera

This article provides a comprehensive performance analysis of various sensing layers on one-port surface acoustic wave (SAW) resonators exhibiting mass loading effect. Lithium Niobate (LiNbO3) piezoelectric substrate, polyisobutylene (PIB) polymer and carbon nanotube (CNT) based multilayer SAW sensors were considered for device sensitivity. This study contributes to understanding the CNT-PIB composite layer on 128° YX-cut LiNbO3 SAW devices for sensing applications. This research proposed four different SAW structures with optimized geometrical boundary conditions. The finite element method is applied to solve the SAW device partial differential equation (PDE) to find the device performance parameters. The proposed one-port SAW sensor has been analyzed with the investigation of change in SAW phase velocity, electromechanical coupling coefficient (K2), device sensitivity, admittance (Y11), S parameter (S11), and quality factor. Electrical response of the proposed SAW device is equivalently modeled with the modified Butterworth-Van Dyke (mBVD) lumped parameters, motional resistance (Rm), motional inductor (Lm), motional capacitor (Cm), and electrostatic capacitance (C0). The obtained mBVD parameter describes the proposed SAW device's behavior tuned to the desired sensitivity, frequency response and signal-to-noise ratio. High sensitivity of 18.7 MHz/µg is reported for the proposed device. The obtained mass sensitivity is compared and is more effective than the parallel research outcome.

本文提供了具有质量加载效应的单端口表面声波(SAW)谐振器上的各种传感层的综合性能分析。考虑了铌酸锂(linbo3)压电衬底、聚异丁烯(PIB)聚合物和碳纳米管(CNT)多层SAW传感器的器件灵敏度。这项研究有助于理解用于传感应用的128°YX切割linbo3 SAW器件上的CNT - PIB复合层。本研究提出了四种不同的SAW结构,并优化了几何边界条件。采用有限元法求解SAW器件的偏微分方程,得到器件的性能参数。对所提出的单端口声表面波传感器进行了分析,研究了声表面波相速度、机电耦合系数(k2)、器件灵敏度、导纳(Y11)、S参数(S11)和质量因子的变化。所提出的SAW器件的电响应等效地用改进的Butterworth‐Van Dyke (mBVD)集总参数、运动电阻(R m)、运动电感(L m)、运动电容(C m)和静电电容(c0)建模。所获得的mBVD参数描述了所提出的SAW器件的行为,该器件调整到所需的灵敏度、频率响应和信噪比。据报道,该器件的灵敏度高达18.7 MHz/µg。对所得的质量灵敏度进行了比较,结果表明比平行研究结果更有效。
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引用次数: 0
A Computational Biophysical Approach to Inhibit the Oncogenic Activity of CRIPTO Protein in Human Cancers 计算生物物理方法抑制人类癌症中CRIPTO蛋白的致癌活性
IF 2.9 4区 工程技术 Q1 MULTIDISCIPLINARY SCIENCES Pub Date : 2025-12-31 DOI: 10.1002/adts.202501140
Mahmoud E. Rashwan, Mahrous R. Ahmed, Abdo A. Elfiky

Here, we present a comprehensive computational evaluation of three FDA (Food and Drug Administration) approved drug leads, ZINC150338755, ZINC6716957, and ZINC203686879, as potential inhibitors targeting the Cripto/FRL-1/Cryptic (CFC) domain of the CRIPTO (Teratocarcinoma-derived growth factor1) protein. CRIPTO is a key oncogenic protein implicated in tumor progression, metastasis, and therapy resistance across multiple cancer types. Its overexpression promotes cancer stemness and survival in various tumors, such as liver cancer and glioblastoma, while its restricted expression in normal tissues makes it an attractive therapeutic target. Through an integrated approach merging molecular docking (with results −8.6 to −9.1 kcal/mol affinities), molecular dynamics (MD) simulations, molecular mechanics–generalized Born surface area (MM-GBSA) binding free energy calculations, and free energy landscape (FEL) analysis, we delineate distinct binding modes and thermodynamic fingerprints of the inhibitor complexes. Virtual screening determined the lead compounds, which were subjected to 250 ns MD simulations to check the stability and dynamics of interactions. Binding free energy calculation revealed striking disparities in binding energies (ΔGbind from −26.83 to −57.37 kcal/mol), where Complex1 exhibited increased stability through hydrophobic superiority, Complex2 showed similar polar/nonpolar interactions, and Complex3 exhibited unique electrostatic-driven recognition. These findings shed atomic-level insight into CRIPTO-inhibitor interactions and offer a solid foundation for structure-based optimization of CRIPTO inhibitors.

在这里,我们对FDA(食品和药物管理局)批准的三种药物先导进行了全面的计算评估,ZINC150338755, ZINC6716957和ZINC203686879,作为潜在的抑制剂,靶向Cripto(致畸癌衍生生长因子1)蛋白的Cripto/FRL-1/Cryptic (CFC)结构域。CRIPTO是一种关键的致癌蛋白,与多种癌症类型的肿瘤进展、转移和治疗耐药性有关。在肝癌、胶质母细胞瘤等多种肿瘤中,它的过表达促进肿瘤的发生和存活,而在正常组织中的限制性表达使其成为一个有吸引力的治疗靶点。通过结合分子对接(结果为−8.6 ~−9.1 kcal/mol亲和)、分子动力学(MD)模拟、分子力学-广义Born表面积(MM-GBSA)结合自由能计算和自由能景观(FEL)分析的综合方法,我们描绘了抑制剂复合物的不同结合模式和热力学指纹图谱。虚拟筛选确定了先导化合物,并对其进行了250 ns MD模拟,以检查相互作用的稳定性和动力学。结合自由能计算结果显示,在结合能方面存在显著差异(ΔGbind从−26.83到−57.37 kcal/mol),其中,Complex1通过疏水优势表现出更高的稳定性,Complex2表现出类似的极性/非极性相互作用,而Complex3表现出独特的静电驱动识别。这些发现揭示了对CRIPTO抑制剂相互作用的原子水平的了解,并为基于结构的CRIPTO抑制剂优化提供了坚实的基础。
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Advanced Theory and Simulations
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