Structure-Based Virtual Screening, Molecular Docking, Molecular Dynamics Simulation of EGFR for the Clinical Treatment of Glioblastoma

被引:9
|
作者
Bhrdwaj, Anushka [1 ]
Abdalla, Mohnad [2 ]
Pande, Aditi [1 ]
Madhavi, Maddala [3 ]
Chopra, Ishita [1 ]
Soni, Lovely [1 ]
Vijayakumar, Natchimuthu [4 ]
Panwar, Umesh [5 ]
Khan, Mohd. Aqueel [5 ]
Prajapati, Leena [1 ]
Gujrati, Deepika [6 ,7 ]
Belapurkar, Pranoti [8 ]
Albogami, Sarah [9 ]
Hussain, Tajamul [10 ,11 ]
Selvaraj, Chandrabose [12 ]
Nayarisseri, Anuraj [1 ,5 ,10 ,13 ]
Singh, Sanjeev Kumar [5 ,14 ]
机构
[1] Eminent Biosci, In Silico Res Lab, 91 Sect A, Indore 452010, Madhya Pradesh, India
[2] Shandong Univ, Cheeloo Coll Med, Sch Pharmaceut Sci, Dept Pharmaceut,Key Lab Chem Biol,Minist Educ, 44 Cultural West Rd, Jinan 250012, Shandong, Peoples R China
[3] Osmania Univ, Dept Zool, Hyderabad 500007, Telangana, India
[4] M Kumarasamy Coll Engn, Dept Phys, Karur 639113, Tamil Nadu, India
[5] Alagappa Univ, Dept Bioinformat, Comp Aided Drug Designing & Mol Modeling Lab, Karaikkudi 630003, Tamil Nadu, India
[6] Osmania Univ, Inst Genet, Hyderabad 500016, India
[7] Osmania Univ, Hosp Genet Dis, Hyderabad 500016, India
[8] Acropolis Inst, Dept Biosci, Indore 453771, Madhya Pradesh, India
[9] Taif Univ, Coll Sci, Dept Biotechnol, POB 11099, Taif 21944, Saudi Arabia
[10] King Saud Univ, Coll Sci, Res Chair Biomed Applicat Nanomat, Biochem Dept, Riyadh, Saudi Arabia
[11] King Saud Univ, Coll Sci, Ctr Excellence Biotechnol Res, Riyadh, Saudi Arabia
[12] Saveetha Univ, Dept Pharmacol, Ctr Transdisciplinary Res, Saveetha Coll Dent & Hosp,SIMATS, Chennai 600077, Tamil Nadu, India
[13] LeGene Biosci Pvt Ltd, Bioinformat Res Lab, 91 Sect A, Indore 452010, Madhya Pradesh, India
[14] Ctr Biomed Res, Dept Data Sci, SGPGIMS Campus,Raebareli Rd, Lucknow 226014, Uttar Pradesh, India
关键词
EGFR; Glioblastoma; Virtual screening; Molecular docking; MD simulation; R programming; ADMET; Boiled egg plot; GROWTH-FACTOR RECEPTOR; HIGH-GRADE GLIOMAS; COMPUTATIONAL EVALUATION; CHEMOINFORMATICS MODELS; PHARMACEUTICAL DESIGN; CELL-PROLIFERATION; ACTIVE-SITE; MUTANT-DNA; DE-NOVO; INHIBITORS;
D O I
10.1007/s12010-023-04430-z
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Glioblastoma (GBM) is a WHO Grade IV tumor with poor visibility, a high risk of comorbidity, and exhibit limited treatment options. Resurfacing from second-rate glioma was originally classified as either mandatory or optional. Recent interest in personalized medicine has motivated research toward biomarker stratification-based individualized illness therapy. GBM biomarkers have been investigated for their potential utility in prognostic stratification, driving the development of targeted therapy and customizing therapeutic treatment. Due to the availability of a specific EGFRvIII mutational variation with a clear function in glioma-genesis, recent research suggests that EGFR has the potential to be a prognostic factor in GBM, while others have shown no clinical link between EGFR and survival. The pre-existing pharmaceutical lapatinib (PubChem ID: 208,908) with a higher affinity score is used for virtual screening. As a result, the current study revealed a newly screened chemical (PubChem CID: 59,671,768) with a higher affinity than the previously known molecule. When the two compounds are compared, the former has the lowest re-rank score. The time-resolved features of a virtually screened chemical and an established compound were investigated using molecular dynamics simulation. Both compounds are equivalent, according to the ADMET study. This report implies that the virtual screened chemical could be a promising Glioblastoma therapy.
引用
收藏
页码:5094 / 5119
页数:26
相关论文
共 50 条
  • [31] Structure-based virtual screening and molecular dynamics simulation for the identification of sphingosine kinase-2 inhibitors as potential analgesics
    Akhilesh
    Baidya, Anurag T. K.
    Uniyal, Ankit
    Das, Bhanuranjan
    Kumar, Rajnish
    Tiwari, Vinod
    [J]. JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 2022, 40 (23): : 12472 - 12490
  • [32] Structure-Based Virtual Screening, ADMET analysis, and Molecular Dynamics Simulation of Moroccan Natural Compounds as Candidates α-Amylase Inhibitors
    Abchir, Oussama
    Yamari, Imane
    Nour, Hassan
    Daoui, Ossama
    Elkhattabi, Souad
    Errougui, Abdelkbir
    Chtita, Samir
    [J]. CHEMISTRYSELECT, 2023, 8 (26):
  • [33] Identification of HDAC6 selective inhibitors: pharmacophore based virtual screening, molecular docking and molecular dynamics simulation
    Yan, Guoyi
    Li, Dongxiao
    Zhong, Xinxin
    Liu, Ge
    Wang, Xueqin
    Lu, Yuanxiang
    Qin, Fangyuan
    Guo, Yuqi
    Duan, Shaofeng
    Li, Deyu
    [J]. JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 2021, 39 (06): : 1928 - 1939
  • [34] Targeting Glutaminase by Natural Compounds: Structure-Based Virtual Screening and Molecular Dynamics Simulation Approach to Suppress Cancer Progression
    Tabrez, Shams
    Zughaibi, Torki A.
    Hoque, Mehboob
    Suhail, Mohd
    Khan, Mohammad Imran
    Khan, Azhar U.
    [J]. MOLECULES, 2022, 27 (15):
  • [35] Structure-based discovery of interleukin-33 inhibitors: a pharmacophore modelling, molecular docking, and molecular dynamics simulation approach
    Le, M. -T.
    Mai, T. T.
    Huynh, P. N. H.
    Tran, T. -D.
    Thai, K. -M.
    Nguyen, Q. -T.
    [J]. SAR AND QSAR IN ENVIRONMENTAL RESEARCH, 2020, 31 (12) : 883 - 904
  • [36] Discovery of Novel Tankyrase Inhibitors through Molecular Docking-Based Virtual Screening and Molecular Dynamics Simulation Studies
    Berishvili, Vladimir P.
    Kuimov, Alexander N.
    Voronkov, Andrew E.
    Radchenko, Eugene, V
    Kumar, Pradeep
    Choonara, Yahya E.
    Pillay, Viness
    Kamal, Ahmed
    Palyulin, Vladimir A.
    [J]. MOLECULES, 2020, 25 (14):
  • [37] Exploration of potential inhibitors for tuberculosis via structure-based drug design, molecular docking, and molecular dynamics simulation studies
    Rajasekhar, Sreerama
    Karuppasamy, Ramanathan
    Chanda, Kaushik
    [J]. JOURNAL OF COMPUTATIONAL CHEMISTRY, 2021, 42 (24) : 1736 - 1749
  • [38] Structure-based screening and molecular dynamics simulation studies for the identification of potential acetylcholinesterase inhibitors
    Ganeshpurkar, Ankit
    Singh, Ravi
    Gore, Pravin Gangaram
    Kumar, Devendra
    Gutti, Gopichand
    Kumar, Ashok
    Singh, Sushil Kumar
    [J]. MOLECULAR SIMULATION, 2020, 46 (03) : 169 - 185
  • [39] Protein structure-based drug design: from docking to molecular dynamics
    Sledz, Pawel
    Caflisch, Amedeo
    [J]. CURRENT OPINION IN STRUCTURAL BIOLOGY, 2018, 48 : 93 - 102