Skip to main content
Erschienen in: Medical Oncology 11/2023

01.11.2023 | Original Paper

Multitargeted inhibitory effect of Mitoxantrone 2HCl on cervical cancer cell cycle regulatory proteins: a multitargeted docking-based MM\GBSA and MD simulation study

verfasst von: Mohammed Ali Alshehri, Saeed Ahmed Asiri, Abdulrahman Alzahrani, Reem S. Alazragi, Leena S. Alqahtani, Amany I. Alqosaibi, Mashael M. Alnamshan, Qamre Alam, Misbahuddin M. Rafeeq

Erschienen in: Medical Oncology | Ausgabe 11/2023

Einloggen, um Zugang zu erhalten

Abstract

Cervical cancer remains a significant global health concern that starts in the cervix, the lower part of the uterus that connects to the vagina and is caused by the human papillomavirus (HPV), necessitating the development of effective multitargeted effective and resistance-proof therapies. In early-stage cervical cancer may not show any symptoms, however, as the cancer progresses, some people may experience- abnormal vaginal bleeding, watery or bloody vaginal discharge, pain in the pelvis or lower back, pain during sex, and frequent and painful urination. In this study, we screened the complete FDA-approved drug library using a multitargeted inhibitory approach against four cervical cancer proteins, namely mitotic arrest deficient -2, DNA polymerase epsilon B-subunit, benzimidazole-related -1, and threonine-protein kinase-1 which crucially plays its role for the in its development process. We employed the HTVS, SP and XP algorithms for efficient filtering and screening that helped to identify Mitoxantrone 2HCl against all of them with docking and MM\GBSA scores ranging from − 11.63 to − 7.802 kcal/mol and − 74.38 to − 47.73 kcal/mol, respectively. We also evaluated the interaction patterns of each complex and the pharmacokinetics properties that helped gain insight into interactions. Subsequently, we performed multiscale MD simulations for 100 ns to understand the dynamic behaviour and stability of the Mitoxantrone 2HCl -protein complexes that revealed the formation of stable drug-protein complexes and provided insights into the molecular interactions that contribute to Mitoxantrone’s inhibitory effects on these proteins and can be a better drug for cervical cancer. However, experimental studies of these findings could pave the way for therapies to combat cervical cancer effectively.
Literatur
2.
Zurück zum Zitat Ali C, Makata N, Ezenduka P. Cervical cancer: a health limiting condition. Gynecol Obstet (Sunnyvale). 2016;6(378):2161. Ali C, Makata N, Ezenduka P. Cervical cancer: a health limiting condition. Gynecol Obstet (Sunnyvale). 2016;6(378):2161.
4.
Zurück zum Zitat Tripathi MK, et al. Fundamentals of molecular modeling in drug design. In: computer aided drug design (CADD): from ligand-based methods to structure-based approaches. Amsterdam: Elsevier; 2022. p. 125–55.CrossRef Tripathi MK, et al. Fundamentals of molecular modeling in drug design. In: computer aided drug design (CADD): from ligand-based methods to structure-based approaches. Amsterdam: Elsevier; 2022. p. 125–55.CrossRef
5.
Zurück zum Zitat Yadav MK, et al. Predictive modeling and therapeutic repurposing of natural compounds against the receptor-binding domain of SARS-CoV-2. J Biomol Struct Dyn. 2022;41:1–13.CrossRef Yadav MK, et al. Predictive modeling and therapeutic repurposing of natural compounds against the receptor-binding domain of SARS-CoV-2. J Biomol Struct Dyn. 2022;41:1–13.CrossRef
6.
Zurück zum Zitat Bowers KJ, et al. Scalable algorithms for molecular dynamics simulations on commodity clusters. in Proceedings of the 2006 ACM/IEEE Conference on Supercomputing. 2006. Bowers KJ, et al. Scalable algorithms for molecular dynamics simulations on commodity clusters. in Proceedings of the 2006 ACM/IEEE Conference on Supercomputing. 2006.
7.
Zurück zum Zitat Choi J-W, et al. High expression of spindle assembly checkpoint proteins CDC20 and MAD2 is associated with poor prognosis in urothelial bladder cancer. Virchows Arch. 2013;463:681–7.CrossRefPubMed Choi J-W, et al. High expression of spindle assembly checkpoint proteins CDC20 and MAD2 is associated with poor prognosis in urothelial bladder cancer. Virchows Arch. 2013;463:681–7.CrossRefPubMed
8.
Zurück zum Zitat Sun S-C, Kim N-H. Spindle assembly checkpoint and its regulators in meiosis. Hum Reprod Update. 2012;18(1):60–72.CrossRefPubMed Sun S-C, Kim N-H. Spindle assembly checkpoint and its regulators in meiosis. Hum Reprod Update. 2012;18(1):60–72.CrossRefPubMed
9.
Zurück zum Zitat Burgers PM. Eukaryotic DNA polymerases in DNA replication and DNA repair. Chromosoma. 1998;107(4):218–27.CrossRefPubMed Burgers PM. Eukaryotic DNA polymerases in DNA replication and DNA repair. Chromosoma. 1998;107(4):218–27.CrossRefPubMed
11.
Zurück zum Zitat Sheikh K, et al. Consequential innovations in nature-inspired intelligent computing techniques for biomarkers and potential therapeutics identification. In: Raza K, editor., et al., Nature-inspired intelligent computing techniques in bioinformatics. Singapore: Springer; 2022. p. 247–74. Sheikh K, et al. Consequential innovations in nature-inspired intelligent computing techniques for biomarkers and potential therapeutics identification. In: Raza K, editor., et al., Nature-inspired intelligent computing techniques in bioinformatics. Singapore: Springer; 2022. p. 247–74.
13.
Zurück zum Zitat Tarique M, et al. Novel severe acute respiratory syndrome coronavirus 2 (SARS-CoV2) and other coronaviruses: a genome-wide comparative annotation and analysis. Mol Cell Biochem. 2021;476:2203–17.CrossRefPubMedPubMedCentral Tarique M, et al. Novel severe acute respiratory syndrome coronavirus 2 (SARS-CoV2) and other coronaviruses: a genome-wide comparative annotation and analysis. Mol Cell Biochem. 2021;476:2203–17.CrossRefPubMedPubMedCentral
16.
Zurück zum Zitat Wicherska-Pawłowska K, Wróbel T, Rybka J. Toll-like receptors (TLRs), NOD-like receptors (NLRs), and RIG-I-like receptors (RLRs) in innate immunity. TLRs, NLRs, and RLRs ligands as immunotherapeutic agents for hematopoietic diseases. Int J Mol Sci. 2021;22(24):13397.CrossRefPubMedPubMedCentral Wicherska-Pawłowska K, Wróbel T, Rybka J. Toll-like receptors (TLRs), NOD-like receptors (NLRs), and RIG-I-like receptors (RLRs) in innate immunity. TLRs, NLRs, and RLRs ligands as immunotherapeutic agents for hematopoietic diseases. Int J Mol Sci. 2021;22(24):13397.CrossRefPubMedPubMedCentral
17.
Zurück zum Zitat Ahmad S, et al. Multitargeted molecular dynamic understanding of butoxypheser against SARS-CoV-2: an in silico study. Nat Product Commun. 2022;17(7):1934578X221115499. Ahmad S, et al. Multitargeted molecular dynamic understanding of butoxypheser against SARS-CoV-2: an in silico study. Nat Product Commun. 2022;17(7):1934578X221115499.
18.
Zurück zum Zitat Ahmad S, et al. Reporting dinaciclib and theodrenaline as a multitargeted inhibitor against SARS-CoV-2: an in-silico study. J Biomol Struct Dyn. 2023;41(9):4013–23.CrossRefPubMed Ahmad S, et al. Reporting dinaciclib and theodrenaline as a multitargeted inhibitor against SARS-CoV-2: an in-silico study. J Biomol Struct Dyn. 2023;41(9):4013–23.CrossRefPubMed
20.
Zurück zum Zitat Ahmad S, et al. Illustrious implications of nature-inspired computing methods in therapeutics and computer-aided drug design. In: Raza K, editor., et al., Nature-inspired intelligent computing techniques in bioinformatics. Singapore: Springer; 2022. Ahmad S, et al. Illustrious implications of nature-inspired computing methods in therapeutics and computer-aided drug design. In: Raza K, editor., et al., Nature-inspired intelligent computing techniques in bioinformatics. Singapore: Springer; 2022.
22.
Zurück zum Zitat Alghamdi YS, et al. Unveiling the multitargeted potential of N-(4-Aminobutanoyl)-S-(4-methoxybenzyl)-L-cysteinylglycine (NSL-CG) against SARS CoV-2: A virtual screening and molecular dynamics simulation study. J Biomol Struct Dyn. 2023;41(14):6633–42.CrossRefPubMed Alghamdi YS, et al. Unveiling the multitargeted potential of N-(4-Aminobutanoyl)-S-(4-methoxybenzyl)-L-cysteinylglycine (NSL-CG) against SARS CoV-2: A virtual screening and molecular dynamics simulation study. J Biomol Struct Dyn. 2023;41(14):6633–42.CrossRefPubMed
23.
Zurück zum Zitat Alturki NA, et al. In-silico screening and molecular dynamics simulation of drug bank experimental compounds against SARS-CoV-2. Molecules. 2022;27(14):4391.CrossRefPubMedPubMedCentral Alturki NA, et al. In-silico screening and molecular dynamics simulation of drug bank experimental compounds against SARS-CoV-2. Molecules. 2022;27(14):4391.CrossRefPubMedPubMedCentral
24.
Zurück zum Zitat Ramlal A, et al. From molecules to patients: the clinical applications of biological databases and electronic health records. In: Translational bioinformatics in healthcare and medicine. Cambridge: Academic Press; 2021. p. 107–25.CrossRef Ramlal A, et al. From molecules to patients: the clinical applications of biological databases and electronic health records. In: Translational bioinformatics in healthcare and medicine. Cambridge: Academic Press; 2021. p. 107–25.CrossRef
25.
Zurück zum Zitat Release S. LigPrep Schrödinger. New York: LLC; 2017. Release S. LigPrep Schrödinger. New York: LLC; 2017.
26.
Zurück zum Zitat Jorgensen WL, Tirado-Rives J. The OPLS [optimized potentials for liquid simulations] potential functions for proteins, energy minimizations for crystals of cyclic peptides and crambin. J Am Chem Soc. 1988;110(6):1657–66.CrossRefPubMed Jorgensen WL, Tirado-Rives J. The OPLS [optimized potentials for liquid simulations] potential functions for proteins, energy minimizations for crystals of cyclic peptides and crambin. J Am Chem Soc. 1988;110(6):1657–66.CrossRefPubMed
27.
Zurück zum Zitat Shivakumar D, et al. Prediction of absolute solvation free energies using molecular dynamics free energy perturbation and the OPLS force field. J Chem Theory Comput. 2010;6(5):1509–19.CrossRefPubMed Shivakumar D, et al. Prediction of absolute solvation free energies using molecular dynamics free energy perturbation and the OPLS force field. J Chem Theory Comput. 2010;6(5):1509–19.CrossRefPubMed
28.
Zurück zum Zitat Shelley JC, et al. Epik: a software program for pK a prediction and protonation state generation for drug-like molecules. J Comput Aided Mol Des. 2007;21:681–91.CrossRefPubMed Shelley JC, et al. Epik: a software program for pK a prediction and protonation state generation for drug-like molecules. J Comput Aided Mol Des. 2007;21:681–91.CrossRefPubMed
29.
Zurück zum Zitat Greenwood JR, et al. Towards the comprehensive, rapid, and accurate prediction of the favorable tautomeric states of drug-like molecules in aqueous solution. J Comput Aided Mol Des. 2010;24(6–7):591–604.CrossRefPubMed Greenwood JR, et al. Towards the comprehensive, rapid, and accurate prediction of the favorable tautomeric states of drug-like molecules in aqueous solution. J Comput Aided Mol Des. 2010;24(6–7):591–604.CrossRefPubMed
30.
Zurück zum Zitat Rose PW, et al. The RCSB protein data bank: integrative view of protein, gene and 3D structural information. Nucleic Acids Res. 2016;2016:1000. Rose PW, et al. The RCSB protein data bank: integrative view of protein, gene and 3D structural information. Nucleic Acids Res. 2016;2016:1000.
31.
Zurück zum Zitat Yang M, et al. Insights into mad2 regulation in the spindle checkpoint revealed by the crystal structure of the symmetric mad2 dimer. PLoS Biol. 2008;6(3):e50.CrossRefPubMedPubMedCentral Yang M, et al. Insights into mad2 regulation in the spindle checkpoint revealed by the crystal structure of the symmetric mad2 dimer. PLoS Biol. 2008;6(3):e50.CrossRefPubMedPubMedCentral
32.
Zurück zum Zitat Suwa Y, et al. Crystal structure of the human Pol α B subunit in complex with the C-terminal domain of the catalytic subunit. J Biol Chem. 2015;290(23):14328–37.CrossRefPubMedPubMedCentral Suwa Y, et al. Crystal structure of the human Pol α B subunit in complex with the C-terminal domain of the catalytic subunit. J Biol Chem. 2015;290(23):14328–37.CrossRefPubMedPubMedCentral
33.
Zurück zum Zitat D’Arcy S, et al. Defining the molecular basis of BubR1 kinetochore interactions and APC/C-CDC20 inhibition. J Biol Chem. 2010;285(19):14764–76.CrossRefPubMedPubMedCentral D’Arcy S, et al. Defining the molecular basis of BubR1 kinetochore interactions and APC/C-CDC20 inhibition. J Biol Chem. 2010;285(19):14764–76.CrossRefPubMedPubMedCentral
35.
Zurück zum Zitat Maestro S. Maestro. Schrödinger. New York: LLC; 2020. Maestro S. Maestro. Schrödinger. New York: LLC; 2020.
36.
Zurück zum Zitat Release S. Schrödinger suite 2017–1 protein preparation Wizard Epik Schrödinger. New York: LLC; 2017. Release S. Schrödinger suite 2017–1 protein preparation Wizard Epik Schrödinger. New York: LLC; 2017.
37.
Zurück zum Zitat Alzamami A, et al. Hemi-Babim and fenoterol as potential inhibitors of MPro and papain-like protease against SARS-CoV-2: an in-silico study. Medicina. 2022;58(4):515.CrossRefPubMedPubMedCentral Alzamami A, et al. Hemi-Babim and fenoterol as potential inhibitors of MPro and papain-like protease against SARS-CoV-2: an in-silico study. Medicina. 2022;58(4):515.CrossRefPubMedPubMedCentral
38.
Zurück zum Zitat Karwasra R, et al. Macrophage-targeted punicalagin nanoengineering to alleviate methotrexate-induced neutropenia: a molecular docking, DFT, and MD simulation analysis. Molecules. 2022;27(18):6034.CrossRefPubMedPubMedCentral Karwasra R, et al. Macrophage-targeted punicalagin nanoengineering to alleviate methotrexate-induced neutropenia: a molecular docking, DFT, and MD simulation analysis. Molecules. 2022;27(18):6034.CrossRefPubMedPubMedCentral
39.
Zurück zum Zitat Kaul T, et al. Probing the effect of a plus 1bp frameshift mutation in protein-DNA interface of domestication gene, NAMB1, in wheat. J Biomol Struct Dyn. 2019;38(12):3633–47.CrossRefPubMed Kaul T, et al. Probing the effect of a plus 1bp frameshift mutation in protein-DNA interface of domestication gene, NAMB1, in wheat. J Biomol Struct Dyn. 2019;38(12):3633–47.CrossRefPubMed
40.
Zurück zum Zitat Jacobson MP, et al. A hierarchical approach to all-atom protein loop prediction. Proteins. 2004;55(2):351–67.CrossRefPubMed Jacobson MP, et al. A hierarchical approach to all-atom protein loop prediction. Proteins. 2004;55(2):351–67.CrossRefPubMed
41.
Zurück zum Zitat Release S. Receptor grid generation Schrödinger. New York: LLC; 2019. Release S. Receptor grid generation Schrödinger. New York: LLC; 2019.
42.
Zurück zum Zitat Release S. Glide: Schrödinger. New York: LLC; 2020. Release S. Glide: Schrödinger. New York: LLC; 2020.
43.
Zurück zum Zitat QikProp S. Schrödinger release 2017. New York: Maestro LLC; 2017. QikProp S. Schrödinger release 2017. New York: Maestro LLC; 2017.
44.
Zurück zum Zitat Lipinski CA. Lead-and drug-like compounds: the rule-of-five revolution. Drug Discov Today Technol. 2004;1(4):337–41.CrossRefPubMed Lipinski CA. Lead-and drug-like compounds: the rule-of-five revolution. Drug Discov Today Technol. 2004;1(4):337–41.CrossRefPubMed
45.
46.
Zurück zum Zitat Mark P, Nilsson L. Structure and dynamics of the TIP3P, SPC, and SPC/E water models at 298 K. J Phys Chem A. 2001;105(43):9954–60.CrossRef Mark P, Nilsson L. Structure and dynamics of the TIP3P, SPC, and SPC/E water models at 298 K. J Phys Chem A. 2001;105(43):9954–60.CrossRef
47.
Zurück zum Zitat McDonald I. NpT-ensemble Monte Carlo calculations for binary liquid mixtures. Mol Phys. 1972;23(1):41–58.CrossRef McDonald I. NpT-ensemble Monte Carlo calculations for binary liquid mixtures. Mol Phys. 1972;23(1):41–58.CrossRef
48.
Zurück zum Zitat Neuhaus O, Kieseier BC, Hartung H-P. Mitoxantrone (Novantrone®) in multiple sclerosis: new insights. Expert Rev Neurother. 2004;4(1):17–26.CrossRefPubMed Neuhaus O, Kieseier BC, Hartung H-P. Mitoxantrone (Novantrone®) in multiple sclerosis: new insights. Expert Rev Neurother. 2004;4(1):17–26.CrossRefPubMed
Metadaten
Titel
Multitargeted inhibitory effect of Mitoxantrone 2HCl on cervical cancer cell cycle regulatory proteins: a multitargeted docking-based MM\GBSA and MD simulation study
verfasst von
Mohammed Ali Alshehri
Saeed Ahmed Asiri
Abdulrahman Alzahrani
Reem S. Alazragi
Leena S. Alqahtani
Amany I. Alqosaibi
Mashael M. Alnamshan
Qamre Alam
Misbahuddin M. Rafeeq
Publikationsdatum
01.11.2023
Verlag
Springer US
Erschienen in
Medical Oncology / Ausgabe 11/2023
Print ISSN: 1357-0560
Elektronische ISSN: 1559-131X
DOI
https://doi.org/10.1007/s12032-023-02203-6

Weitere Artikel der Ausgabe 11/2023

Medical Oncology 11/2023 Zur Ausgabe

Erhebliches Risiko für Kehlkopfkrebs bei mäßiger Dysplasie

29.05.2024 Larynxkarzinom Nachrichten

Fast ein Viertel der Personen mit mäßig dysplastischen Stimmlippenläsionen entwickelt einen Kehlkopftumor. Solche Personen benötigen daher eine besonders enge ärztliche Überwachung.

15% bedauern gewählte Blasenkrebs-Therapie

29.05.2024 Urothelkarzinom Nachrichten

Ob Patienten und Patientinnen mit neu diagnostiziertem Blasenkrebs ein Jahr später Bedauern über die Therapieentscheidung empfinden, wird einer Studie aus England zufolge von der Radikalität und dem Erfolg des Eingriffs beeinflusst.

Erhöhtes Risiko fürs Herz unter Checkpointhemmer-Therapie

28.05.2024 Nebenwirkungen der Krebstherapie Nachrichten

Kardiotoxische Nebenwirkungen einer Therapie mit Immuncheckpointhemmern mögen selten sein – wenn sie aber auftreten, wird es für Patienten oft lebensgefährlich. Voruntersuchung und Monitoring sind daher obligat.

Costims – das nächste heiße Ding in der Krebstherapie?

28.05.2024 Onkologische Immuntherapie Nachrichten

„Kalte“ Tumoren werden heiß – CD28-kostimulatorische Antikörper sollen dies ermöglichen. Am besten könnten diese in Kombination mit BiTEs und Checkpointhemmern wirken. Erste klinische Studien laufen bereits.

Update Onkologie

Bestellen Sie unseren Fach-Newsletter und bleiben Sie gut informiert.