All-atom simulations to studying metallodrugs/target interactions

被引:22
|
作者
Janos, Pavel [1 ]
Spinello, Angelo [1 ]
Magistrato, Alessandra [1 ]
机构
[1] SISSA, CNR, IOM, Via Bonomea 265, I-34136 Trieste, Italy
关键词
Molecular dynamics; QM; MM; Metallo-drugs; Cisplatin; Ruthenium; drugs; Gold drugs; Metallo-drug discovery; MOLECULAR-DYNAMICS SIMULATIONS; CISPLATIN BINDING; ANTICANCER DRUGS; DNA; MECHANISM; INSIGHTS; PROTEIN; CANCER; INHIBITION; AURANOFIN;
D O I
10.1016/j.cbpa.2020.07.005
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
Metallodrugs are extensively used to treat and diagnose distinct disease types. The unique physical?chemical proper-ties of metal ions offer tantalizing opportunities to tailor effec-tive scaffolds for selectively targeting specific biomolecules. Modern experimental techniques have collected a large body of structural data concerning the interactions of metallodrugs with their biomolecular targets, although being unable to exhaustively assess the molecular basis of their mechanism of action. In this scenario, the complementary use of accurate compu-tational methods allows uncovering the minutiae of metal-lodrugs/targets interactions and their underlying mechanism of action at an atomic-level of detail. This knowledge is increas-ingly perceived as an invaluable requirement to rationally devise novel and selective metallodrugs. Building on literature studies, selected largely from the last 2 years, this compen-dium encompasses a cross-section of the current role, ad-vances, and challenges met by computer simulations to decipher the mechanistic intricacies of prototypical metallodrugs.
引用
收藏
页码:1 / 8
页数:8
相关论文
共 50 条
  • [1] All-atom virus simulations
    Hadden, Jodi A.
    Perilla, Juan R.
    CURRENT OPINION IN VIROLOGY, 2018, 31 : 82 - 91
  • [2] All-atom simulations of biomolecular crystals
    Case, David A.
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2013, 246
  • [3] Improving charge-charge interactions in all-atom explicit solvent simulations
    Ivanovic, Milos T.
    von Roten, Valentin
    Holla, Andrea
    Schuler, Benjamin
    Best, Robert B.
    BIOPHYSICAL JOURNAL, 2024, 123 (03) : 422A - 422A
  • [4] All-atom simulations of protein folding and unfolding
    Day, R
    Daggett, V
    PROTEIN SIMULATIONS, 2003, 66 : 373 - 403
  • [5] Studying Conformational Changes of Mhp1 using Unbiased All-Atom Molecular Simulations
    Khakbaz, Pouyan
    Klauda, Jeffery B.
    BIOPHYSICAL JOURNAL, 2014, 106 (02) : 412A - 412A
  • [6] Studying Peptide Aggregation using Mixed All-Atom/Coarse Grain Molecular Dynamics Simulations
    Shelley, John C.
    Shelley, Mee
    Selvan, Myvizhi Esai
    Zhao, Jun
    Babin, Volodymyr
    Liao, Chenyi
    Li, Jianing
    BIOPHYSICAL JOURNAL, 2017, 112 (03) : 198A - 198A
  • [7] All-Atom Simulations Elucidate the Molecular Mechanism Underlying RNA-Membrane Interactions
    Di Marco, Salvatore
    Aupic, Jana
    Bussi, Giovanni
    Magistrato, Alessandra
    NANO LETTERS, 2025, 25 (11) : 4628 - 4635
  • [8] Benchmarking all-atom simulations using hydrogen exchange
    Skinner, John J.
    Yu, Wookyung
    Gichana, Elizabeth K.
    Baxa, Michael C.
    Hinshaw, James R.
    Freed, Karl F.
    Sosnick, Tobin R.
    PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2014, 111 (45) : 15975 - 15980
  • [9] A Review on Brittle Fracture Nanomechanics by All-Atom Simulations
    Patil, Sandeep P.
    Heider, Yousef
    NANOMATERIALS, 2019, 9 (07)
  • [10] All-Atom Molecular Dynamics Simulations of Whole Viruses
    Tarasova, Elvira
    Nerukh, Dmitry
    JOURNAL OF PHYSICAL CHEMISTRY LETTERS, 2018, 9 (19): : 5805 - 5809