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  1. Article ; Online: Computational Analysis of Triazole-Based Kojic Acid Analogs as Tyrosinase Inhibitors by Molecular Dynamics and Free Energy Calculations.

    Martins, Lucas Sousa / Gonçalves, Reinaldo W A / Moraes, Joana J S / Alves, Cláudio Nahum / Silva, José Rogério A

    Molecules (Basel, Switzerland)

    2022  Volume 27, Issue 23

    Abstract: Molecular docking, molecular dynamics (MD) simulations and the linear interaction energy (LIE) method were used here to predict binding modes and free energy for a set of 1,2,3-triazole-based KA analogs as potent inhibitors of Tyrosinase (TYR), a key ... ...

    Abstract Molecular docking, molecular dynamics (MD) simulations and the linear interaction energy (LIE) method were used here to predict binding modes and free energy for a set of 1,2,3-triazole-based KA analogs as potent inhibitors of Tyrosinase (TYR), a key metalloenzyme of the melanogenesis process. Initially, molecular docking calculations satisfactorily predicted the binding mode of evaluated KA analogs, where the KA part overlays the crystal conformation of the KA inhibitor into the catalytic site of TYR. The MD simulations were followed by the LIE method, which reproduced the experimental binding free energies for KA analogs with an
    Language English
    Publishing date 2022-11-23
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 1413402-0
    ISSN 1420-3049 ; 1431-5165 ; 1420-3049
    ISSN (online) 1420-3049
    ISSN 1431-5165 ; 1420-3049
    DOI 10.3390/molecules27238141
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Evaluating the Performance of a Non-Bonded Cu

    Martins, Lucas Sousa / Lameira, Jerônimo / Kruger, Hendrik G / Alves, Cláudio Nahum / Silva, José Rogério A

    International journal of molecular sciences

    2020  Volume 21, Issue 13

    Abstract: Tyrosinase (TYR) is a metalloenzyme classified as a type-3 copper protein, which is involved in the synthesis of melanin through a catalytic process beginning with the conversion of the amino acid l-Tyrosine (l-Tyr) to l-3,4-dihydroxyphenylalanine (l- ... ...

    Abstract Tyrosinase (TYR) is a metalloenzyme classified as a type-3 copper protein, which is involved in the synthesis of melanin through a catalytic process beginning with the conversion of the amino acid l-Tyrosine (l-Tyr) to l-3,4-dihydroxyphenylalanine (l-DOPA). It plays an important role in the mechanism of melanogenesis in various organisms including mammals, plants, and fungi. Herein, we used a combination of computational molecular modeling techniques including molecular dynamic (MD) simulations and the linear interaction energy (LIE) model to evaluate the binding free energy of a set of analogs of kojic acid (KA) in complex with TYR. For the MD simulations, we used a dummy model including the description of the Jahn-Teller effect for Cu
    MeSH term(s) Bacillus megaterium/enzymology ; Catalytic Domain ; Copper/chemistry ; Enzyme Inhibitors/chemistry ; Models, Molecular ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Monophenol Monooxygenase/chemistry ; Monophenol Monooxygenase/metabolism ; Pyrones/chemistry
    Chemical Substances Enzyme Inhibitors ; Pyrones ; kojic acid (6K23F1TT52) ; Copper (789U1901C5) ; Monophenol Monooxygenase (EC 1.14.18.1)
    Language English
    Publishing date 2020-07-06
    Publishing country Switzerland
    Document type Evaluation Study ; Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms21134783
    Database MEDical Literature Analysis and Retrieval System OnLINE

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