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Εξειδίκευση τύπου : Άρθρο σε επιστημονικό περιοδικό
Τίτλος: Computational design of novel fullerene analogues as potential HIV-1 PR inhibitors: Analysis of the binding interactions between fullerene inhibitors and HIV-1 PR residues using 3D QSAR, molecular docking and molecular dynamics simulations
Δημιουργός/Συγγραφέας: Durdagi, Serdar
[EL] Μαυρομούστακος, Θωμάς[EN] Mavromoustakos, Thomassemantics logo
Chronakis, Nikos
[EL] Παπαδόπουλος, Μάνθος Γ.[EN] Papadopoulos, Manthos G.semantics logo
Εκδότης: Pergamon
Τόπος έκδοσης: OXFORD
Ημερομηνία: 2008-12-01
Γλώσσα: Αγγλικά
ISBN: 0968-0896
DOI: 10.1016/j.bmc.2008.10.039
Περίληψη: A series of experimentally reported as well as computationally designed monoadducts and bisadducts of [60] fullerene analogues have been used in order to analyze the binding interactions between fullerene based inhibitors and HIV-1 PR employing docking studies. MD simulations of ligand-free and the inhibitor bound HIV-1 PR systems complemented the above studies and provided proper input structure of HIV-1 PR in docking simulations. The obtained results revealed a different orientation of the beta-hairpin flaps at these two systems. In inhibitor bound system, the flaps of the enzyme are pulled in toward the bottom of the active site (the closed form) while, in ligand-free system flaps shifted away from the dual Asp25 catalytic site and this system adopts a semi-open form. The structural analysis of these systems at catalytic and flexible flap regions of the HIV-1 PR through the simulation, assisted in understanding the structural preferences of these regions, as well as, the adopted orientations of fullerene derivatives within the active site of the enzyme. Five different combinations of steroelectronic fields of 3D QSAR/CoMSIA models were obtained from the set of biologically evaluated and computationally designed fullerene derivatives (training set = 43, test set = 6) in order to predict novel compounds with improved inhibition effect. The best 3D QSAR/CoMSIA model yielded a cross validated r(2) value of 0.739 and a non-cross validated r(2) value of 0.993. The derived model indicated the importance of steric (42.6%), electrostatic (12.7%), H-bond donor (16.7%) and H-bond acceptor (28.0%) contributions. The derived contour plots together with de novo drug design were then used as pilot models for proposing the novel analogues with enhanced binding affinities. Such structures may trigger the interest of medicinal chemists for novel HIV-1 PR inhibitors possessing higher bioactivity.
Τίτλος πηγής δημοσίευσης: Bioorganic & Medicinal Chemistry
Τόμος/Κεφάλαιο: 16
Τεύχος: 23
Σελίδες: 9957-9974
Θεματική Κατηγορία: [EL] Βιολογία (Γενικά)[EN] Biology (General)semantics logo
[EL] Χημεία (Γενικά)[EN] Chemistry (General)semantics logo
[EL] Οργανική χημεία[EN] Organic chemistrysemantics logo
[EL] Φαρμακευτική[EN] Pharmacy and materia medicasemantics logo
Λέξεις-Κλειδιά: HIV-1 PR
Fullerene derivatives
3D QSAR
CoMSIA
Molecular docking
Molecular dynamics simulations
LeapFrog de novo drug design
Chemistry, Medicinal
Αξιολόγηση από ομότιμους (peer reviewed): Ναι
Κάτοχος πνευματικών δικαιωμάτων: © 2008 Elsevier Ltd. All rights reserved.
Ηλεκτρονική διεύθυνση περιοδικού (link) : http://www.elsevier.com/locate/bmc
ΙΒΦΧΒ: αρχειακή συλλογή: Ινστιτούτο Οργανικής και Φαρμακευτικής Χημείας (ΙΟΦΧ) (έως 2012)
Εμφανίζεται στις συλλογές:Ινστιτούτο Χημικής Βιολογίας - Επιστημονικό έργο

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