Insight into ligand selectivity in HCV NS5B polymerase: molecular dynamics simulations, free energy decomposition and docking

scientific article

Insight into ligand selectivity in HCV NS5B polymerase: molecular dynamics simulations, free energy decomposition and docking is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1007/S00894-009-0519-9
P2888exact matchhttps://scigraph.springernature.com/pub.10.1007/s00894-009-0519-9
P698PubMed publication ID19466613
P5875ResearchGate publication ID26238174

P50authorPiet HerdewijnQ55127499
P2093author name stringTong Li
Matheus Froeyen
P2860cites workThe Protein Data BankQ24515306
Selection and Characterization of Replicon Variants Dually Resistant to Thumb- and Palm-Binding Nonnucleoside Polymerase Inhibitors of the Hepatitis C VirusQ27473236
Resistance Profile of a Hepatitis C Virus RNA-Dependent RNA Polymerase Benzothiadiazine InhibitorQ27486873
Crystal structure of the RNA-dependent RNA polymerase from hepatitis C virus reveals a fully encircled active siteQ27619818
Optimization of novel acyl pyrrolidine inhibitors of hepatitis C virus RNA-dependent RNA polymerase leading to a development candidateQ27643711
Identification of anthranilic acid derivatives as a novel class of allosteric inhibitors of hepatitis C NS5B polymeraseQ27644326
UCSF Chimera--a visualization system for exploratory research and analysisQ27860666
Satisfying hydrogen bonding potential in proteinsQ27860940
LIGPLOT: a program to generate schematic diagrams of protein-ligand interactionsQ27861128
The design of drugs for HIV and HCVQ28259321
A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculationsQ29547632
Development and testing of a general amber force fieldQ29547642
A semiempirical free energy force field with charge-based desolvationQ29614316
Python: a programming language for software integration and developmentQ29614317
Docking ligands into flexible and solvated macromolecules. 2. Development and application of fitted 1.5 to the virtual screening of potential HCV polymerase inhibitorsQ33323904
The way forward in HCV treatment--finding the right pathQ34008483
The many roles of computation in drug discoveryQ34307063
Control of hepatitis C: a medicinal chemistry perspectiveQ36000824
Comparing protein-ligand docking programs is difficult.Q36152993
HCV antiviral resistance: the impact of in vitro studies on the development of antiviral agents targeting the viral NS5B polymeraseQ36244361
Advances in the development of new therapeutic agents targeting the NS3-4A serine protease or the NS5B RNA-dependent RNA polymerase of the hepatitis C virusQ36942369
Computational alanine scanning and free energy decomposition for E. coli type I signal peptidase with lipopeptide inhibitor complexQ40209158
Comparative evaluation of 11 scoring functions for molecular dockingQ44457437
Protein flexibility in ligand docking and virtual screening to protein kinases.Q44786754
Discovery of proline sulfonamides as potent and selective hepatitis C virus NS5b polymerase inhibitors. Evidence for a new NS5b polymerase binding siteQ45416387
Free energy calculations on dimer stability of the HIV protease using molecular dynamics and a continuum solvent modelQ46045309
Inhibitors of HCV NS5B polymerase. Part 1: Evaluation of the southern region of (2Z)-2-(benzoylamino)-3-(5-phenyl-2-furyl)acrylic acid.Q46465485
Molecular dynamics and free energy studies on the wild-type and double mutant HIV-1 protease complexed with amprenavir and two amprenavir-related inhibitors: mechanism for binding and drug resistanceQ46523471
Rapid and accurate prediction of binding free energies for saquinavir-bound HIV-1 proteases.Q46787614
Assessing scoring functions for protein-ligand interactionsQ47429905
Structure-aided drug design's next generationQ47662264
Structure-based drug designQ57206166
P433issue1
P921main subjectmolecular dynamics simulationQ901663
P304page(s)49-59
P577publication date2009-05-26
P1433published inJournal of Molecular ModelingQ1709860
P1476titleInsight into ligand selectivity in HCV NS5B polymerase: molecular dynamics simulations, free energy decomposition and docking
P478volume16

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cites work (P2860)
Q37894718Allosteric inhibition of the hepatitis C virus NS5B polymerase: in silico strategies for drug discovery and development
Q50277392Artocarpus altilis CG-901 alters critical nodes in the JH1-kinase domain of Janus kinase 2 affecting upstream JAK/STAT3 signaling.
Q85679997Computational study enlightens the structural role of the alcohol acyltransferase DFGWG motif
Q42228191Exploiting ChEMBL database to identify indole analogs as HCV replication inhibitors
Q38477601Free energy calculation using molecular dynamics simulation combined with the three-dimensional reference interaction site model theory. II. Thermodynamic integration along a spatial reaction coordinate
Q34530512Multiple virtual screening approaches for finding new hepatitis C virus RNA-dependent RNA polymerase inhibitors: structure-based screens and molecular dynamics for the pursue of new poly pharmacological inhibitors
Q41681901Searching for anthranilic acid-based thumb pocket 2 HCV NS5B polymerase inhibitors through a combination of molecular docking, 3D-QSAR and virtual screening
Q42751041Structure prediction, molecular dynamics simulation and docking studies of D-specific dehalogenase from Rhizobium sp. RC1
Q33631936Structure-based virtual screening, synthesis and SAR of novel inhibitors of hepatitis C virus NS5B polymerase.

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