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AUTODOCK GmbH monte carlo simulated annealing method
Monte Carlo Simulated Annealing Method, supplied by AUTODOCK GmbH, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/simulating+annealing+algorithm/monte+carlo+simulated+annealing+algorithm/pmc07306757-289-7-15
Average 90 stars, based on 1 article reviews
monte carlo simulated annealing method - by Bioz Stars, 2026-09
90/100 stars

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Article Title: Synthesis and molecular interaction study of a diphenolic hidrazinyl-thiazole compound with strong antioxidant and antiradical activity with HSA
Article Snippet: In this study we designed, synthesized and analyzed a water-soluble molecule presenting a good antioxidant and antiradical activity, namely Dihydroxy-Phenyl-Thiazol-Hydrazinium chloride (DPTH).. This molecule contains 2’,4’-dihydroxyphenyl and the 2-hydrazinyl-4-methyl-thiazole fragments linked through a hydrazone and having very good antiradical scavenging, antioxidant activity and a low chelation activity in the in vitro evaluations.. Knowing that, in the organism, the drugs are transported to the tissues generally bound to a plasma protein we, additionally, investigated its interaction with human serum albumin (HSA)-the main soluble protein in plasma capable of making complexes with various molecules, which deliver then, to the tissues.

Article Title: An extensive pharmacological evaluation of novel anti-nociceptive and IL-6 targeted anti-inflammatory guaiane-type sesquiterpenoids from Cinnamomum migao H. W. Li through in-depth in-vitro, ADMET, and molecular docking studies.
Article Snippet: AutoDock Vina utilizes a search algorithm called the Monte Carlo simulated annealing algorithm to explore the conformational space and find the most energetically favorable poses of ligands [35].

Article Title: Roles of Virtual Screening and Molecular Dynamics Simulations in Discovering and Understanding Antimalarial Drugs.
Article Snippet: This docking study employed simulated annealing Monte Carlo simulation using AutoDock 2.4.

Article Title: Human kidney stone matrix proteins alleviate hyperoxaluria induced renal stress by targeting cell-crystal interactions.
Article Snippet: Increased levels of urinary oxalate also known as hyperoxaluria, increase the likelihood of kidney stone formation through enhanced calcium oxalate (CaOx) crystallization.. The management of lithiatic renal pathology requires investigations at the initial macromolecular stages.. Hence, the current study was designed to unravel the protein make-up of human kidney stones and its impact on renal cells' altered proteome, induced as the consequence of CaOx injury.

Article Title: Identification of novel drug scaffolds for inhibition of SARS-CoV 3-Chymotrypsin-like protease using virtual and high-throughput screenings
Article Snippet: The RMSD for all frames was calculated using the ptraj module in Amber10 and the snapshots were clustered using the kclust program of the MMTools.64 Five small organic molecule probes, benzene, propane, methanol, acetate, and methylammonium were moved on the surface of the protein active site using 10,000 operations of the Monte Carlo simulated annealing algorithm as implemented in Autodock v4.0.

Article Title: 1H NMR spectroscopic characterization of inclusion complex of Desferrioxamine B chelator and β-Cyclodextrin
Article Snippet: In this work the complexation between desferioxamine B (DFOB), and β-Cyclodextrin (β-CD) in solution was investigated using H NMR spectroscopy.. Inclusion compound formation was confirmed by the upfield shifts of H3 and H5 protons, located inside the cavity of β-CD, and downfield shifts of some of the methylene protons of DFOB, observed during NMR titration experiments.. Using the continuous variation method, we determined a 1:1 stoichiometry and the association constant was calculated using a nonlinear least-square regression analysis implemented in CONSTEQ, a software developed in our group.

Article Title: In silico Nigellidine ( N. sativa ) bind to viral spike/active-sites of ACE1/2, AT1/2 to prevent COVID-19 induced vaso-tumult/vascular-damage/comorbidity
Article Snippet: Autodock follows the Monte Carlo Simulated Annealing (SA), Genetic Algorithm (GA) specifically Lamarckian Genetic Algorithm (LGA).

Software:

Article Title: Voltage-dependent structural models of the human Hv1 proton channel from long-timescale molecular dynamics simulations
Article Snippet: .. Docking calculations were performed by using a Monte Carlo simulated annealing method implemented in the AutoDock Vina software package ( 66 ). ..



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