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Structured Review

OpenEye Scientific Software Inc openeye/fred docking software
Openeye/Fred Docking Software, supplied by OpenEye Scientific Software Inc, 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/fred+docking+software/docking+software/pm38604018-93-13-12
Average 90 stars, based on 1 article reviews
openeye/fred docking software - by Bioz Stars, 2026-10
90/100 stars

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Related Articles

Binding Assay:

Article Title: Accelerating the Screening of Small Peptide Ligands by Combining Peptide-Protein Docking and Machine Learning
Article Snippet: .. The binding score was calculated using two different docking software, Openeye and AutodockFR suite, to have two different molecular docking approaches to confirm that the ML procedure was not software dependent [ , ]. .. The results of the binding score calculated by the two molecular docking software were reported in for Openeye (a) and for AutodockFR suite (b) in the form of gaussian distribution highlighting the two groups selected for the ML classification (20% better performers and 80% worse performers).

Software:

Article Title: Accelerating the Screening of Small Peptide Ligands by Combining Peptide-Protein Docking and Machine Learning
Article Snippet: .. The binding score was calculated using two different docking software, Openeye and AutodockFR suite, to have two different molecular docking approaches to confirm that the ML procedure was not software dependent [ , ]. .. The results of the binding score calculated by the two molecular docking software were reported in for Openeye (a) and for AutodockFR suite (b) in the form of gaussian distribution highlighting the two groups selected for the ML classification (20% better performers and 80% worse performers).

Article Title: SMMPPI: a machine learning-based approach for prediction of modulators of protein–protein interactions and its application for identification of novel inhibitors for RBD:hACE2 interactions in SARS-CoV-2
Article Snippet: It has been reported that residue GLN 493 makes significant contribution to binding affinity of RBD:hACE interaction and is a crucial determinant of higher binding affinity of RBD:hACE2 interaction in case of SARS-CoV-2 RBD compared with SARS-CoV [ ]. .. Hence, all 674 molecules were docked onto site 2 on RBD using the OpenEye Docking Software [ ] (Supplementary Methods, see Supplementary Data available online at http://bib.oxfordjournals.org/). ..

Article Title: MaRe: Processing Big Data with application containers on Apache Spark
Article Snippet: .. Academic license for docking software was provided by OpenEye Scienti c. ..

Article Title: Comparison of current docking tools for the simulation of inhibitor binding by the transmembrane domain of the sarco/endoplasmic reticulum calcium ATPase
Article Snippet: .. We are grateful to OpenEye Scientific Software and The Scripps Research Institute (Arthur Olson) for making their docking software available. ..

other:

Article Title: Discovery of two non-UDP-mimic inhibitors of O-GlcNAc transferase by screening a DNA-encoded library.
Article Snippet: The inhibition results were rationalized with docking studies performed by using the OpenEye/FRED docking software.

Article Title: MaRe: Processing Big Data with application containers on Apache Spark
Article Snippet: ::::::: Academic :::::: license :: for ::::::: docking ::::::: software :::: was ::::::: provided :: by ::::::: OpenEye :::::::: Scienti c.

Article Title: Using Chemoinformatics, Bioinformatics, and Bioassay to Predict and Explain the Antibacterial Activity of Nonantibiotic Food and Drug Administration Drugs.
Article Snippet: Discovering of new and effective antibiotics is a major issue facing scientists today.. Luckily, the development of computer science offers new methods to overcome this issue.. In this study, a set of computer software was used to predict the antibacterial activity of nonantibiotic Food and Drug Administration (FDA)approved drugs, and to explain their action by possible binding to well-known bacterial protein targets, along with testing their antibacterial activity against Gram-positive and Gram-negative bacteria.



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