ZINC database explained
| Scope: | Commercially available and annotated small molecules for virtual screening |
| Center: | University of California San Francisco |
| Laboratory: | Irwin Lab
Shoichet Lab |
| Author: | John Irwin, Brian Shoichet, and a cast of several |
| Released: | 2004 |
| Url: | ZINC |
| Pmid: | 26479676 |
| License: | ZINC is free to use for everyone. Redistribution of significant subsets requires written permission from the authors. |
| Versioning: | ZINC-22 |
| Frequency: | continuously updated; static subsets regenerated quarterly or better. |
| Curation: | continuously curated |
The ZINC database (recursive acronym: ZINC is not commercial) is a curated collection of commercially available chemical compounds prepared especially for virtual screening. ZINC is used by investigators (generally people with training as biologists or chemists) in pharmaceutical companies, biotechnology companies, and research universities.[1] [2] [3]
Scope and access
ZINC is different from other chemical databases because it aims to represent the biologically relevant, three dimensional form of the molecule.
Curation and updates
ZINC is updated regularly and may be downloaded and used free of charge. It is developed by John Irwin in the Shoichet Laboratory in the Department of Pharmaceutical Chemistry at the University of California, San Francisco.
Version
The latest release of the website interface is "ZINC-22". The database is continuously updated and is claimed to contain over 37 billion commercially available molecules.[4]
Uses
The database is typically used for molecule mining, a process in which Quantitative structure–activity relationships are used to find new compounds with improved biological activity, given a known starting point found, for example, by high-throughput screening.[5] [6]
See also
- PubChem a database of small molecules from the chemical and biological literature, hosted by NCBI
- ChEMBL, a database of information about medicinal chemistry and biological activities of small molecules.
External links
Notes and References
- 10.1093/nar/gks378 . free . ZINCPharmer: Pharmacophore search of the ZINC database . 2012 . Koes . D. R. . Camacho . C. J. . Nucleic Acids Research . 40 . W409–W414 . 22553363 .
- 10.1080/14756366.2018.1458031 . free . Novel hits for acetylcholinesterase inhibition derived by docking-based screening on ZINC database . 2018 . Doytchinova . Irini . Atanasova . Mariyana . Valkova . Iva . Stavrakov . Georgi . Philipova . Irena . Zhivkova . Zvetanka . Zheleva-Dimitrova . Dimitrina . Konstantinov . Spiro . Dimitrov . Ivan . 3 . Journal of Enzyme Inhibition and Medicinal Chemistry . 33 . 1 . 768–776 . 29651876 . 6010092 .
- 10.1142/S2737416522500466 . In silico High-Throughput Screening of ZINC Database of Natural Compounds to Identify Novel Histone Deacetylase Inhibitors . 2023 . Olawale . Femi . Iwaloye . Opeyemi . Folorunso . Ibukun Mary . Shityakov . Sergey . Journal of Computational Biophysics and Chemistry . 22 . 1 . 11–30 . 2023JCBC...22...11O .
- 10.1021/acs.jcim.2c01253 . free . ZINC-22─A Free Multi-Billion-Scale Database of Tangible Compounds for Ligand Discovery . 2023 . Tingle . Benjamin I. . Tang . Khanh G. . Castanon . Mar . Gutierrez . John J. . Khurelbaatar . Munkhzul . Dandarchuluun . Chinzorig . Moroz . Yurii S. . Irwin . John J. . Journal of Chemical Information and Modeling . 63 . 4 . 1166–1176 . 36790087 . 9976280 .
- 10.1186/s13321-014-0051-5 . free . Stereoselective virtual screening of the ZINC database using atom pair 3D-fingerprints . 2015 . Awale . Mahendra . Jin . Xian . Reymond . Jean-Louis . Journal of Cheminformatics . 7 . 25750664 . 4352573 .
- 10.1016/j.steroids.2023.109309 . Mining the ZINC database of natural products for specific, testosterone-like, OXER1 antagonists . 2023 . Panagiotopoulos . Athanasios A. . Konstantinou . Evangelia . Pirintsos . Stergios A. . Castanas . Elias . Kampa . Marilena . 3 . Steroids . 199 . 37696380 .
