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silibinin   Click here for help

GtoPdb Ligand ID: 12449

Synonyms: Silibinin A | Silybin | Silymarine I
Compound class: Natural product
Comment: Silibinin is a naturally occurring plant metabolite that is found in the milk thistle Silybum marianum. It has poor oral bioavailability. An analogue that has been chemically altered to maximise oral bioavailability and biological activity in models of metabolic dysfunction-associated steatohepatitis (MASH) has been reported [2].
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Ligand Activity Visualisation Charts

These are box plot that provide a unique visualisation, summarising all the activity data for a ligand taken from ChEMBL and GtoPdb across multiple targets and species. Click on a plot to see the median, interquartile range, low and high data points. A value of zero indicates that no data are available. A separate chart is created for each target, and where possible the algorithm tries to merge ChEMBL and GtoPdb targets by matching them on name and UniProt accession, for each available species. However, please note that inconsistency in naming of targets may lead to data for the same target being reported across multiple charts.

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View interactive charts of activity data across species

silibinin is commercially available from our sponsors

2D Structure
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2D Structure

An image of the ligand's 2D structure. For small molecules with SMILES these are drawn using the NCI/CADD Chemical Identifier Resolver. Click on the image to access the chemical structure search tool with the ligand pre-loaded in the structure editor. For other types of ligands, e.g. longer nucleotides and peptides, a manually drawn representation of the molecule may be provided.

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Physico-chemical Properties
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Physico-chemical Properties

Calculated molecular properties are available for small molecules and natural products (not peptides). Properties were generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/). All properties were selected to enable the prediction of the Lipinski Rule-of-Five profile or ‘druglikeness’ for each ligand. For more info on each category see the help pages.

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Hydrogen bond acceptors 10
Hydrogen bond donors 5
Rotatable bonds 4
Topological polar surface area 155.14
Molecular weight 482.44
XLogP 0.59
No. Lipinski's rules broken 0

Generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/)
SMILES / InChI / InChIKey
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SMILES / InChI / InChIKey

SMILES (Simplified Molecular Input Line Entry Specification) A specification for unambiguously describing the structure of chemical molecules using short ASCII strings. Canonical SMILES specify a unique representation of the 2D structure without chiral or isotopic specifications. Isomeric SMILES include chiral specification and isotopes.

Standard InChI (IUPAC International Chemical Identifier) and InChIKey InChI is a non-proprietary, standard, textual identifier for chemical substances designed to facilitate linking of information and database searching. An InChIKey is a simplified version of a full InChI, designed for easier web searching.

Generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/)

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Canonical SMILES COC1=CC(=CC=C1O)[C@@H]2[C@@H](CO)OC3=CC=C(C=C3O2)[C@@H]4[C@H](C(=O)C5=C(C=C(C=C5O)O)O4)O
Isomeric SMILES COC1=C(C=CC(=C1)[C@@H]2[C@H](OC3=C(O2)C=C(C=C3)[C@@H]4[C@H](C(=O)C5=C(C=C(C=C5O4)O)O)O)CO)O
InChI InChI=1S/C25H22O10/c1-32-17-6-11(2-4-14(17)28)24-20(10-26)33-16-5-3-12(7-18(16)34-24)25-23(31)22(30)21-15(29)8-13(27)9-19(21)35-25/h2-9,20,23-29,31H,10H2,1H3/t20-,23+,24-,25-/m1/s1
InChI Key SEBFKMXJBCUCAI-HKTJVKLFSA-N

Generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/)
Classification Click here for help
Compound class Natural product
IUPAC Name Click here for help
(2R,3R)-3,5,7-trihydroxy-2-[(2R,3R)-3-(4-hydroxy-3-methoxyphenyl)-2-(hydroxymethyl)-2,3-dihydro-1,4-benzodioxin-6-yl]-2,3-dihydrochromen-4-one
International Nonproprietary Names Click here for help
INN number INN
4107 silibinin
Synonyms Click here for help
Silibinin A | Silybin | Silymarine I
Database Links Click here for help
Specialist databases
GPCRdb Ligand silibinin
Other databases
BindingDB Ligand 50084982
ChEBI CHEBI:9144
DrugBank Ligand DB09298
GtoPdb PubChem SID 479821239
LIPID MAPS LMPK12140712
PubChem CID 31553
Search Google for chemical match using the InChIKey SEBFKMXJBCUCAI-HKTJVKLFSA-N
Search Google for chemicals with the same backbone SEBFKMXJBCUCAI
Search PubMed clinical trials silibinin
Search PubMed titles silibinin
Search PubMed titles/abstracts silibinin
UniChem Compound Search for chemical match using the InChIKey SEBFKMXJBCUCAI-HKTJVKLFSA-N
UniChem Connectivity Search for chemical match using the InChIKey SEBFKMXJBCUCAI-HKTJVKLFSA-N

Product suppliers

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Sponsored products disclaimer

Product supplier links are provided as a service to assist in identifying commercial suppliers of reagents that are mentioned on the IUPHAR/BPS Guide to PHARMACOLOGY database website, and do not imply their endorsement by NC-IUPHAR.

Links are provided in return for sponsorship, used to fund improvements to this database. The sponsorship account is managed and audited by the University of Edinburgh, a charitable body registered in Scotland, SC005336. If you are interested in sponsoring the database, please contact us.

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MedChemExpress
(±)-Silybin (links to external site)
Cat. No. HY-139637
Silybin A (links to external site)
Cat. No. HY-13748