GtoPdb is requesting financial support from commercial users. Please see our sustainability page for more information.

mangiferin   Click here for help

GtoPdb Ligand ID: 13843

PDB Ligand
Compound class: Natural product
Comment: Mangiferin is a naturally ocurring compound that has been isolated from plants including Polygala tenuifolia. It has proposed hypoglycemic, antioxidant, an anti-inflammatory activities but information supportive of action at defined molecular targets is limited.
mangiferin has been identified as a competitive inhibitor of aldo-keto reductase family 1 member B (AKR1B1). This may underlie its role in lipid metabolism and lipid dysregulation in pathological conditions such as diabetic neuropathy, that are driven by advanced glycation end products (AGEs); Sharda et al., in review). Docking and molecular dynamics simulations have indicated that mangiferin can bind within the AKR1B1 substrate-binding cavity, and this is supported by biochemical assessment of enzymatic activity and binding affinity studies.
Click here for help

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.

✖

View interactive charts of activity data across species
2D Structure
Click here for help

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.

✖
Click here for structure editor
Physico-chemical Properties
Click here for help

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.

✖
Hydrogen bond acceptors 11
Hydrogen bond donors 8
Rotatable bonds 2
Topological polar surface area 197.37
Molecular weight 422.34
XLogP -0.9
No. Lipinski's rules broken 2

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
Click here for help

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/)

✖
Canonical SMILES C1=C(C(=CC2=C1C(=O)C3=C(C(=C(C=C3O2)O)[C@H]4[C@@H]([C@H]([C@@H]([C@@H](CO)O4)O)O)O)O)O)O
Isomeric SMILES C1=C2C(=CC(=C1O)O)OC3=C(C2=O)C(=C(C(=C3)O)[C@H]4[C@@H]([C@H]([C@@H]([C@H](O4)CO)O)O)O)O
InChI InChI=1S/C19H18O11/c20-4-11-15(25)17(27)18(28)19(30-11)12-8(23)3-10-13(16(12)26)14(24)5-1-6(21)7(22)2-9(5)29-10/h1-3,11,15,17-23,25-28H,4H2/t11-,15-,17+,18-,19+/m1/s1
InChI Key AEDDIBAIWPIIBD-ZJKJAXBQSA-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
1,3,6,7-tetrahydroxy-2-[(2S,3R,4R,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]xanthen-9-one
Database Links Click here for help
CAS Registry No. 4773-96-0 (source: PubChem)
ChEBI CHEBI:6682
ChEMBL Ligand CHEMBL464825
GtoPdb PubChem SID 513757528
PubChem CID 5281647
RCSB PDB Ligand HZI
Search Google for chemical match using the InChIKey AEDDIBAIWPIIBD-ZJKJAXBQSA-N
Search Google for chemicals with the same backbone AEDDIBAIWPIIBD
UniChem Compound Search for chemical match using the InChIKey AEDDIBAIWPIIBD-ZJKJAXBQSA-N
UniChem Connectivity Search for chemical match using the InChIKey AEDDIBAIWPIIBD-ZJKJAXBQSA-N