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Yoda1   Click here for help

GtoPdb Ligand ID: 9817

Synonyms: Yoda 1
Compound class: Synthetic organic
Comment: Piezo1 channel activator
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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

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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 4
Hydrogen bond donors 0
Rotatable bonds 4
Topological polar surface area 105.1
Molecular weight 353.96
XLogP 3.9
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 Clc1cccc(c1CSc1nnc(s1)c1cnccn1)Cl
Isomeric SMILES Clc1cccc(c1CSc1nnc(s1)c1cnccn1)Cl
InChI InChI=1S/C13H8Cl2N4S2/c14-9-2-1-3-10(15)8(9)7-20-13-19-18-12(21-13)11-6-16-4-5-17-11/h1-6H,7H2
InChI Key BQNXBSYSQXSXPT-UHFFFAOYSA-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/)
Selectivity at ion channels
Key to terms and symbols Click column headers to sort
Target Sp. Type Action Value Parameter Concentration range (M) Reference
Piezo1 Mm Activator Activation 4.8 pEC50 - 3
⤷ pEC50 4.8 (EC50 1.71x10-5 M) [3]
Piezo1 Primary target of this compound Hs Activator Activation 4.6 pEC50 - 3
⤷ pEC50 4.6 (EC50 2.66x10-5 M) [3]
Targets where the ligand is described in the comment field
Target Comment
Piezo1 No small molecule or toxin binding sites are confirmed on the channel, although an interaction site for Yoda1 has been suggested. The evidence for selective activation is greatest for Yoda1 [1,4], but none of the activators is guaranteed to be selective and the selectivity achieved will likely depend on the concentration of the activator and the biological context in which it is administered. Yoda1 has low aqueous solubility, which may be a factor behind the range of pEC50s observed for it [2]. Analogues such as Yoda2 have better aqueous solubility. Yoda1, Yoda2, Yoda2b, Yaddle1 and Dooku1 are chemically related molecules (Yoda1 analogues). OB-1 is thought to inhibit the channels via stomatin like 3 (STOML3; Q8TAV4), with its effect taking up to 3 hours to occur [5].