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ompenaclid   Click here for help

GtoPdb Ligand ID: 4707

Synonyms: β-GPA | β-guanidinopropionic acid | RGX-202 | RGX202
PDB Ligand
Compound class: Synthetic organic
Comment: Ompenaclid (RGX202) is a small molecule, competitive inhibitor of the human creatine transporter (SLC6A8) [3].
Not to be confused with the Duchenne muscular dystrophy gene therapy RGX-202.
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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 5
Hydrogen bond donors 3
Rotatable bonds 3
Topological polar surface area 101.7
Molecular weight 131.07
XLogP -1.3
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 OC(=O)CCN=C(N)N
Isomeric SMILES OC(=O)CCN=C(N)N
InChI InChI=1S/C4H9N3O2/c5-4(6)7-2-1-3(8)9/h1-2H2,(H,8,9)(H4,5,6,7)
InChI Key KMXXSJLYVJEBHI-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/)
Bioactivity Comments
Ompenaclid (RGX202) binds CT1 with an affinity similar to that of creatine [3].
Transporters Moving this Compound Across a Lipid Membrane
Transporter EC number Reaction Reference
Proton-coupled Amino acid Transporter 1 2
Selectivity at transporters
Key to terms and symbols Click column headers to sort
Target Sp. Type Action Value Parameter Concentration range (M) Reference
CT1 Hs Inhibitor Inhibition 5.5 pKd - 3
⤷ pKd 5.5 (Kd 3.39x10-6 M) [3]
Description: Determined by SPR
Targets where the ligand is described in the comment field
Target Comment
CT1 Functions as a creatine transporter in the brain and in muscles [3]. Deleterious mutations in SLC6A8 cause cerebral creatine deficiency syndrome 1 (CCDS1). Also exploited in some cancers to satisfy their high energy requirements. Cryo-EM structures of CT1 in apo, creatinine-bound and ompenaclid-bound states have been reported [3].
Ligand mentioned in the following text fields
GABA transporter subfamily comments