benzosceptrin C   Click here for help

GtoPdb Ligand ID: 13127

Synonyms: compound 6 [PMID: 20166736]
Compound class: Natural product
Comment: Benzosceptrin C is a natural alkaloid compound that was originally isolated from the marine sponge Agelas dendromorpha [2]. It can also be produced synthetically [1].

Experimental evidence shows that benzosceptrin C acts directly on the palmitoylation enzyme ZDHHC3 (or simply DHHC3) [3], and that this inhibits palmitoylation of the immune checkpoint protein programmed cell death ligand-1 (PD-L1). The PD-L1 is then displaced from the membrane to the cytoplasm where it is ubiquitinated and directed towards lysosome-mediated degradation. By disrupting the programmed cell death-1 (PD-1)/PD-L1 axis in cancer cells benzosceptrin C is able to promote a T cell-mediated anti-tumour effect in vitro and in vivo. Hence benzosceptrin C is proposed as an alternative to monoclonal antibody-based anti-PD-L1 or anti-PD-1 immunotherapies (checkpoint inhibitors).
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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
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 12
Hydrogen bond donors 8
Rotatable bonds 8
Topological polar surface area 183.08
Molecular weight 774.06
XLogP 2.78
No. Lipinski's rules broken 3

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 C1=C(C(=O)NC[C@@H]2[C@@H](CNC(=O)C3=CC(=C(Br)N3)Br)C4=C2C5=C(C6=C4N=C(N)N6)NC(=N5)N)NC(=C1Br)Br
Isomeric SMILES C1=C(NC(=C1Br)Br)C(=O)NC[C@@H]2[C@H](C3=C2C4=C(C5=C3N=C(N5)N)NC(=N4)N)CNC(=O)C6=CC(=C(N6)Br)Br
InChI InChI=1S/C22H18Br4N10O2/c23-7-1-9(31-17(7)25)19(37)29-3-5-6(4-30-20(38)10-2-8(24)18(26)32-10)12-11(5)13-15(35-21(27)33-13)16-14(12)34-22(28)36-16/h1-2,5-6,31-32H,3-4H2,(H,29,37)(H,30,38)(H3,27,33,35)(H3,28,34,36)/t5-,6-/m1/s1
InChI Key ISLJSGNSELMNBP-PHDIDXHHSA-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
Synonyms Click here for help
compound 6 [PMID: 20166736]
Database Links Click here for help
ChEMBL Ligand CHEMBL1097933
GtoPdb PubChem SID 491299909
PubChem CID 44598334
Search Google for chemical match using the InChIKey ISLJSGNSELMNBP-PHDIDXHHSA-N
Search Google for chemicals with the same backbone ISLJSGNSELMNBP
UniChem Compound Search for chemical match using the InChIKey ISLJSGNSELMNBP-PHDIDXHHSA-N
UniChem Connectivity Search for chemical match using the InChIKey ISLJSGNSELMNBP-PHDIDXHHSA-N