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RX-04A   Click here for help

GtoPdb Ligand ID: 14295

Synonyms: BV300
Compound class: Synthetic organic
Comment: RX-04A is a pyrrolocytosine, a novel class of antibacterial compounds designed to bind to the bacterial 50S ribosomal subunit [1].
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 12
Topological polar surface area 156.38
Molecular weight 642.69
XLogP 3.43
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
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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 C[C@@H](CCCC1=CC(=C(C(=C1)OC(F)(F)F)F)C2=CC3=CN(C4=CC=C(C=C4)[C@@H]5CCC[C@@H](CCN=C(N)N)N5)C(=O)N=C3N2)N
Isomeric SMILES C[C@@H](CCCC1=CC(=C(C(=C1)OC(F)(F)F)F)C2=CC3=CN(C(=O)N=C3N2)C4=CC=C(C=C4)[C@@H]5CCC[C@H](N5)CCN=C(N)N)N
InChI InChI=1S/C32H38F4N8O2/c1-18(37)4-2-5-19-14-24(28(33)27(15-19)46-32(34,35)36)26-16-21-17-44(31(45)43-29(21)42-26)23-10-8-20(9-11-23)25-7-3-6-22(41-25)12-13-40-30(38)39/h8-11,14-18,22,25,41H,2-7,12-13,37H2,1H3,(H4,38,39,40)(H,42,43,45)/t18-,22-,25-/m0/s1
InChI Key YRBAWBLJGSQCQB-PZGSVQSZSA-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
RX-04A has activity against a range of Gram-negative bacteria and retains potency against multidrug-resistant (MDR) clinical isolates [1].