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platensimycin   Click here for help

GtoPdb Ligand ID: 14539

PDB Ligand
Compound class: Natural product
Comment: Platensimycin is a naturally occurring antibacterial, originally isolated from the soil-dwelling actinomycete Streptomyces platensis [4]. Total chemical synthesis has been reported [3]. Platensimycin has broad-spectrum Gram-positive and antimycobacterial activity, acting as an inhibitor of fatty acid synthesis [1,5].
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 8
Hydrogen bond donors 4
Rotatable bonds 6
Topological polar surface area 133.16
Molecular weight 441.47
XLogP 2.2
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 C[C@@]1(CCC(=O)NC2=C(C(=CC=C2O)C(=O)O)O)C(=O)C=C[C@@]34C[C@H]5C[C@@H]([C@@H]13)O[C@@]5(C)C4
Isomeric SMILES C[C@]12C[C@]34C[C@H]1C[C@@H]([C@H]3[C@](C(=O)C=C4)(C)CCC(=O)NC5=C(C=CC(=C5O)C(=O)O)O)O2
InChI InChI=1S/C24H27NO7/c1-22(7-6-17(28)25-18-14(26)4-3-13(19(18)29)21(30)31)16(27)5-8-24-10-12-9-15(20(22)24)32-23(12,2)11-24/h3-5,8,12,15,20,26,29H,6-7,9-11H2,1-2H3,(H,25,28)(H,30,31)/t12-,15+,20+,22-,23+,24+/m1/s1
InChI Key CSOMAHTTWTVBFL-OFBLZTNGSA-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/)
References
1. Brown AK, Taylor RC, Bhatt A, Fütterer K, Besra GS. (2009)
Platensimycin activity against mycobacterial beta-ketoacyl-ACP synthases.
PLoS One, 4 (7): e6306. [PMID:19609444]
2. Dong LB, Rudolf JD, Lin L, Ruiz C, Cameron MD, Shen B. (2017)
In vivo instability of platensimycin and platencin: Synthesis and biological evaluation of urea- and carbamate-platensimycin.
Bioorg Med Chem, 25 (6): 1990-1996. [PMID:28237556]
3. Nicolaou KC, Li A, Edmonds DJ, Tria GS, Ellery SP. (2009)
Total synthesis of platensimycin and related natural products.
J Am Chem Soc, 131 (46): 16905-18. [PMID:19874023]
4. Singh SB, Jayasuriya H, Ondeyka JG, Herath KB, Zhang C, Zink DL, Tsou NN, Ball RG, Basilio A, Genilloud O et al.. (2006)
Isolation, structure, and absolute stereochemistry of platensimycin, a broad spectrum antibiotic discovered using an antisense differential sensitivity strategy.
J Am Chem Soc, 128 (36): 11916-20. [PMID:16953632]
5. Wang J, Soisson SM, Young K, Shoop W, Kodali S, Galgoci A, Painter R, Parthasarathy G, Tang YS, Cummings R et al.. (2006)
Platensimycin is a selective FabF inhibitor with potent antibiotic properties.
Nature, 441 (7091): 358-61. [PMID:16710421]