pyrimethamine   Click here for help

GtoPdb Ligand ID: 4800

Synonyms: Daraprim® | GNF-Pf-5586 | TCMDC-125860
Approved drug PDB Ligand Antimalarial Ligand
pyrimethamine is an approved drug (FDA (1953))
Compound class: Synthetic organic
Comment: Pyrimethamine is an antifolate compound with broad-spectrum antiprotozoal activity. It is used in the treatment and prevention of malaria as part of a combination therapy.

The Malaria tab on this ligand page provides additional curator comments of relevance to the Guide to MALARIA PHARMACOLOGY.
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View more information in the IUPHAR Pharmacology Education Project: pyrimethamine

2D Structure
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Physico-chemical Properties
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Hydrogen bond acceptors 4
Hydrogen bond donors 2
Rotatable bonds 2
Topological polar surface area 77.82
Molecular weight 248.08
XLogP 2.68
No. Lipinski's rules broken 0
SMILES / InChI / InChIKey
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Canonical SMILES CCc1nc(N)nc(c1c1ccc(cc1)Cl)N
Isomeric SMILES CCc1nc(N)nc(c1c1ccc(cc1)Cl)N
InChI InChI=1S/C12H13ClN4/c1-2-9-10(11(14)17-12(15)16-9)7-3-5-8(13)6-4-7/h3-6H,2H2,1H3,(H4,14,15,16,17)
InChI Key WKSAUQYGYAYLPV-UHFFFAOYSA-N
Bioactivity Comments
The whole organism assay data in the interactions table below, provides an evaluation of the antimalarial (asexual blood stage) activity of pyrimethamine using a panel of culture-adapted P. falciparum strains. Pyrimethamine demonstrates reduced potency against drug resistant strains.
Selectivity at transporters
Key to terms and symbols Click on species/strain names for details Click column headers to sort
Target Sp. Type Action Value Parameter Concentration range (M) Reference
Multidrug and toxin extrusion Hs Inhibitor Inhibition 7.1 pKi - 2
pKi 7.1 (Ki 7.7x10-8 M) [2]
MATE2 Mm Inhibitor Inhibition 6.3 pKi - 2
pKi 6.3 (Ki 4.6x10-7 M) [2]
Whole organism assay data
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MOA/likely target Sp. Assay description Type Action Value Parameter Concentration range (M) Reference
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase PfD6 Parasite growth inhibition assay - - 8.3 pIC50 - 1
pIC50 8.3 (IC50 4.6x10-9 M) [3H]-hypoxanthine incorporation [1]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase PfNF54 Parasite growth inhibition assay - - 7.8 pIC50 - 1
pIC50 7.8 (IC50 1.7x10-8 M) [3H]-hypoxanthine incorporation [1]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase PfTM4 Parasite growth inhibition assay - - 7.2 pIC50 - 5
pIC50 7.2 (IC50 5.8x10-8 M) [3H]-hypoxanthine incorporation assay using wild-type P. falciparum (TM4) [5]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase Pf7G8 Parasite growth inhibition assay - - 5.2 pIC50 - 1
pIC50 5.2 (IC50 6.689x10-6 M) [3H]-hypoxanthine incorporation [1]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase PfTM90C2A Parasite growth inhibition assay - - 5.1 pIC50 - 1
pIC50 5.1 (IC50 8.231x10-6 M) [3H]-hypoxanthine incorporation [1]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase PfK1 Parasite growth inhibition assay - - <5.0 pIC50 - 1
pIC50 <5.0 (IC50 >1x10-5 M) [3H]-hypoxanthine incorporation [1]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase PfW2 Parasite growth inhibition assay - - <5.0 pIC50 - 1
pIC50 <5.0 (IC50 >1x10-5 M) [3H]-hypoxanthine incorporation [1]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
Plasmodium falciparum bifunctional dihydrofolate reductase-thymidylate synthase PfV1/S Parasite growth inhibition assay - - <4.0 – 5.0 pIC50 - 1,5
pIC50 <5.0 (IC50 >1x10-5 M) [3H]-hypoxanthine incorporation [1]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)
pIC50 <4.0 (IC50 >1x10-4 M) [3H]-hypoxanthine incorporation assay using quadruple mutant P. falciparum (V1/S) [5]
Lifecycle stages: Plasmodium asexual blood stage (erythrocytic merozoite, trophozoite, erythrocytic schizont)