6EE3
X-ray crystal structure of Pf-M1 in complex with inhibitor (6k) and catalytic zinc ion
Summary for 6EE3
| Entry DOI | 10.2210/pdb6ee3/pdb |
| Descriptor | M1 family aminopeptidase, ZINC ION, (1R,2r,3S,5R,7R)-N-[(1R)-2-(hydroxyamino)-2-oxo-1-(3',4',5'-trifluoro[1,1'-biphenyl]-4-yl)ethyl]tricyclo[3.3.1.1~3,7~]decane-2-carboxamide, ... (7 entities in total) |
| Functional Keywords | m1 alanyl-aminopeptidase, protease, inhibitor, hydroxamic acid, hydrolase, hydrolase-hydrolase inhibitor complex, hydrolase/hydrolase inhibitor |
| Biological source | Plasmodium falciparum (isolate FcB1 / Columbia) |
| Total number of polymer chains | 1 |
| Total formula weight | 104531.87 |
| Authors | Drinkwater, N.,McGowan, S. (deposition date: 2018-08-13, release date: 2018-12-26, Last modification date: 2024-03-13) |
| Primary citation | Vinh, N.B.,Drinkwater, N.,Malcolm, T.R.,Kassiou, M.,Lucantoni, L.,Grin, P.M.,Butler, G.S.,Duffy, S.,Overall, C.M.,Avery, V.M.,Scammells, P.J.,McGowan, S. Hydroxamic Acid Inhibitors Provide Cross-Species Inhibition of Plasmodium M1 and M17 Aminopeptidases. J. Med. Chem., 62:622-640, 2019 Cited by PubMed Abstract: There is an urgent clinical need for antimalarial compounds that target malaria caused by both Plasmodium falciparum and Plasmodium vivax. The M1 and M17 metalloexopeptidases play key roles in Plasmodium hemoglobin digestion and are validated drug targets. We used a multitarget strategy to rationally design inhibitors capable of potent inhibition of the M1 and M17 aminopeptidases from both P. falciparum ( Pf-M1 and Pf-M17) and P. vivax ( Pv-M1 and Pv-M17). The novel chemical series contains a hydroxamic acid zinc binding group to coordinate catalytic zinc ion/s, and a variety of hydrophobic groups to probe the S1' pockets of the four target enzymes. Structural characterization by cocrystallization showed that selected compounds utilize new and unexpected binding modes; most notably, compounds substituted with bulky hydrophobic substituents displace the Pf-M17 catalytic zinc ion. Excitingly, key compounds of the series potently inhibit all four molecular targets and show antimalarial activity comparable to current clinical candidates. PubMed: 30537832DOI: 10.1021/acs.jmedchem.8b01310 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.82 Å) |
Structure validation
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