4O0N

2.4 Angstrom Resolution Crystal Structure of Putative Nucleoside Diphosphate Kinase from Toxoplasma gondii.

Summary for 4O0N

• Entry DOI: 10.2210/pdb4o0n/pdb
• Descriptor: Nucleoside diphosphate kinase, SULFATE ION (3 entities in total)
• Functional Keywords: structural genomics, niaid, national institute of allergy and infectious diseases, center for structural genomics of infectious diseases, csgid, 2-layer sandwich, putative nucleoside diphosphate kinase, transferase
• Biological source: Toxoplasma gondii ME49
• Total number of polymer chains: 12
• Total formula weight: 236043.39

Authors

Minasov, G.,Ruan, J.,Ngo, H.,Shuvalova, L.,Dubrovska, I.,Flores, K.,Shanmugam, D.,Roos, D.,Anderson, W.F.,Center for Structural Genomics of Infectious Diseases (CSGID) (deposition date: 2013-12-13, release date: 2013-12-25, Last modification date: 2023-09-20)

Primary citation

Lykins, J.D.,Filippova, E.V.,Halavaty, A.S.,Minasov, G.,Zhou, Y.,Dubrovska, I.,Flores, K.J.,Shuvalova, L.A.,Ruan, J.,El Bissati, K.,Dovgin, S.,Roberts, C.W.,Woods, S.,Moulton, J.D.,Moulton, H.,McPhillie, M.J.,Muench, S.P.,Fishwick, C.W.G.,Sabini, E.,Shanmugam, D.,Roos, D.S.,McLeod, R.,Anderson, W.F.,Ngo, H.M.
CSGID Solves Structures and Identifies Phenotypes for Five Enzymes in Toxoplasma gondii .
Front Cell Infect Microbiol, 8:352-352, 2018

PubMed Abstract: , an Apicomplexan parasite, causes significant morbidity and mortality, including severe disease in immunocompromised hosts and devastating congenital disease, with no effective treatment for the bradyzoite stage. To address this, we used the Tropical Disease Research database, crystallography, molecular modeling, and antisense to identify and characterize a range of potential therapeutic targets for toxoplasmosis. Phosphoglycerate mutase II (PGMII), nucleoside diphosphate kinase (NDK), ribulose phosphate 3-epimerase (RPE), ribose-5-phosphate isomerase (RPI), and ornithine aminotransferase (OAT) were structurally characterized. Crystallography revealed insights into the overall structure, protein oligomeric states and molecular details of active sites important for ligand recognition. Literature and molecular modeling suggested potential inhibitors and druggability. The targets were further studied with vivoPMO to interrupt enzyme synthesis, identifying the targets as potentially important to parasitic replication and, therefore, of therapeutic interest. Targeted vivoPMO resulted in statistically significant perturbation of parasite replication without concomitant host cell toxicity, consistent with a previous CRISPR/Cas9 screen showing PGM, RPE, and RPI contribute to parasite fitness. PGM, RPE, and RPI have the greatest promise for affecting replication in tachyzoites. These targets are shared between other medically important parasites and may have wider therapeutic potential.

PubMed: 30345257
DOI: 10.3389/fcimb.2018.00352

Experimental method

X-RAY DIFFRACTION (2.4 Å)