8SWT
Structure of Bacteroides fragilis PNP bound to transition state analog IMMUCILLIN H and sulfate
Summary for 8SWT
| Entry DOI | 10.2210/pdb8swt/pdb |
| Descriptor | Purine nucleoside phosphorylase, 1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL, SULFATE ION, ... (4 entities in total) |
| Functional Keywords | pentosyltransferase, purine nucleoside phosphorylase, transferase |
| Biological source | Bacteroides fragilis NCTC 9343 |
| Total number of polymer chains | 2 |
| Total formula weight | 65935.44 |
| Authors | Fedorov, E.,Ghosh, A. (deposition date: 2023-05-19, release date: 2023-10-18, Last modification date: 2023-11-22) |
| Primary citation | Minnow, Y.V.T.,Schramm, V.L.,Almo, S.C.,Ghosh, A. Phosphate Binding in PNP Alters Transition-State Analogue Affinity and Subunit Cooperativity. Biochemistry, 62:3116-3125, 2023 Cited by PubMed Abstract: Purine nucleoside phosphorylases (PNPs) catalyze the phosphorolysis of 6-oxypurine nucleosides with an HPO dianion nucleophile. Nucleosides and phosphate occupy distinct pockets in the PNP active site. Evaluation of the HPO site by mutagenesis, cooperative binding studies, and thermodynamic and structural analysis demonstrate that alterations in the HPO binding site can render PNP inactive and significantly impact subunit cooperativity and binding to transition-state analogue inhibitors. Cooperative interactions between the cationic transition-state analogue and the anionic HPO nucleophile demonstrate the importance of reforming the transition-state ensemble for optimal inhibition with transition-state analogues. Altered phosphate binding in the catalytic site mutants helps to explain one of the known lethal PNP deficiency syndromes in humans. PubMed: 37812583DOI: 10.1021/acs.biochem.3c00264 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.66 Å) |
Structure validation
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