5WGC
propionyl-DpsC in complex with oxetane-bearing probe
Summary for 5WGC
| Entry DOI | 10.2210/pdb5wgc/pdb |
| Descriptor | Daunorubicin-doxorubicin polyketide synthase, (3-{[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl]sulfanyl}oxetan-3-yl)acetic acid (3 entities in total) |
| Functional Keywords | enzyme-probe complex, transferase |
| Biological source | Streptomyces peucetius |
| Total number of polymer chains | 2 |
| Total formula weight | 76139.81 |
| Authors | Milligan, J.C.,Ellis, B.D.,White, A.R.,Vanderwal, C.D.,Tsai, S.C. (deposition date: 2017-07-13, release date: 2018-04-18, Last modification date: 2023-11-15) |
| Primary citation | Ellis, B.D.,Milligan, J.C.,White, A.R.,Duong, V.,Altman, P.X.,Mohammed, L.Y.,Crump, M.P.,Crosby, J.,Luo, R.,Vanderwal, C.D.,Tsai, S.C. An Oxetane-Based Polyketide Surrogate To Probe Substrate Binding in a Polyketide Synthase. J. Am. Chem. Soc., 140:4961-4964, 2018 Cited by PubMed Abstract: Polyketides are a large class of bioactive natural products with a wide range of structures and functions. Polyketides are biosynthesized by large, multidomain enzyme complexes termed polyketide synthases (PKSs). One of the primary challenges when studying PKSs is the high reactivity of their poly-β-ketone substrates. This has hampered structural and mechanistic characterization of PKS-polyketide complexes, and, as a result, little is known about how PKSs position the unstable substrates for proper catalysis while displaying high levels of regio- and stereospecificity. As a first step toward a general plan to use oxetanes as carbonyl isosteres to broadly interrogate PKS chemistry, we describe the development and application of an oxetane-based PKS substrate mimic. This enabled the first structural determination of the acyl-enzyme intermediate of a ketosynthase (KS) in complex with an inert extender unit mimic. The crystal structure, in combination with molecular dynamics simulations, led to a proposed mechanism for the unique activity of DpsC, the priming ketosynthase for daunorubicin biosynthesis. The successful application of an oxetane-based polyketide mimic suggests that this novel class of probes could have wide-ranging applications to the greater biosynthetic community interested in the mechanistic enzymology of iterative PKSs. PubMed: 29620883DOI: 10.1021/jacs.7b11793 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.15 Å) |
Structure validation
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