4XRR

Crystal structure of cals8 from micromonospora echinospora (P294S mutant)

Replaces:  4WB1

Summary for 4XRR

• Entry DOI: 10.2210/pdb4xrr/pdb
• Descriptor: CalS8, GLYCEROL (3 entities in total)
• Functional Keywords: calicheamicin, oxidoreductase, structural genomics, psi-biology, midwest center for structural genomics, mcsg, enzyme discovery for natural product biosynthesis, natpro
• Biological source: Micromonospora echinospora
• Total number of polymer chains: 2
• Total formula weight: 96175.68

Authors

Michalska, K.,Bigelow, L.,Endres, M.,Babnigg, G.,Bingman, C.A.,Yennamalli, R.M.,Singh, S.,Kharel, M.K.,Thorson, J.S.,Phillips Jr., G.N.,Joachimiak, A.,Midwest Center for Structural Genomics (MCSG),Enzyme Discovery for Natural Product Biosynthesis (NatPro) (deposition date: 2015-01-21, release date: 2015-02-11, Last modification date: 2024-11-13)

Primary citation

Singh, S.,Michalska, K.,Bigelow, L.,Endres, M.,Kharel, M.K.,Babnigg, G.,Yennamalli, R.M.,Bingman, C.A.,Joachimiak, A.,Thorson, J.S.,Phillips, G.N.
Structural Characterization of CalS8, a TDP-alpha-D-Glucose Dehydrogenase Involved in Calicheamicin Aminodideoxypentose Biosynthesis.
J. Biol. Chem., 290:26249-26258, 2015

PubMed Abstract: Classical UDP-glucose 6-dehydrogenases (UGDHs; EC 1.1.1.22) catalyze the conversion of UDP-α-d-glucose (UDP-Glc) to the key metabolic precursor UDP-α-d-glucuronic acid (UDP-GlcA) and display specificity for UDP-Glc. The fundamental biochemical and structural study of the UGDH homolog CalS8 encoded by the calicheamicin biosynthetic gene is reported and represents one of the first studies of a UGDH homolog involved in secondary metabolism. The corresponding biochemical characterization of CalS8 reveals CalS8 as one of the first characterized base-permissive UGDH homologs with a >15-fold preference for TDP-Glc over UDP-Glc. The corresponding structure elucidations of apo-CalS8 and the CalS8·substrate·cofactor ternary complex (at 2.47 and 1.95 Å resolution, respectively) highlight a notably high degree of conservation between CalS8 and classical UGDHs where structural divergence within the intersubunit loop structure likely contributes to the CalS8 base permissivity. As such, this study begins to provide a putative blueprint for base specificity among sugar nucleotide-dependent dehydrogenases and, in conjunction with prior studies on the base specificity of the calicheamicin aminopentosyltransferase CalG4, provides growing support for the calicheamicin aminopentose pathway as a TDP-sugar-dependent process.

PubMed: 26240141
DOI: 10.1074/jbc.M115.673459

Experimental method

X-RAY DIFFRACTION (2.55 Å)