5ZFS

Crystal structure of Arthrobacter globiformis M30 sugar epimerase which can produce D-allulose from D-fructose

Summary for 5ZFS

• Entry DOI: 10.2210/pdb5zfs/pdb
• Descriptor: D-allulose-3-epimerase, MANGANESE (II) ION, ACETATE ION, ... (4 entities in total)
• Functional Keywords: epimerase, isomerase
• Biological source: Arthrobacter globiformis
• Total number of polymer chains: 2
• Total formula weight: 65429.98

Authors

Yoshida, H.,Yoshihara, A.,Gullapalli, P.K.,Ohtani, K.,Akimitsu, K.,Izumori, K.,Kamitori, S. (deposition date: 2018-03-07, release date: 2018-10-24, Last modification date: 2023-11-22)

Primary citation

Yoshida, H.,Yoshihara, A.,Gullapalli, P.K.,Ohtani, K.,Akimitsu, K.,Izumori, K.,Kamitori, S.
X-ray structure of Arthrobacter globiformis M30 ketose 3-epimerase for the production of D-allulose from D-fructose.
Acta Crystallogr F Struct Biol Commun, 74:669-676, 2018

PubMed Abstract: The X-ray structure of ketose 3-epimerase from Arthrobacter globiformis M30, which was previously reported to be a D-allulose 3-epimerase (AgD-AE), was determined at 1.96 Å resolution. The crystal belonged to the hexagonal space group P622, with unit-cell parameters a = b = 103.98, c = 256.53 Å. The structure was solved by molecular replacement using the structure of Mesorhizobium loti L-ribulose 3-epimerase (MlL-RE), which has 41% sequence identity, as a search model. A hexagonal crystal contained two molecules in the asymmetric unit, and AgD-AE formed a homotetramer with twofold symmetry. The overall structure of AgD-AE was more similar to that of MlL-RE than to the known structures of D-psicose (alternative name D-allulose) 3-epimerases (D-PEs or D-AEs), although AgD-AE and MlL-RE have different substrate specificities. Both AgD-AE and MlL-RE have long helices in the C-terminal region that would contribute to the stability of the homotetramer. AgD-AE showed higher enzymatic activity for L-ribulose than D-allulose; however, AgD-AE is stable and is a unique useful enzyme for the production of D-allulose from D-fructose.

PubMed: 30279320
DOI: 10.1107/S2053230X18011706

Experimental method

X-RAY DIFFRACTION (1.96 Å)