9J4J

Crystal structure of GH9l Inulin fructotransferases(IFTase)incomplex with nystose(F3)

Summary for 9J4J

• Entry DOI: 10.2210/pdb9j4j/pdb
• Related PRD ID: PRD_900044
• Descriptor: DFA-III-forming inulin fructotransferase, beta-D-fructofuranose-(1-1)-beta-D-fructofuranose, beta-D-fructofuranose-(2-1)-beta-D-fructofuranose-(2-1)-beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose, ... (6 entities in total)
• Functional Keywords: iftase, catalytic pathway, hydrolase, carbohydrate
• Biological source: Paenarthrobacter aurescens
• Total number of polymer chains: 3
• Total formula weight: 134003.10

Authors

Chen, G.,Wang, Z.X.,Yang, Y.Q.,Li, Y.G.,Zhang, T.,Ouyang, S.Y.,Zhang, L.,Chen, Y.,Ruan, X.L.,Miao, M. (deposition date: 2024-08-09, release date: 2024-09-04, Last modification date: 2024-09-18)

Primary citation

Chen, G.,Wang, Z.X.,Yang, Y.,Li, Y.,Zhang, T.,Ouyang, S.,Zhang, L.,Chen, Y.,Ruan, X.,Miao, M.
Elucidation of the mechanism underlying the sequential catalysis of inulin by fructotransferase.
Int.J.Biol.Macromol., 277:134446-134446, 2024

PubMed Abstract: Glycoside hydrolase family 91 (GH91) inulin fructotransferase (IFTases) enables biotransformation of fructans into sugar substitutes for dietary intervention in metabolic syndrome. However, the catalytic mechanism underlying the sequential biodegradation of inulin remains unelusive during the biotranformation of fructans. Herein we present the crystal structures of IFTase from Arthrobacter aurescens SK 8.001 in apo form and in complexes with kestose, nystose, or fructosyl nystose, respectively. Two kinds of conserved noncatalytic binding regions are first identified for IFTase-inulin interactions. The conserved interactions of substrates were revealed in the catalytic center that only contained a catalytic residue E205. A switching scaffold was comprised of D194 and Q217 in the catalytic channel, which served as the catalytic transition stabilizer through side chain displacement in the cycling of substrate sliding in/out the catalytic pocket. Such features in GH91 contribute to the catalytic model for consecutive cutting of substrate chain as well as product release in IFTase, and thus might be extended to other exo-active enzymes with an enclosed bottom of catalytic pocket. The study expands the current general catalytic principle in enzyme-substrate complexes and shed light on the rational design of IFTase for fructan biotransformation.

PubMed: 39098696
DOI: 10.1016/j.ijbiomac.2024.134446

Experimental method

X-RAY DIFFRACTION (2.803 Å)