PDBsum entry 6a0r

Oxidoreductase

PDB id: 6a0r

Contents

Protein chains

331 a.a.

Ligands

FMT ×17

CXS ×2

GOL ×2

UNL

Metals

_NA ×2

Waters ×787

References listed in PDB file

Key reference

• Title: The crystal structure of homoserine dehydrogenase complexed with l-Homoserine and NADPH in a closed form.
• Authors: S.Akai, H.Ikushiro, T.Sawai, T.Yano, N.Kamiya, I.Miyahara.
• Ref.: J Biochem, 2019, 165, 185-195. [DOI no: 10.1093/jb/mvy094]
• PubMed id: 30423116

Abstract

Homoserine dehydrogenase from Thermus thermophilus (TtHSD) is a key enzyme in the aspartate pathway that catalyses the reversible conversion of l-aspartate-β-semialdehyde to l-homoserine (l-Hse) with NAD(P)H. We determined the crystal structures of unliganded TtHSD, TtHSD complexed with l-Hse and NADPH, and Lys99Ala and Lys195Ala mutant TtHSDs, which have no enzymatic activity, complexed with l-Hse and NADP+ at 1.83, 2.00, 1.87 and 1.93 Å resolutions, respectively. Binding of l-Hse and NADPH induced the conformational changes of TtHSD from an open to a closed form: the mobile loop containing Glu180 approached to fix l-Hse and NADPH, and both Lys99 and Lys195 could make hydrogen bonds with the hydroxy group of l-Hse. The ternary complex of TtHSDs in the closed form mimicked a Michaelis complex better than the previously reported open form structures from other species. In the crystal structure of Lys99Ala TtHSD, the productive geometry of the ternary complex was almost preserved with one new water molecule taking over the hydrogen bonds associated with Lys99, while the positions of Lys195 and l-Hse were significantly retained with those of the wild-type enzyme. These results propose new possibilities that Lys99 is the acid-base catalytic residue of HSDs.