Reaching for Mechanistic Consensus Across Life Kingdoms:  Structure and Insights into Catalysis of the myo-Inositol-1-phosphate Synthase (mIPS) from Archaeoglobus fulgidus

• Published in: Biochemistry (Easton) Vol. 44; no. 1; pp. 213 - 224
• Main Authors: Stieglitz, Kimberly A, Yang, Hongying, Roberts, Mary F, Stec, Boguslaw
• Format: Journal Article
• Language: English
• Published: United States American Chemical Society 11-01-2005
• Subjects: Amino Acid Sequence; Archaeal Proteins - chemistry; Archaeal Proteins - metabolism; Archaeoglobus fulgidus; Archaeoglobus fulgidus - enzymology; Catalysis; Conserved Sequence; Crystallography, X-Ray; Kinetics; Models, Molecular; Molecular Sequence Data; Mycobacterium tuberculosis; Myo-Inositol-1-Phosphate Synthase - chemistry; Myo-Inositol-1-Phosphate Synthase - metabolism; NAD - metabolism; Phosphates - metabolism; Protein Conformation; Protein Structure, Secondary; Protein Subunits - chemistry; Saccharomyces cerevisiae; Saccharomyces cerevisiae - enzymology; Sequence Alignment; Sequence Homology, Amino Acid; Thermodynamics
• ISSN: 0006-2960; 1520-4995
• DOI: 10.1021/bi048267o

myo-Inositol-1-phosphate synthase (mIPS) catalyzes the first step in the synthesis of l-myo-inositol-1-phosphate. We have solved and refined the structure of the mIPS from the hyperthermophilic sulfate reducer Archaeoglobus fulgidus at 1.9 Å resolution. The enzyme crystallized from poly(ethylene glycol) in the P1 space group with one tetramer in the asymmetric unit and provided a view of the entire biologically active oligomer. Despite significant changes in sequence length and amino acid composition, the general architecture of the archaeal enzyme is similar to that of the eukaryotic mIPS from Saccharomyces cerevisiae and bacterial mIPS from Mycobacterium tuberculosis. The enhanced thermostability of the archaeal enzyme as compared to that from yeast is consistent with deletion of a number of surface loops that results in a significantly smaller protein. In the structure of the A. fulgidus mIPS, the active sites of all four subunits were fully ordered and contained NAD+ and inorganic phosphate. The structure also contained a single metal ion (identified as K+) in two of the four subunits. The analysis of the electrostatic potential maps of the protein suggested the presence of a second metal-ion-binding site in close proximity to the first metal ion and NAD+. The modeling of the substrate and known inhibitors suggests a critical role for the second metal ion in catalysis and provides insights into the common elements of the catalytic cycle in enzymes from different life kingdoms.