PhyA from Selenomonas ruminantium (PhyAsr), is a bacterial protein tyrosine phosphatase (PTP)-like inositol polyphosphate phosphatase (IPPase) that is distantly related to known PTPs. PhyAsr has a second substrate binding site referred to as a standby site and the P-loop (HCX 5 R) has been observed in both open (inactive) and closed (active) conformations. Site-directed mutagenesis and kinetic and structural studies indicate PhyAsr follows a classical PTP mechanism of hydrolysis and has a broad specificity toward polyphosphorylated myo-inositol substrates, including phosphoinositides. Kinetic and molecular docking experiments demonstrate PhyAsr preferentially cleaves the 3-phosphate position of Ins P 6 and will produce Ins(2)P via a highly ordered series of sequential dephosphorylations: D-Ins(1,2,4,5,6)P 5 , Ins(2,4,5,6)P 4 , D-Ins(2,4,5)P 3 , and D-Ins(2,4)P 2 . The data support a distributive enzyme mechanism and suggest the PhyAsr standby site is involved in the recruitment of substrate. Structural studies at physiological pH and high salt concentrations demonstrate the ''closed'' or active P-loop conformation can be induced in the absence of substrate. These results suggest PhyAsr should be reclassified as a D-3 myo-inositol hexakisphosphate phosphohydrolase and suggest the PhyAsr reaction mechanism is more similar to that of PTPs than previously suspected.Keywords: inositol polyphosphate phosphatase; protein tyrosine phosphatase; phosphoinositide phosphatase; phytase; myo-inositol; P-loop; hydrolysis pathway Supplemental material: see www.proteinscience.org Protein tyrosine phosphatase (PTP) superfamily enzymes have been discovered in a range of prokaryotes, and most appear to serve roles that mimic their better-known eukaryotic counterparts as regulators of cellular function (Shi et al. 1998;Kennelly and Potts 1999). Some bacteria have adapted PTPs as ''molecular missiles,'' secreted into the infected host where they assist in the progression of infection (Bliska et al. 1991;Fu and Galan 1998;Bretz et al. 2003). The recently described PTP-like inositol polyphosphate phosphatase (IPPase) from Selenomonas ruminantium, PhyAsr, contains a PTP-like active site signature sequence (HCEAGVGR) but lacks significant primary sequence identity with known IPPases and PTPs (<20%). While its biological function is unclear, it is the first example of a PTP-like enzyme with activity toward myo-inositol hexakisphosphate (Ins P 6 , Fig. 1), one of the most abundant inositol polyphosphates (IPPs) in a majority of prokaryotic and eukaryotic cells (Sasakawa et al. 1995).The X-ray crystallographic structure of PhyAsr (Chu et al. 2004) reveals a PTP-like fold and several novel 4 These authors contributed equally to this work. Reprint requests to: Steven C. Mosimann, Department of Chemistry and Biochemistry, University of Lethbridge, Lethbridge, Alberta T1K 3M4, Canada; e-mail: steven.mosimann@uleth.ca; fax: (403) 329-2057.Article published online ahead of print. Article and publication date are at http://www.proteinscien...