7TN3

Crystal structure of Zea mays Inositol-tetrakisphosphate Kinase 1 mutant (ZmITPK1-F189A/H192A)

Summary for 7TN3

• Entry DOI: 10.2210/pdb7tn3/pdb
• Descriptor: Inositol-tetrakisphosphate 1-kinase 1, CHLORIDE ION (3 entities in total)
• Functional Keywords: atp-grasp, inositol phosphate, kinase, signal transduction, transferase
• Biological source: Zea mays (Maize)
• Total number of polymer chains: 1
• Total formula weight: 37204.73

Authors

Zong, G.,Wang, H.,Shears, S.B. (deposition date: 2022-01-20, release date: 2022-06-15, Last modification date: 2024-02-21)

Primary citation

Zong, G.,Shears, S.B.,Wang, H.
Structural and catalytic analyses of the InsP 6 kinase activities of higher plant ITPKs.
Faseb J., 36:e22380-e22380, 2022

PubMed Abstract: Inositol phosphate signaling in plants is of substantial agricultural interest, with a considerable focus on the inositol tris/tetrakisphosphate kinase (ITPK) family of inositol phosphate kinases. Historically, the 4-6 isoforms of ITPKs that higher plants each express have been studied for their multiplexing a metabolic pathway to synthesize inositol hexakisphosphate (ie InsP or phytate), through the phosphorylation and dephosphorylation of multiple inositol phosphates, including Ins(1,3,4,5,6)P (inositol-1,3,4,5,6-pentakisphosphate). A more recent discovery is ITPK-catalyzed phosphorylation of InsP to inositol pyrophosphates, which regulate plant immunity and phosphate homeostasis. However, a molecular-based explanation for these alternate catalytic activities has been missing, because no plant ITPK structure has previously been solved. Herein, we provide biochemical and structural analyses of ITPKs from Zea mays and Glycine max. For this work we introduce a simple, enzyme-coupled microplate-based assay of InsP  kinase activity that should promote more general access to this important field. Furthermore, a ZmITPK1/InsP crystal complex is described at a resolution of 2.6 Å, which identifies a number of catalytically important residues; their functionality is confirmed by mutagenesis. We further demonstrate that ZmITPK1 adds a β-phosphate to the 3-position of Ins(1,2,3,4,5)P , yielding a candidate signal for regulating phosphate homeostasis. An impactful discovery is our description of a 29-residue catalytic specificity element; by interchanging this element between GmITPK1 and GmITPK2, we demonstrate how its isoform-specific sequence specifically determines whether the host protein phosphorylates InsP , without substantially affecting Ins(1,3,4,5,6)P  metabolism. Our structural rationalization of key catalytic differences between alternate ITPK isoforms will complement future research into their functional diversity.

PubMed: 35635723
DOI: 10.1096/fj.202200393R

Experimental method

X-RAY DIFFRACTION (2.9 Å)