3AMR

Crystal Structures of Bacillus subtilis Alkaline Phytase in Complex with Ca2+, Co2+, Ni2+, Mg2+ and myo-Inositol Hexasulfate

Summary for 3AMR

• Entry DOI: 10.2210/pdb3amr/pdb
• Related: 3AMS
• Descriptor: 3-phytase, D-MYO-INOSITOL-HEXASULPHATE, CALCIUM ION, ... (4 entities in total)
• Functional Keywords: beta-propeller, phytase, phytate, myo-inositol hexasulfate, hydrolase-hydrolase inhibitor complex, hydrolase/hydrolase inhibitor
• Biological source: Bacillus subtilis
• Cellular location: Secreted: O31097
• Total number of polymer chains: 1
• Total formula weight: 40232.44

Authors

Zeng, Y.F.,Ko, T.P.,Lai, H.L.,Cheng, Y.S.,Wu, T.H.,Ma, Y.,Yang, C.S.,Cheng, K.J.,Huang, C.H.,Guo, R.T.,Liu, J.R. (deposition date: 2010-08-22, release date: 2011-04-13, Last modification date: 2023-11-01)

Primary citation

Zeng, Y.F.,Ko, T.P.,Lai, H.L.,Cheng, Y.S.,Wu, T.H.,Ma, Y.,Chen, C.C.,Yang, C.S.,Cheng, K.J.,Huang, C.H.,Guo, R.T.,Liu, J.R.
Crystal structures of Bacillus alkaline phytase in complex with divalent metal ions and inositol hexasulfate
J.Mol.Biol., 409:214-224, 2011

PubMed Abstract: Alkaline phytases from Bacillus species, which hydrolyze phytate to less phosphorylated myo-inositols and inorganic phosphate, have great potential as additives to animal feed. The thermostability and neutral optimum pH of Bacillus phytase are attributed largely to the presence of calcium ions. Nonetheless, no report has demonstrated directly how the metal ions coordinate phytase and its substrate to facilitate the catalytic reaction. In this study, the interactions between a phytate analog (myo-inositol hexasulfate) and divalent metal ions in Bacillus subtilis phytase were revealed by the crystal structure at 1.25 Å resolution. We found all, except the first, sulfates on the substrate analog have direct or indirect interactions with amino acid residues in the enzyme active site. The structures also unraveled two active site-associated metal ions that were not explored in earlier studies. Significantly, one metal ion could be crucial to substrate binding. In addition, binding of the fourth sulfate of the substrate analog to the active site appears to be stronger than that of the others. These results indicate that alkaline phytase starts by cleaving the fourth phosphate, instead of the third or the sixth that were proposed earlier. Our high-resolution, structural representation of Bacillus phytase in complex with a substrate analog and divalent metal ions provides new insight into the catalytic mechanism of alkaline phytases in general.

PubMed: 21463636
DOI: 10.1016/j.jmb.2011.03.063

Experimental method

X-RAY DIFFRACTION (1.25 Å)