5XCE

Crystal structure of Wild type Vps29 from Entamoeba histolytica

Summary for 5XCE

• Entry DOI: 10.2210/pdb5xce/pdb
• Related: 5XCH 5XCJ 5XCK
• Descriptor: Vacuolar protein sorting-associated protein 29 (2 entities in total)
• Functional Keywords: entamoeba histolytica, vacuolar protein sorting 29, metallophosphatase fold, calcineurin-like phosphoesterase superfamily domain, transport protein
• Biological source: Entamoeba histolytica
• Total number of polymer chains: 2
• Total formula weight: 43753.94

Authors

Srivastava, V.K.,Yadav, R.,Tomar, P.,Gourinath, S.,Datta, S. (deposition date: 2017-03-22, release date: 2017-10-04, Last modification date: 2023-11-22)

Primary citation

Srivastava, V.K.,Yadav, R.,Watanabe, N.,Tomar, P.,Mukherjee, M.,Gourinath, S.,Nakada-Tsukui, K.,Nozaki, T.,Datta, S.
Structural and thermodynamic characterization of metal binding in Vps29 from Entamoeba histolytica: implication in retromer function.
Mol. Microbiol., 106:562-581, 2017

PubMed Abstract: Vps29 is the smallest subunit of retromer complex with metallo-phosphatase fold. Although the role of metal in Vps29 is in quest, its metal binding mutants has been reported to affect the localization of the retromer complex in human cells. In this study, we report the structural and thermodynamic consequences of these mutations in Vps29 from the protozoan parasite, Entamoeba histolytica (EhVps29). EhVps29 is a zinc binding protein as revealed by X-ray crystallography and isothermal titration calorimetry. The metal binding pocket of EhVps29 exhibits marked differences in its 3-dimensional architecture and metal coordination in comparison to its human homologs and other metallo-phosphatases. Alanine substitutions of the metal-coordinating residues showed significant alteration in the binding affinity of EhVps29 for zinc. We also determined the crystal structures of metal binding defective mutants (D62A and D62A/H86A) of EhVps29. Based on our results, we propose that the metal atoms or the bound water molecules in the metal binding site are important for maintaining the structural integrity of the protein. Further cellular studies in the amoebic trophozoites showed that the overexpression of wild type EhVps29 leads to reduction in intracellular cysteine protease activity suggesting its crucial role in secretion of the proteases.

PubMed: 28898487
DOI: 10.1111/mmi.13836

Experimental method

X-RAY DIFFRACTION (1.86 Å)