6EE0

Crystal Structure of SNX23 PX domain

Summary for 6EE0

• Entry DOI: 10.2210/pdb6ee0/pdb
• Descriptor: Kinesin-like protein KIF16B (2 entities in total)
• Functional Keywords: px domain, endosome, trafficking, sorting nexin, lipid binding protein
• Biological source: Homo sapiens (Human)
• Total number of polymer chains: 3
• Total formula weight: 46863.48

Authors

Chandra, M.,Collins, B.M. (deposition date: 2018-08-12, release date: 2018-08-22, Last modification date: 2023-10-11)

Primary citation

Chandra, M.,Chin, Y.K.,Mas, C.,Feathers, J.R.,Paul, B.,Datta, S.,Chen, K.E.,Jia, X.,Yang, Z.,Norwood, S.J.,Mohanty, B.,Bugarcic, A.,Teasdale, R.D.,Henne, W.M.,Mobli, M.,Collins, B.M.
Classification of the human phox homology (PX) domains based on their phosphoinositide binding specificities.
Nat Commun, 10:1528-1528, 2019

PubMed Abstract: Phox homology (PX) domains are membrane interacting domains that bind to phosphatidylinositol phospholipids or phosphoinositides, markers of organelle identity in the endocytic system. Although many PX domains bind the canonical endosome-enriched lipid PtdIns3P, others interact with alternative phosphoinositides, and a precise understanding of how these specificities arise has remained elusive. Here we systematically screen all human PX domains for their phospholipid preferences using liposome binding assays, biolayer interferometry and isothermal titration calorimetry. These analyses define four distinct classes of human PX domains that either bind specifically to PtdIns3P, non-specifically to various di- and tri-phosphorylated phosphoinositides, bind both PtdIns3P and other phosphoinositides, or associate with none of the lipids tested. A comprehensive evaluation of PX domain structures reveals two distinct binding sites that explain these specificities, providing a basis for defining and predicting the functional membrane interactions of the entire PX domain protein family.

PubMed: 30948714
DOI: 10.1038/s41467-019-09355-y

Experimental method

X-RAY DIFFRACTION (2.518 Å)