5ZNN image
Deposition Date 2018-04-10
Release Date 2018-07-18
Last Version Date 2025-09-17
Entry Detail
PDB ID:
5ZNN
Title:
Crystal structure of ligand-free form of the Vps10 ectodomain of Sortilin
Biological Source:
Source Organism(s):
Mus musculus (Taxon ID: 10090)
Expression System(s):
Method Details:
Experimental Method:
Resolution:
2.45 Å
R-Value Free:
0.21
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Sortilin
Gene (Uniprot):Sort1
Chain IDs:A, B
Chain Length:679
Number of Molecules:2
Biological Source:Mus musculus
Primary Citation
Crystal structure of the ligand-free form of the Vps10 ectodomain of dimerized Sortilin at acidic pH
FEBS Lett. 592 2647 2657 (2018)
PMID: 29972886 DOI: 10.1002/1873-3468.13181

Abstact

Sortilin is a multifunctional sorting receptor involved in cytokine production in immune cells. To understand the mechanism of Sortilin-mediated cytokine trafficking, we determined the 2.45-Å structure of the dimerized Sortilin ectodomain (sSortilin or the Vps10-domain) crystallized at acidic pH. Substantial conformational changes upon dimerization lead to the intermolecular hydrophobic interaction between the conserved E455 and F137. Analysis of the electrostatic surface and size-exclusion chromatography revealed that sSortilin dimerization occurs due to an increase in hydrophobic interactions at the neutral dimer interface at acidic pH. The N682-attached N-glycan in the vicinity of the dimer interface implies its involvement in the dimerization. The disruption of Sortilin dimerization by mutations impairs efficient interferon-alpha secretion from cells. These results suggest the functional importance of Sortilin dimerization in cytokine trafficking.

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Primary Citation of related structures
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