5F0P image
Deposition Date 2015-11-27
Release Date 2016-12-07
Last Version Date 2024-10-23
Entry Detail
PDB ID:
5F0P
Title:
Structure of retromer VPS26-VPS35 subunits bound to SNX3 and DMT1(L557M) (SeMet labeled)
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
2.78 Å
R-Value Free:
0.26
R-Value Work:
0.21
R-Value Observed:
0.22
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Vacuolar protein sorting-associated protein 35
Gene (Uniprot):VPS35
Chain IDs:A
Chain Length:462
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Vacuolar protein sorting-associated protein 26A
Gene (Uniprot):VPS26A
Chain IDs:B
Chain Length:321
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Sorting nexin-3
Gene (Uniprot):SNX3
Chain IDs:C
Chain Length:167
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Natural resistance-associated macrophage protein 2
Gene (Uniprot):SLC11A2
Mutations:L557M
Chain IDs:D
Chain Length:18
Number of Molecules:1
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
MSE B MET modified residue
Primary Citation
Structural Mechanism for Cargo Recognition by the Retromer Complex.
Cell 167 1623 1635.e14 (2016)
PMID: 27889239 DOI: 10.1016/j.cell.2016.10.056

Abstact

Retromer is a multi-protein complex that recycles transmembrane cargo from endosomes to the trans-Golgi network and the plasma membrane. Defects in retromer impair various cellular processes and underlie some forms of Alzheimer's disease and Parkinson's disease. Although retromer was discovered over 15 years ago, the mechanisms for cargo recognition and recruitment to endosomes have remained elusive. Here, we present an X-ray crystallographic analysis of a four-component complex comprising the VPS26 and VPS35 subunits of retromer, the sorting nexin SNX3, and a recycling signal from the divalent cation transporter DMT1-II. This analysis identifies a binding site for canonical recycling signals at the interface between VPS26 and SNX3. In addition, the structure highlights a network of cooperative interactions among the VPS subunits, SNX3, and cargo that couple signal-recognition to membrane recruitment.

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Primary Citation of related structures