6N5Y

Crystal structure of the SNX5 PX domain in complex with the CI-MPR (space group P212121 - Form 1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.209 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Molecular identification of a BAR domain-containing coat complex for endosomal recycling of transmembrane proteins.

Simonetti, B.Paul, B.Chaudhari, K.Weeratunga, S.Steinberg, F.Gorla, M.Heesom, K.J.Bashaw, G.J.Collins, B.M.Cullen, P.J.

(2019) Nat.Cell Biol. 21: 1219-1233

  • DOI: 10.1038/s41556-019-0393-3
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Protein trafficking requires coat complexes that couple recognition of sorting motifs in transmembrane cargoes with biogenesis of transport carriers. The mechanisms of cargo transport through the endosomal network are poorly understood. Here, we iden ...

    Protein trafficking requires coat complexes that couple recognition of sorting motifs in transmembrane cargoes with biogenesis of transport carriers. The mechanisms of cargo transport through the endosomal network are poorly understood. Here, we identify a sorting motif for endosomal recycling of cargoes, including the cation-independent mannose-6-phosphate receptor and semaphorin 4C, by the membrane tubulating BAR domain-containing sorting nexins SNX5 and SNX6. Crystal structures establish that this motif folds into a β-hairpin, which binds a site in the SNX5/SNX6 phox homology domains. Over sixty cargoes share this motif and require SNX5/SNX6 for their recycling. These include cargoes involved in neuronal migration and a Drosophila snx6 mutant displays defects in axonal guidance. These studies identify a sorting motif and provide molecular insight into an evolutionary conserved coat complex, the 'Endosomal SNX-BAR sorting complex for promoting exit 1' (ESCPE-1), which couples sorting motif recognition to the BAR-domain-mediated biogenesis of cargo-enriched tubulo-vesicular transport carriers.


    Organizational Affiliation

    Department of Neuroscience, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.,School of Biochemistry, University of Bristol, Bristol, UK. pete.cullen@bristol.ac.uk.,Institute for Molecular Bioscience, The University of Queensland, St. Lucia, Queensland, Australia.,Proteomic Facility, School of Biochemistry, University of Bristol, Bristol, UK.,Institute for Molecular Bioscience, The University of Queensland, St. Lucia, Queensland, Australia. b.collins@imb.uq.edu.au.,School of Biochemistry, University of Bristol, Bristol, UK.,Center for Biological Systems Analysis (ZBSA), Faculty of Biology, Albert Ludwigs Universitaet Freiburg, Freiburg, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Sorting nexin-5,Cation-independent mannose-6-phosphate receptor
A
182Homo sapiensMutation(s): 0 
Gene Names: IGF2R (MPRI), SNX5
Find proteins for P11717 (Homo sapiens)
Go to Gene View: IGF2R
Go to UniProtKB:  P11717
Find proteins for Q9Y5X3 (Homo sapiens)
Go to Gene View: SNX5
Go to UniProtKB:  Q9Y5X3
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.209 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 33.063α = 90.00
b = 134.584β = 90.00
c = 98.266γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
PHASERphasing
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-09-18
    Type: Initial release
  • Version 1.1: 2019-10-23
    Type: Data collection, Database references