5GJE image
Deposition Date 2016-06-29
Release Date 2017-01-18
Last Version Date 2024-10-23
Entry Detail
PDB ID:
5GJE
Title:
Three-dimensional reconstruction of human LRP6 ectodomain complexed with Dkk1
Biological Source:
Source Organism(s):
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
21.00 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Low-density lipoprotein recep
Gene (Uniprot):LRP6
Chain IDs:A
Chain Length:611
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Low-density lipoprotein recep
Gene (Uniprot):LRP6
Mutagens:V1062I
Chain IDs:B
Chain Length:616
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dickkopf-related protein 1
Gene (Uniprot):DKK1
Chain IDs:C
Chain Length:85
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Conformational Freedom of the LRP6 Ectodomain Is Regulated by N-glycosylation and the Binding of the Wnt Antagonist Dkk1
Cell Rep 18 32 40 (2017)
PMID: 28052259 DOI: 10.1016/j.celrep.2016.12.017

Abstact

LDL-receptor-related protein 6 (LRP6) is a single-pass membrane glycoprotein with a large modular ectodomain and forms a higher order signaling platform upon binding Wnt ligands on the cell surface. Although multiple crystal structures are available for fragments of the LRP6 ectodomain, we lack a consensus view on the overall molecular architecture of the full-length LRP6 and its dynamic aspects. Here, we used negative-stain electron microscopy to probe conformational states of the entire ectodomain of LRP6 in solution and found that the four-module ectodomain undergoes a large bending motion hinged at the junction between the second and the third modules. Importantly, the extent of inter-domain motion is modulated by evolutionarily conserved N-glycan chains proximal to the joint. We also found that the LRP6 ectodomain becomes highly compact upon complexation with the Wnt antagonist Dkk1, suggesting a potential role for the ectodomain conformational change in the regulation of receptor oligomerization and signaling.

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