4GIQ image
Deposition Date 2012-08-08
Release Date 2012-10-24
Last Version Date 2024-10-16
Entry Detail
PDB ID:
4GIQ
Title:
Crystal Structure of mouse RANK bound to RANKL
Biological Source:
Source Organism:
Mus musculus (Taxon ID: 10090)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.70 Å
R-Value Free:
0.21
R-Value Work:
0.18
R-Value Observed:
0.19
Space Group:
P 63
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Tumor necrosis factor ligand superfamily member 11
Gene (Uniprot):Tnfsf11
Chain IDs:A
Chain Length:171
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:Tumor necrosis factor receptor superfamily member 11A
Gene (Uniprot):Tnfrsf11a
Chain IDs:B (auth: R)
Chain Length:174
Number of Molecules:1
Biological Source:Mus musculus
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
ASN B ASN GLYCOSYLATION SITE
Primary Citation
RANKL Employs Distinct Binding Modes to Engage RANK and the Osteoprotegerin Decoy Receptor.
Structure 20 1971 1982 (2012)
PMID: 23039992 DOI: 10.1016/j.str.2012.08.030

Abstact

Osteoprotegerin (OPG) and receptor activator of nuclear factor κB (RANK) are members of the tumor necrosis factor receptor (TNFR) superfamily that regulate osteoclast formation and function by competing for RANK ligand (RANKL). RANKL promotes osteoclast development through RANK activation, while OPG inhibits this process by sequestering RANKL. For comparison, we solved crystal structures of RANKL with RANK and RANKL with OPG. Complementary biochemical and functional studies reveal that the monomeric cytokine-binding region of OPG binds RANKL with ∼500-fold higher affinity than RANK and inhibits RANKL-stimulated osteoclastogenesis ∼150 times more effectively, in part because the binding cleft of RANKL makes unique contacts with OPG. Several side chains as well as the C-D and D-E loops of RANKL occupy different orientations when bound to OPG versus RANK. High affinity OPG binding requires a 90s loop Phe residue that is mutated in juvenile Paget's disease. These results suggest cytokine plasticity may help to fine-tune specific tumor necrosis factor (TNF)-family cytokine/receptor pair selectivity.

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Primary Citation of related structures