1S55 | pdb_00001s55

Mouse RANKL Structure at 1.9A Resolution

• PDB DOI: https://doi.org/10.2210/pdb1S55/pdb

• Classification: CYTOKINE
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2004-01-19 Released: 2005-07-05 
• Deposition Author(s): Teale, M.J., Feug, X., Chen, L., Bice, T., Meehan, E.J.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.252 (Depositor) 
• R-Value Work: 
  0.230 (Depositor), 0.222 (DCC) 
• R-Value Observed: 
  0.230 (Depositor) 

Literature

Murine RANKL Extra Cellular Domain Homotrimer Structure In Space Groups P212121 And H3 At 1.9 And 2.6 Respectively

Teale, M.J., Schorman, N., Feug, X., Bice, T., Meehan, E.J., DeLucas, L.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 52.45 kDa 
• Atom Count: 3,917 
• Modeled Residue Count: 468 
• Deposited Residue Count: 468 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tumor necrosis factor ligand superfamily member 11	A, B, C	156	Mus musculus	Mutation(s): 0  Gene Names: TNFSF11, RANKL, TRANCE, OPGL
UniProt
Find proteins for O35235 (Mus musculus) Explore O35235  Go to UniProtKB:  O35235

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	D [auth A], E [auth A], F [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.252 (Depositor) 
• R-Value Work:  0.230 (Depositor), 0.222 (DCC) 
• R-Value Observed: 0.230 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.527	α = 90
b = 81.322	β = 90
c = 99.813	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-07-05 
Deposition Author(s): Teale, M.J., Feug, X., Chen, L., Bice, T., Meehan, E.J.

Revision History  

• Version 1.0: 2005-07-05
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-14
  Changes: Data collection, Database references, Derived calculations