3B94 | pdb_00003b94

Crystal structure of human GITRL

• PDB DOI: https://doi.org/10.2210/pdb3B94/pdb

• Classification: CYTOKINE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2007-11-02 Released: 2008-02-12 
• Deposition Author(s): Song, X.M., Zhou, Z.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.276 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.217 (Depositor), 0.212 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of human GITRL

Song, X.M., Zhou, Z.C., Greene, M.I.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 59.73 kDa 
• Atom Count: 3,293 
• Modeled Residue Count: 427 
• Deposited Residue Count: 532 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tumor necrosis factor ligand superfamily member 18	A, B, C, D	133	Homo sapiens	Mutation(s): 0  Gene Names: TNFSF18, AITRL, GITRL, TL6, UNQ149/PRO175
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UNG2 (Homo sapiens) Explore Q9UNG2  Go to UniProtKB:  Q9UNG2
PHAROS:  Q9UNG2 GTEx:  ENSG00000120337

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.276 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.217 (Depositor), 0.212 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 141.943	α = 90
b = 141.943	β = 90
c = 47.211	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
StructureStudio	data collection
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-02-12 
Deposition Author(s): Song, X.M., Zhou, Z.C.

Revision History  

• Version 1.0: 2008-02-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2018-06-13
  Changes: Data collection, Database references, Source and taxonomy, Structure summary
• Version 1.3: 2024-04-03
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2024-10-30
  Changes: Structure summary