4E4S

Crystal structure of Pika GITRL

• PDB DOI: https://doi.org/10.2210/pdb4E4S/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Ochotona princeps
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-03-13 Released: 2012-03-21 
• Deposition Author(s): Kumar, P.R., Bhosle, R., Bonanno, J., Chowdhury, S., Gizzi, A., Glen, S., Hillerich, B., Hammonds, J., Seidel, R., Toro, R., Nathenson, S.G., Almo, S.C., New York Structural Genomics Research Consortium (NYSGRC), Atoms-to-Animals: The Immune Function Network (IFN)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.178 
• R-Value Work: 0.147 
• R-Value Observed: 0.148 

Literature

Crystal structure of GITRL from Ochotona princeps

Kumar, P.R., Bhosle, R., Bonanno, J., Chowdhury, S., Gizzi, A., Glen, S., Hillerich, B., Hammonds, J., Seidel, R., Toro, R., Nathenson, S.G., Almo, S.C.

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.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 84.64 kDa 
• Atom Count: 5,747 
• Modelled Residue Count: 687 
• Deposited Residue Count: 750 
• 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, E, F	125	Ochotona princeps	Mutation(s): 0  Gene Names: GITRL

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	G [auth A], H [auth B], I [auth C], J [auth C], K [auth D], L [auth E], M [auth E], N [auth F]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	O [auth F]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.178 
• R-Value Work: 0.147 
• R-Value Observed: 0.148 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.371	α = 90
b = 164.588	β = 117.16
c = 54.103	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
CBASS	data collection
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-03-21 
Deposition Author(s): Kumar, P.R., Bhosle, R., Bonanno, J., Chowdhury, S., Gizzi, A., Glen, S., Hillerich, B., Hammonds, J., Seidel, R., Toro, R., Nathenson, S.G., Almo, S.C., New York Structural Genomics Research Consortium (NYSGRC), Atoms-to-Animals: The Immune Function Network (IFN)

Revision History  

• Version 1.0: 2012-03-21
  Type: Initial release