Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B1C1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 89.97 kDa 
• Atom Count: 5463 
• Modelled Residue Count: 629 
• Deposited Residue Count: 763 
• Unique protein chains: 4

2B5I

cytokine receptor complex

• DOI: 10.2210/pdb2B5I/pdb

• Classification: CYTOKINE/CYTOKINE RECEPTOR
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2005-09-28 Released: 2005-11-29 
• Deposition Author(s): Wang, X., Rickert, M., Garcia, K.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.269 
• R-Value Work: 0.223 
• R-Value Observed: 0.225 

Literature

Structure of the quaternary complex of interleukin-2 with its alpha, beta, and gammac receptors.

Wang, X., Rickert, M., Garcia, K.C.

(2005) Science 310: 1159-1163

• PubMed: 16293754 
• DOI: 10.1126/science.1117893
• Primary Citation of Related Structures:  
  2B5I


• PubMed Abstract: 
  

Interleukin-2 (IL-2) is an immunoregulatory cytokine that acts through a quaternary receptor signaling complex containing alpha (IL-2Ralpha), beta (IL-2Rbeta), and common gamma chain (gc) receptors. In the structure of the quaternary ectodomain complex as visualized at a resolution of 2.3 angstroms, the binding of IL-2Ralpha to IL-2 stabilizes a secondary binding site for presentation to IL-2Rbeta. gammac is then recruited to the composite surface formed by the IL-2/IL-2Rbeta complex. Consistent with its role as a shared receptor for IL-4, IL-7, IL-9, IL-15, and IL-21, gammac forms degenerate contacts with IL-2. The structure of gammac provides a rationale for loss-of-function mutations found in patients with X-linked severe combined immunodeficiency diseases (X-SCID). This complex structure provides a framework for other gammac-dependent cytokine-receptor interactions and for the engineering of improved IL-2 therapeutics.

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Organizational Affiliation: 

Howard Hughes Medical Institute, Department of Microbiology and Immunology, Stanford University School of Medicine, 299 Campus Drive, Fairchild D319, Stanford, CA 94305, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-2	A	133	Homo sapiens	Mutation(s): 0  Gene Names: IL2
UniProt & NIH Common Fund Data Resources
Find proteins for P60568 (Homo sapiens) Explore P60568  Go to UniProtKB:  P60568
PHAROS:  P60568 GTEx:  ENSG00000109471

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-2 receptor beta chain	B	214	Homo sapiens	Mutation(s): 3  Gene Names: IL2RB, IL15RB
UniProt & NIH Common Fund Data Resources
Find proteins for P14784 (Homo sapiens) Explore P14784  Go to UniProtKB:  P14784
PHAROS:  P14784 GTEx:  ENSG00000100385

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytokine receptor common gamma chain	C	199	Homo sapiens	Mutation(s): 1  Gene Names: IL2RG
UniProt & NIH Common Fund Data Resources
Find proteins for P31785 (Homo sapiens) Explore P31785  Go to UniProtKB:  P31785
PHAROS:  P31785 GTEx:  ENSG00000147168

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-2 receptor alpha chain	D	217	Homo sapiens	Mutation(s): 1  Gene Names: IL2RA
UniProt & NIH Common Fund Data Resources
Find proteins for P01589 (Homo sapiens) Explore P01589  Go to UniProtKB:  P01589
PHAROS:  P01589 GTEx:  ENSG00000134460

Oligosaccharides

Help

Entity ID: 5
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E, F	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG (Subject of Investigation/LOI)	G [auth C], H [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.269 
• R-Value Work: 0.223 
• R-Value Observed: 0.225 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.913	α = 90
b = 87.709	β = 116.32
c = 130.177	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
CCP4	data scaling
PHASER	phasing

Structure Validation

Ligand Structure Quality Assessment  

Entry History 

Deposition Data

• Deposited Date: 2005-09-28 
• Released Date: 2005-11-29 
Deposition Author(s): Wang, X., Rickert, M., Garcia, K.C.

Revision History  

• Version 1.0: 2005-11-29
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary