3BPO

Crystal structure of the IL13-IL4R-IL13Ra ternary complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.256 

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Ligand Structure Quality Assessment 


This is version 2.1 of the entry. See complete history



Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Interleukin 13127Homo sapiensMutation(s): 0 
Gene Names: IL13
UniProt & NIH Common Fund Data Resources
Find proteins for P35225 (Homo sapiens)
Explore P35225 
Go to UniProtKB:  P35225
PHAROS:  P35225
GTEx:  ENSG00000169194 
Entity Groups  
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UniProt GroupP35225
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Interleukin-4 receptor alpha chain205Homo sapiensMutation(s): 4 
Gene Names: IL4R582J2.1IL4RA
UniProt & NIH Common Fund Data Resources
Find proteins for P24394 (Homo sapiens)
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Go to UniProtKB:  P24394
PHAROS:  P24394
GTEx:  ENSG00000077238 
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UniProt GroupP24394
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Interleukin-13 receptor alpha-1 chain314Homo sapiensMutation(s): 0 
Gene Names: IL13RA1IL13RIL13RA
UniProt & NIH Common Fund Data Resources
Find proteins for P78552 (Homo sapiens)
Explore P78552 
Go to UniProtKB:  P78552
PHAROS:  P78552
GTEx:  ENSG00000131724 
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UniProt GroupP78552
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  • Reference Sequence
Oligosaccharides

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Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
D
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
E [auth B]2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.256 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 211.51α = 90
b = 58.169β = 100.51
c = 64.236γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
SCALEPACKdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

  • Released Date: 2008-02-05 
  • Deposition Author(s): Garcia, K.C.

Revision History  (Full details and data files)

  • Version 1.0: 2008-02-05
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary
  • Version 2.1: 2021-10-20
    Changes: Database references, Structure summary