5J12 | pdb_00005j12

Structure of human TSLP:TSLPR in complex with mouse IL-7Ralpha

• PDB DOI: https://doi.org/10.2210/pdb5J12/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Homo sapiens, Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2016-03-28 Released: 2017-04-05 
• Deposition Author(s): Verstraete, K., Savvides, S.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.55 Å
• R-Value Free: 
  0.225 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.214 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.214 (Depositor) 

Starting Model: experimental

Literature

Structure of human TSLP:TSLPR in complex with mouse IL-7Ralpha

Verstraete, K., Savvides, S.N.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 71.47 kDa 
• Atom Count: 3,819 
• Modeled Residue Count: 510 
• Deposited Residue Count: 616 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thymic stromal lymphopoietin	A	163	Homo sapiens	Mutation(s): 2  Gene Names: TSLP
UniProt & NIH Common Fund Data Resources
Find proteins for Q969D9 (Homo sapiens) Explore Q969D9  Go to UniProtKB:  Q969D9
PHAROS:  Q969D9 GTEx:  ENSG00000145777
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: Q969D9-1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-7 receptor subunit alpha	B	223	Mus musculus	Mutation(s): 0  Gene Names: Il7r
UniProt
Find proteins for P16872 (Mus musculus) Explore P16872  Go to UniProtKB:  P16872

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytokine receptor-like factor 2	C	230	Homo sapiens	Mutation(s): 0  Gene Names: CRLF2, CRL2, ILXR, TSLPR
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HC73 (Homo sapiens) Explore Q9HC73  Go to UniProtKB:  Q9HC73
PHAROS:  Q9HC73 GTEx:  ENSG00000205755
Glycosylation
Glycosylation Sites: 2		Go to GlyGen: Q9HC73-1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	D [auth A], H [auth C], I [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
SO4	E [auth C], F [auth C], G [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.55 Å
• R-Value Free:  0.225 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.214 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.214 (Depositor) 

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 125.442	α = 90
b = 125.442	β = 90
c = 194.573	γ = 120

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
PHASER	phasing
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-04-05 
Deposition Author(s): Verstraete, K., Savvides, S.N.

Revision History  

• Version 1.0: 2017-04-05
  Type: Initial release
  
• Version 1.1: 2018-02-28
  Changes: Source and taxonomy
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.3: 2024-01-10
  Changes: Data collection, Database references, Refinement description, Structure summary
• Version 1.4: 2024-11-13
  Changes: Structure summary