6P50

Crystal Structure of a Complex of human IL-7Ralpha with an anti-IL-7Ralpha Fab 4A10

• PDB DOI: https://doi.org/10.2210/pdb6P50/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Drosophila melanogaster
• Mutation(s): No 


• Deposited: 2019-05-29 Released: 2019-09-04 
• Deposition Author(s): Walsh, S.T.R., Kashi, L., Kohnhorst, C.L.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.330 
• R-Value Work: 0.285 
• R-Value Observed: 0.288 

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration, surface plasmon resonance

Macromolecule Content

• Total Structure Weight: 73.88 kDa 
• Atom Count: 3,990 
• Modelled Residue Count: 522 
• Deposited Residue Count: 661 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Interleukin-7 receptor subunit alpha	A [auth C]	223	Homo sapiens	Mutation(s): 0  Gene Names: IL7R
UniProt & NIH Common Fund Data Resources
Find proteins for P16871 (Homo sapiens) Explore P16871  Go to UniProtKB:  P16871
PHAROS:  P16871 GTEx:  ENSG00000168685

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
anti-IL-7R 4A10 Fab heavy chain	B [auth H]	225	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
anti-IL-7R 4A10 Fab light chain	C [auth L]	213	Mus musculus	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	D [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: 2.90 Å
• R-Value Free: 0.330 
• R-Value Work: 0.285 
• R-Value Observed: 0.288 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 145.113	α = 90
b = 40.171	β = 105.477
c = 105.097	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASES	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-09-04 
Deposition Author(s): Walsh, S.T.R., Kashi, L., Kohnhorst, C.L.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	--

Revision History  

• Version 1.0: 2019-09-04
  Type: Initial release
  
• Version 1.1: 2019-12-04
  Changes: Author supporting evidence
• Version 1.2: 2020-01-01
  Changes: Database references
• Version 1.3: 2020-02-05
  Changes: Data collection
• Version 1.4: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.5: 2023-10-11
  Changes: Data collection, Database references, Refinement description, Structure summary