7N0A

Structure of Human Leukaemia Inhibitory Factor with Fab MSC1

• PDB DOI: https://doi.org/10.2210/pdb7N0A/pdb

• Classification: CYTOKINE/IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2021-05-25 Released: 2022-06-15 
• Deposition Author(s): Raman, S., Bosch, A., Fransson, J., Julien, J.P.
• Funding Organization(s): Canada Research Chairs

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 0.284 
• R-Value Work: 0.232 
• R-Value Observed: 0.234 

Literature

Therapeutic Targeting of LIF Overcomes Macrophage-mediated Immunosuppression of the Local Tumor Microenvironment.

Hallett, R.M., Bonfill-Teixidor, E., Iurlaro, R., Arias, A., Raman, S., Bayliss, P., Egorova, O., Neva-Alejo, A., McGray, A.R., Lau, E., Bosch, A., Beilschmidt, M., Maetzel, D., Fransson, J., Huber-Ruano, I., Anido, J., Julien, J.P., Giblin, P., Seoane, J.

(2023) Clin Cancer Res 29: 791-804

• PubMed: 36441800 
• DOI: https://doi.org/10.1158/1078-0432.CCR-21-1888
• Primary Citation of Related Structures:  
  7N0A


• PubMed Abstract: 
  

  Leukemia inhibitory factor (LIF) is a multifunctional cytokine with numerous reported roles in cancer and is thought to drive tumor development and progression. Characterization of LIF and clinical-stage LIF inhibitors would increase our understanding of LIF as a therapeutic target.

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Organizational Affiliation: 

Northern Biologics, Toronto, Ontario, Canada.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 69.32 kDa 
• Atom Count: 4,755 
• Modelled Residue Count: 611 
• Deposited Residue Count: 625 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Leukemia inhibitory factor	A [auth C]	181	Homo sapiens	Mutation(s): 0  Gene Names: LIF, HILDA
UniProt & NIH Common Fund Data Resources
Find proteins for P15018 (Homo sapiens) Explore P15018  Go to UniProtKB:  P15018
PHAROS:  P15018 GTEx:  ENSG00000128342

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MSC-1 Fab Light chain	B [auth A]	220	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
MSC-1 Fab Heavy chain	C [auth B]	224	Homo sapiens	Mutation(s): 0

Oligosaccharides

Help

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	D [auth E]	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE GlyCosmos:  G15407YE GlyGen:  G15407YE

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	E [auth C], F [auth C], G [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
GOL	H [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 0.284 
• R-Value Work: 0.232 
• R-Value Observed: 0.234 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.572	α = 90
b = 109.38	β = 90
c = 115.691	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XPREP	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-06-15 
Deposition Author(s): Raman, S., Bosch, A., Fransson, J., Julien, J.P.

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Funding Organization	Location	Grant Number
Canada Research Chairs	Canada	950231604

Revision History  

• Version 1.0: 2022-06-15
  Type: Initial release
  
• Version 1.1: 2022-12-14
  Changes: Database references
• Version 1.2: 2023-02-22
  Changes: Database references
• Version 1.3: 2023-10-25
  Changes: Data collection, Refinement description