9G5I | pdb_00009g5i

Cryo-EM structure of a 2:1 ALK:ALKAL2 complex obtained after re-processing of EMPIAR-10930 data

• PDB DOI: https://doi.org/10.2210/pdb9G5I/pdb
• EM Map EMD-51087: EMDB EMDataResource

• Classification: CYTOKINE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2024-07-17 Released: 2025-03-12 
• Deposition Author(s): Felix, J., De Munck, S., Bazan, J.F., Savvides, S.N.
• Funding Organization(s): Research Foundation - Flanders (FWO), Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Elucidation of distinct ALK-cytokine assemblies with 2:1 and 2:2 stoichiometry by cryo-EM

Felix, J., De Munck, S., Bazan, J.F., Savvides, S.N.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 93.4 kDa 
• Atom Count: 5,252 
• Modelled Residue Count: 732 
• Deposited Residue Count: 886 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALK tyrosine kinase receptor	A, B	379	Homo sapiens	Mutation(s): 0  Gene Names: ALK EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UM73 (Homo sapiens) Explore Q9UM73  Go to UniProtKB:  Q9UM73
PHAROS:  Q9UM73 GTEx:  ENSG00000171094

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ALK and LTK ligand 2	C	128	Homo sapiens	Mutation(s): 1  Gene Names: ALKAL2, FAM150B, UNQ542/PRO1097
UniProt & NIH Common Fund Data Resources
Find proteins for Q6UX46 (Homo sapiens) Explore Q6UX46  Go to UniProtKB:  Q6UX46
PHAROS:  Q6UX46 GTEx:  ENSG00000189292

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	5
MODEL REFINEMENT	PHENIX	1.19.2-4158
MODEL REFINEMENT	REFMAC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-03-12 
Deposition Author(s): Felix, J., De Munck, S., Bazan, J.F., Savvides, S.N.

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Funding Organization	Location	Grant Number
Research Foundation - Flanders (FWO)	Belgium	G0B4918N
Other government	Belgium	Flanders Institute for Biotechnology (VIB) grant number C0101

Revision History  

• Version 1.0: 2025-03-12
  Type: Initial release