2O26

Structure of a class III RTK signaling assembly

• PDB DOI: https://doi.org/10.2210/pdb2O26/pdb

• Classification: CYTOKINE/SIGNALING PROTEIN
• Organism(s): Mus musculus
• Expression System: Trichoplusia ni, Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2006-11-29 Released: 2007-03-13 
• Deposition Author(s): Liu, H., Chen, X., Focia, P.J., He, X.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.270 
• R-Value Work: 0.237 
• R-Value Observed: 0.237 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 199.51 kDa 
• Atom Count: 15,104 
• Modelled Residue Count: 1,661 
• Deposited Residue Count: 1,740 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Kit ligand	A, B, C [auth E], D [auth F]	145	Mus musculus	Mutation(s): 0  Gene Names: Kitlg, Kitl, Mgf, Sl, Slf
UniProt
Find proteins for P20826 (Mus musculus) Explore P20826  Go to UniProtKB:  P20826

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Mast/stem cell growth factor receptor	E [auth X], F [auth Y], G [auth U], H [auth W]	290	Mus musculus	Mutation(s): 1  Gene Names: Kit, Sl EC: 2.7.10.1
UniProt
Find proteins for P05532 (Mus musculus) Explore P05532  Go to UniProtKB:  P05532

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	I [auth C], K [auth G], M [auth I], O [auth K]	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G28454KX GlyCosmos:  G28454KX GlyGen:  G28454KX

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	J [auth D], L [auth H], N [auth J], P [auth L]	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G62182OO GlyCosmos:  G62182OO GlyGen:  G62182OO

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.270 
• R-Value Work: 0.237 
• R-Value Observed: 0.237 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.849	α = 90
b = 200.154	β = 91.42
c = 82.023	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-03-13 
Deposition Author(s): Liu, H., Chen, X., Focia, P.J., He, X.

Revision History  

• Version 1.0: 2007-03-13
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2021-10-20
  Changes: Database references, Structure summary
• Version 2.2: 2023-12-27
  Changes: Data collection