Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 37.95 kDa 
• Atom Count: 2670 
• Modelled Residue Count: 311 
• Deposited Residue Count: 333 
• Unique protein chains: 1

2I1M

cFMS tyrosine kinase (tie2 KID) in complex with an arylamide inhibitor

• DOI: 10.2210/pdb2I1M/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2006-08-14 Released: 2006-11-28 
• Deposition Author(s): Schubert, C., Schalk-Hihi, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.282 
• R-Value Work: 0.237 
• R-Value Observed: 0.250 

Literature

Crystal structure of the tyrosine kinase domain of colony-stimulating factor-1 receptor (cFMS) in complex with two inhibitors.

Schubert, C., Schalk-Hihi, C., Struble, G.T., Ma, H.C., Petrounia, I.P., Brandt, B., Deckman, I.C., Patch, R.J., Player, M.R., Spurlino, J.C., Springer, B.A.

(2007) J Biol Chem 282: 4094-4101

• PubMed: 17132624 
• DOI: 10.1074/jbc.M608183200
• Primary Citation of Related Structures:  
  2I0V, 2I1M, 2I0Y


• PubMed Abstract: 
  

The cFMS proto-oncogene encodes for the colony-stimulating factor-1 receptor, a receptor-tyrosine kinase responsible for the differentiation and maturation of certain macrophages. Upon binding its ligand colony-stimulating factor-1 cFMS autophosphorylates, dimerizes, and induces phosphorylation of downstream targets. We report the novel crystal structure of unphosphorylated cFMS in complex with two members of different classes of drug-like protein kinase inhibitors. cFMS exhibits a typical bi-lobal kinase fold, and its activation loop and DFG motif are found to be in the canonical inactive conformation. Both ATP competitive inhibitors are bound in the active site and demonstrate a binding mode similar to that of STI-571 bound to cABL. The DFG motif is prevented from switching into the catalytically competent conformation through interactions with the inhibitors. Activation of cFMS is also inhibited by the juxtamembrane domain, which interacts with residues of the active site and prevents formation of the activated kinase. Together the structures of cFMS provide further insight into the autoinhibition of receptor-tyrosine kinases via their respective juxtamembrane domains; additionally the binding mode of two novel classes of kinase inhibitors will guide the design of novel molecules targeting macrophage-related diseases.

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Organizational Affiliation: 

Structural Biology, Johnson & Johnson Pharmaceuticals Research and Development, LLC, Exton, Pennsylvania 19341, USA. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Macrophage colony-stimulating factor 1 receptor	A	333	Homo sapiens	Mutation(s): 0  Gene Names: CSF1R EC: 2.7.10.1
Find proteins for P07333 (Homo sapiens) Explore P07333  Go to UniProtKB:  P07333
NIH Common Fund Data Resources
PHAROS:  P07333 GTEx:  ENSG00000182578

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
5CN	A	5-CYANO-FURAN-2-CARBOXYLIC ACID [5-HYDROXYMETHYL-2-(4-METHYL-PIPERIDIN-1-YL)-PHENYL]-AMIDE C19 H21 N3 O3 NNPCFFIJVKYGHR-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
5CN	IC50 :  24   nM  PDBBind

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.282 
• R-Value Work: 0.237 
• R-Value Observed: 0.250 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.44	α = 90
b = 80.44	β = 90
c = 143.76	γ = 120

Software Package:

Software Name	Purpose
CNX	refinement
PROTEUM PLUS	data collection
SAINT	data reduction
LSCALE	data scaling
CNX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-08-14 
• Released Date: 2006-11-28 
Deposition Author(s): Schubert, C., Schalk-Hihi, C.

Revision History  

• Version 1.0: 2006-11-28
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-08-23
  Changes: Refinement description, Source and taxonomy
• Version 1.4: 2017-10-18
  Changes: Refinement description