3EKN

Insulin receptor kinase complexed with an inhibitor

• PDB DOI:  https://doi.org/10.2210/pdb3EKN/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2008-09-19 Released: 2008-12-30 
• Deposition Author(s): Chamberlain, S., Atkins, C., Deanda, F., Dumble, M., Gerding, R., Groy, A., Korenchuk, S., Kumar, R., Lei, H., Mook, R., Moorthy, G., Redman, A., Rowland, J., Shewchuk, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.274 
• R-Value Work: 0.211 
• R-Value Observed: 0.214 

Literature

Optimization of 4,6-bis-anilino-1H-pyrrolo[2,3-d]pyrimidine IGF-1R tyrosine kinase inhibitors towards JNK selectivity.

Chamberlain, S.D., Redman, A.M., Wilson, J.W., Deanda, F., Shotwell, J.B., Gerding, R., Lei, H., Yang, B., Stevens, K.L., Hassell, A.M., Shewchuk, L.M., Leesnitzer, M.A., Smith, J.L., Sabbatini, P., Atkins, C., Groy, A., Rowand, J.L., Kumar, R., Mook, R.A., Moorthy, G., Patnaik, S.

(2009) Bioorg Med Chem Lett 19: 360-364

• PubMed: 19071018 
• DOI: https://doi.org/10.1016/j.bmcl.2008.11.077
• Primary Citation of Related Structures:  
  3EKN, 3ELJ


• PubMed Abstract: 
  

The SAR of C5' functional groups with terminal basic amines at the C6 aniline of 4,6-bis-anilino-1H-pyrrolo[2,3-d]pyrimidines is reported. Examples demonstrate potent inhibition of IGF-1R with 1000-fold selectivity over JNK1 and 3 in enzymatic assays.

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Organizational Affiliation: 

GlaxoSmithKline, Oncology R&D, 5 Moore Drive, Research Triangle Park, NC 27709, USA.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 35.37 kDa 
• Atom Count: 2,628 
• Modelled Residue Count: 297 
• Deposited Residue Count: 307 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin receptor	A	307	Homo sapiens	Mutation(s): 2  Gene Names: INSR EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for P06213 (Homo sapiens) Explore P06213  Go to UniProtKB:  P06213
PHAROS:  P06213

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GS3	B [auth A]	2-fluoro-6-{[2-({2-methoxy-4-[4-(1-methylethyl)piperazin-1-yl]phenyl}amino)-7H-pyrrolo[2,3-d]pyrimidin-4-yl]amino}benzamide C27 H31 F N8 O2 HXZDICYKFAOZLE-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
GS3	PDBBind:  3EKN	IC50: 4 (nM) from 1 assay(s)
	Binding MOAD:  3EKN	IC50: 2 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.274 
• R-Value Work: 0.211 
• R-Value Observed: 0.214 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.092	α = 90
b = 69.522	β = 90
c = 89.961	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-30 
Deposition Author(s): Chamberlain, S., Atkins, C., Deanda, F., Dumble, M., Gerding, R., Groy, A., Korenchuk, S., Kumar, R., Lei, H., Mook, R., Moorthy, G., Redman, A., Rowland, J., Shewchuk, L.

Revision History  

• Version 1.0: 2008-12-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2021-10-20
  Changes: Database references, Derived calculations
• Version 1.3: 2023-08-30
  Changes: Data collection, Refinement description