2B1P

inhibitor complex of JNK3

• PDB DOI: https://doi.org/10.2210/pdb2B1P/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-09-16 Released: 2006-09-16 
• Deposition Author(s): Swahn, B.M., Huerta, F., Kallin, E., Malmstrom, J., Weigelt, T., Viklund, J., Womack, P., Xue, Y., Ohberg, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.267 
• R-Value Work: 0.220 
• R-Value Observed: 0.220 

Literature

Design and synthesis of 6-anilinoindazoles as selective inhibitors of c-Jun N-terminal kinase-3

Swahn, B.M., Huerta, F., Kallin, E., Malmstrom, J., Weigelt, T., Viklund, J., Womack, P., Xue, Y., Ohberg, L.

(2005) Bioorg Med Chem Lett 15: 5095-5099

• PubMed: 16140012 
• DOI: https://doi.org/10.1016/j.bmcl.2005.06.083
• Primary Citation of Related Structures:  
  2B1P


• PubMed Abstract: 
  

  The structure-based design and synthesis of a new series of c-Jun N-terminal kinase-3 inhibitors with selectivity against JNK1 and p38alpha is reported. The novel series of substituted 6-anilinoindazoles were designed based on a combination of hits from high throughput screening and X-ray crystal structure information of the compounds crystallized into the JNK3 ATP binding active site.

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Organizational Affiliation: 

Department of Medicinal Chemistry, AstraZeneca R&D Södertälje, S-15185 Södertälje, Sweden. [e-mail]

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 41.73 kDa 
• Atom Count: 2,919 
• Modelled Residue Count: 331 
• Deposited Residue Count: 355 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 10	A	355	Homo sapiens	Mutation(s): 0  EC: 2.7.1.37 (PDB Primary Data), 2.7.11.24 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P53779 (Homo sapiens) Explore P53779  Go to UniProtKB:  P53779
PHAROS:  P53779 GTEx:  ENSG00000109339

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AIZ	C [auth A]	3-{6-[(2-CHLOROPHENYL)AMINO]-1H-INDAZOL-3-YL}-5-{[4-(DIMETHYLAMINO)BUTANOYL]AMINO}BENZOIC ACID C26 H26 Cl N5 O3 QHYSKDAWIUFROA-UHFFFAOYSA-N
SO4	B [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
BME	D [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
AIZ	BindingDB:  2B1P	IC50: min: 3, max: 101 (nM) from 2 assay(s)
	PDBBind:  2B1P	IC50: 3 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.267 
• R-Value Work: 0.220 
• R-Value Observed: 0.220 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.336	α = 90
b = 71.935	β = 90
c = 107.306	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
CCP4	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-09-16 
Deposition Author(s): Swahn, B.M., Huerta, F., Kallin, E., Malmstrom, J., Weigelt, T., Viklund, J., Womack, P., Xue, Y., Ohberg, L.

Revision History  

• Version 1.0: 2006-09-16
  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: 2024-03-13
  Changes: Data collection, Database references, Derived calculations