2G01

Pyrazoloquinolones as Novel, Selective JNK1 inhibitors

PDB DOI: https://doi.org/10.2210/pdb2G01/pdb

Classification: TRANSFERASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2006-02-10 Released: 2006-04-18
Deposition Author(s): Abad-Zapatero, C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.50 Å
R-Value Free: 0.354
R-Value Work: 0.283
R-Value Observed: 0.286

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Synthesis and SAR of 1,9-dihydro-9-hydroxypyrazolo[3,4-b]quinolin-4-ones as novel, selective c-Jun N-terminal kinase inhibitors.

Liu, M., Xin, Z., Clampit, J.E., Wang, S., Gum, R.J., Haasch, D.L., Trevillyan, J.M., Abad-Zapatero, C., Fry, E.H., Sham, H.L., Liu, G.

(2006) Bioorg Med Chem Lett 16: 2590-2594

PubMed: 16527482 Search on PubMed
DOI: https://doi.org/10.1016/j.bmcl.2006.02.046
Primary Citation of Related Structures:
2G01

PubMed Abstract:
A novel class of 1,9-dihydro-9-hydroxypyrazolo[3,4-b]quinolin-4-ones as c-Jun-N-terminal kinase (JNK) inhibitors is described. These compounds were synthesized via the condensation of 2-nitrobenzaldehydes and hydroxypyrazoles. The structure-activity relationships (SAR) and kinase selectivity profile of the inhibitors are also discussed. Compound 16 was identified as a potent JNK inhibitor with good cellular potency.

Organizational Affiliation

Metabolic Disease Research, Global Pharmaceutical Research and Development, Abbott Laboratories, 100 Abbott Park Road, Abbott Park, IL 60064-6098, USA. mei.liu@abbott.com

Macromolecule Content

Total Structure Weight: 89.44 kDa
Atom Count: 5,918
Modelled Residue Count: 733
Deposited Residue Count: 762
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 8	A, C [auth B]	370	Homo sapiens	Mutation(s): 2 Gene Names: MAPK8, JNK1, PRKM8 EC: 2.7.1.37
UniProt & NIH Common Fund Data Resources
Find proteins for P45983 (Homo sapiens) Explore P45983 Go to UniProtKB: P45983
PHAROS: P45983 GTEx: ENSG00000107643
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P45983
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
C-jun-amino-terminal kinase-interacting protein 1	B [auth F], D [auth G]	11	N/A	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UQF2 (Homo sapiens) Explore Q9UQF2 Go to UniProtKB: Q9UQF2
PHAROS: Q9UQF2 GTEx: ENSG00000121653
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9UQF2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
73Q Query on 73Q Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain J [auth B] MOL2 format, chain G [auth A] MOL2 format, chain J [auth B]	G [auth A], J [auth B]	6-CHLORO-9-HYDROXY-1,3-DIMETHYL-1,9-DIHYDRO-4H-PYRAZOLO[3,4-B]QUINOLIN-4-ONE C₁₂ H₁₀ Cl N₃ O₂ AYKGPCNWPACUQV-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain J [auth B]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain H [auth B] SDF format, chain I [auth B] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B]	E [auth A], F [auth A], H [auth B], I [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain E [auth A] Focus chain F [auth A] Focus chain H [auth B] Focus chain I [auth B]

Binding Affinity Annotations
ID	Source	Binding Affinity
73Q	BindingDB: 2G01	IC50: 1220 (nM) from 1 assay(s)
73Q	PDBBind: 2G01	IC50: 1220 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.50 Å
R-Value Free: 0.354
R-Value Work: 0.283
R-Value Observed: 0.286
Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 150.622	α = 90
b = 150.622	β = 90
c = 118.996	γ = 120

Software Package:

Software Name	Purpose
CNX	refinement
SDMS	data reduction
HKL-2000	data scaling
CNX	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2006-04-18

Deposition Author(s):

Abad-Zapatero, C.

Revision History (Full details and data files)

Version 1.0: 2006-04-18
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: 2018-03-14
Changes: Database references
Version 1.4: 2023-08-30
Changes: Data collection, Database references, Derived calculations, Refinement description