2P33 | pdb_00002p33

Synthesis and SAR of Aminopyrimidines as Novel c-Jun N-Terminal Kinase (JNK) Inhibitors

PDB DOI: https://doi.org/10.2210/pdb2P33/pdb

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

Deposited: 2007-03-08 Released: 2007-06-19
Deposition Author(s): Ceska, T.A., Platt, A., Fortunato, M., Dickson, K.M., Sharpe, A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.304 (Depositor)
R-Value Work:
0.253 (Depositor), 0.255 (DCC)

Starting Model: experimental
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Ligand Structure Quality Assessment

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

Literature

Synthesis and SAR of aminopyrimidines as novel c-Jun N-terminal kinase (JNK) inhibitors

Alam, M., Beevers, R.E., Ceska, T., Davenport, R.J., Dickson, K.M., Fortunato, M., Gowers, L., Haughan, A.F., James, L.A., Jones, M.W., Kinsella, N., Lowe, C., Meissner, J.W., Nicolas, A.L., Perry, B.G., Phillips, D.J., Pitt, W.R., Platt, A., Ratcliffe, A.J., Sharpe, A., Tait, L.J.

(2007) Bioorg Med Chem Lett 17: 3463-3467

PubMed: 17459703 Search on PubMed
DOI: https://doi.org/10.1016/j.bmcl.2007.03.078
Primary Citation Related Structures:
2P33

PubMed Abstract:
The development of a series of novel aminopyrimidines as inhibitors of c-Jun N-terminal kinases is described. The synthesis, in vitro inhibitory values for JNK1, JNK2 and CDK2, and the in vitro inhibitory value for a c-Jun cellular assay are discussed.

Organizational Affiliation

UCB, Granta Park, Great Abington, Cambridge CB21 6GS, UK.

Macromolecule Content

Total Structure Weight: 42.52 kDa
Atom Count: 2,775
Modeled Residue Count: 332
Deposited Residue Count: 365
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
c-Jun N-terminal kinase 3	A	365	Homo sapiens	Mutation(s): 0 Gene Names: MAPK10, JNK3, JNK3A, PRKM10 EC: 2.7.11.24
UniProt & NIH Common Fund Data Resources
Find proteins for P53779 (Homo sapiens) Explore P53779 Go to UniProtKB: P53779
PHAROS: P53779 GTEx: ENSG00000109339
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P53779
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
J07 Query on J07 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	4-{[5-chloro-4-(1H-indol-3-yl)pyrimidin-2-yl]amino}-N-ethylpiperidine-1-carboxamide C₂₀ H₂₃ Cl N₆ O ARMFMDYRYOKSOW-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.304 (Depositor)
R-Value Work: 0.253 (Depositor), 0.255 (DCC)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.82	α = 90
b = 71.52	β = 90
c = 107.36	γ = 90

Software Package:

Software Name	Purpose
CNX	refinement
MAR345dtb	data collection
DENZO	data reduction
SCALEPACK	data scaling
CNX	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2007-06-19

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2007-06-19
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: 2017-10-18
Changes: Refinement description
Version 1.4: 2023-08-30
Changes: Data collection, Database references, Derived calculations, Refinement description