1H07 | pdb_00001h07

CDK2 in complex with a disubstituted 4, 6-bis anilino pyrimidine CDK4 inhibitor

• PDB DOI: https://doi.org/10.2210/pdb1H07/pdb

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


• Deposited: 2002-06-11 Released: 2003-07-11 
• Deposition Author(s): Beattie, J.F., Breault, G.A., Ellston, R.P.A., Green, S., Jewsbury, P.J., Midgley, C.J., Naven, R.T., Minshull, C.A., Pauptit, R.A., Tucker, J.A., Pease, J.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.235 (Depositor), 0.232 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.210 (DCC) 

Literature

Cyclin-Dependent Kinase 4 Inhibitors as a Treatment for Cancer. Part 1: Identification and Optimisation of Substituted 4,6-Bis Anilino Pyrimidines

Beattie, J.F., Breault, G.A., Ellston, R.P.A., Green, S., Jewsbury, P.J., Midgley, C.J., Naven, R.T., Minshull, C.A., Pauptit, R.A., Tucker, J.A., Pease, J.E.

(2003) Bioorg Med Chem Lett 13: 2955

• PubMed: 12941311 
• DOI: https://doi.org/10.1016/s0960-894x(03)00202-6
• Primary Citation Related Structures: 
  1H00, 1H01, 1H07, 1H08, 1V1K


• PubMed Abstract: 
  

  Using a high-throughput screening campaign, we identified the 4,6-bis anilino pyrimidines as inhibitors of the cyclin-dependent kinase, CDK4. Herein we describe the further chemical modification and use of X-ray crystallography to develop potent and selective in vitro inhibitors of CDK4.

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Organizational Affiliation: 
• AstraZeneca, Alderley Park, Macclesfield, Cheshire SK10 4TG, UK.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 35.03 kDa 
• Atom Count: 2,550 
• Modeled Residue Count: 286 
• Deposited Residue Count: 299 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CELL DIVISION PROTEIN KINASE 2	A	299	Homo sapiens	Mutation(s): 0  EC: 2.7.1.37 (PDB Primary Data), 2.7.11.22 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P24941 (Homo sapiens) Explore P24941  Go to UniProtKB:  P24941
PHAROS:  P24941 GTEx:  ENSG00000123374

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MFP	B [auth A]	((2-BROMO-4-METHYLPHENYL){6-[(4-{[(2R)-3-(DIMETHYLAMINO)-2-HYDROXYPROPYL]OXY}PHENYL)AMINO]PYRIMIDIN-4-YL}AMINO)ACETONITRILE C24 H27 Br N6 O2 UUISESFNPSRBFN-LJQANCHMSA-N
MFQ	C [auth A]	((2-BROMO-4-METHYLPHENYL){6-[(4-{[(2S)-3-(DIMETHYLAMINO)-2-HYDROXYPROPYL]OXY}PHENYL)AMINO]PYRIMIDIN-4-YL}AMINO)ACETONITRILE C24 H27 Br N6 O2 UUISESFNPSRBFN-IBGZPJMESA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
MFP	BindingDB:  1H07	IC50: 3000 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.235 (Depositor), 0.232 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.210 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.323	α = 90
b = 71.543	β = 90
c = 72.55	γ = 90

Software Package:

Software Name	Purpose
CNX	refinement
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-07-11 
Deposition Author(s): Beattie, J.F., Breault, G.A., Ellston, R.P.A., Green, S., Jewsbury, P.J., Midgley, C.J., Naven, R.T., Minshull, C.A., Pauptit, R.A., Tucker, J.A., Pease, J.E.

Revision History  

• Version 1.0: 2003-07-11
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary