4BCP

Structure of CDK2 in complex with cyclin A and a 2-amino-4-heteroaryl- pyrimidine inhibitor

Structural Biology Knowledgebase: 4BCP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.181

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4BCP

Classification: TRANSFERASE / CELL CYCLE

Total Structure Weight: 129867.25

Macromolecule Entities
Molecule Chains Length Organism Details
CYCLIN-DEPENDENT KINASE 2 A, C 300 Homo sapiens EC#: 2.7.11.22 IUBMB
Gene Name(s): CDK2 Gene View CDKN2
CYCLIN-A2 B, D 262 Homo sapiens Fragment: RESIDUES 171-432
Gene Name(s): CCNA2 Gene View CCN1 CCNA

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
T3C
Query on T3C

A, C 2-[[3-(1,4-diazepan-1-yl)phenyl]amino]-4- [4-methyl-2-(methylamino)-1,3-thiazol-5-yl]pyrimidine- 5-carbonitrile
C21 H24 N8 S
BKOYUSKBPMSUBK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SGM
Query on SGM

B, D MONOTHIOGLYCEROL
C3 H8 O2 S
PJUIMOJAAPLTRJ-GSVOUGTGSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B, D SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
T3C N/A in BindingDB
Ki: 568 nM  BindingMOAD
Ki: 568 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
TPO
Query on TPO
A, C L-PEPTIDE LINKING C4 H10 N O6 P THR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.181
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 73.81 α = 90.00
b = 134.55 β = 90.00
c = 149.17 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-10-02
  • Released Date: 2013-04-17
  • Deposition author(s): Hole, A.J., Baumli, S., Wang, S., Endicott, J.A., Noble, M.E.M.

Revision History

  • 2013-08-07
    Type: Refinement description | Details: REMARK 3