4II5

Structure of PCDK2/CYCLINA bound to ADP and 1 MAGNESIUM ION

Structural Biology Knowledgebase: 4II5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.200

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4II5

Classification: Transferase / Cell Cycle

Total Structure Weight: 128765.91

Macromolecule Entities
Molecule Chains Length Organism Details
Cyclin-dependent kinase 2 A, C 298 Homo sapiens EC#: 2.7.11.22 IUBMB
Gene Name(s): CDK2 Gene View CDKN2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Cyclin-A2 B, D 258 Mus musculus Fragment: UNP RESIDUES 165-422
Gene Name(s): Ccna2 Ccna Cyca
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, C ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
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: 2.15 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.200
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.14 α = 90.00
b = 164.14 β = 107.04
c = 73.45 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-19
  • Released Date: 2013-01-23
  • Deposition author(s): Jacobsen, D.M., Bao, Z.-Q., O'Brien, P.J., Brooks III, C.L., Young, M.A.

Revision History

No revisions since initial release