2CCH

THE CRYSTAL STRUCTURE OF CDK2 CYCLIN A IN COMPLEX WITH A SUBSTRATE PEPTIDE DERIVED FROM CDC MODIFIED WITH A GAMMA-LINKED ATP ANALOGUE

Structural Biology Knowledgebase: 2CCH SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.148

Literature

Macromolecules
Sequence Display for 2CCH

Classification: CELL CYCLE

Total Structure Weight: 132237.25

Macromolecule Entities
Molecule Chains Length Organism Details
CELL DIVISION PROTEIN KINASE 2 A, C 299 Homo sapiens EC#: 2.7.11.22 IUBMB
Details: PHOSPHORYLATED ON THR160
Gene Name(s): CDK2 Gene View CDKN2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CYCLIN A2 B, D 260 Homo sapiens Fragment: CYCLIN FOLD FRAGMENT RESIDUES 175-432
Gene Name(s): CCNA2 Gene View CCN1 CCNA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CELL DIVISION CONTROL PROTEIN 6 HOMOLOG E, F 12 Homo sapiens Fragment: PEPTIDE DERIVED FROM SUBSTRATE/RECRUITMENT REGION OF CDC6 RESIDUE 89-100
Details: GAMMA PHOSPHATE OF ATP IS COVALENTLY ATTACHED BY A LINKER TO THE AMINO ANALOGUE OF THE OH ACCEPTOR AMINO ACID LOCATED IN THE CDC6 SUBSTRATE PEPTIDE
Gene Name(s): CDC6 Gene View CDC18L
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, C ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
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: 1.7 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.148
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 74.54 α = 90.00
b = 114.48 β = 90.00
c = 181.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-01-16
  • Released Date: 2006-05-03
  • Deposition author(s): Cheng, K.Y., Noble, M.E.M., Skamnaki, V., Brown, N.R., Lowe, E.D., Kontogiannis, L., Shen, K., Cole, P.A., Siligardi, G., Johnson, L.N.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4