3T54

Crystal structure of the catalytic domain of human diphosphoinositol pentakisphosphate kinase 2 (PPIP5K2) in complex with ATP and Cadmium


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.198

Literature

Macromolecules
Sequence Display for 3T54

Classification: TRANSFERASE

Total Structure Weight: 39146.93

Macromolecule Entities
Molecule Chains Length Organism Details
Inositol Pyrophosphate Kinase A 334 Homo sapiens EC#: 2.7.4.21 IUBMB 2.7.4.24 IUBMB
Fragment: catalytic domain
Gene Name(s): PPIP5K2 Gene View HISPPD1 KIAA0433 VIP2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

A CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.198
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 89.96 α = 90.00
b = 110.60 β = 90.00
c = 41.31 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-07-26
  • Released Date: 2011-12-07
  • Deposition author(s): Wang, H., Falck, J., Hall, T.M.T., Shears, S.B.

Revision History

  • 2011-12-14
    Type: Database references
  • 2012-01-11
    Type: Database references