3GH3

Structural insights into the catalytic mechanism of CD38: Evidence for a conformationally flexible covalent enzyme-substrate complex.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.177

Literature

Macromolecules
Sequence Display for 3GH3

Classification: HYDROLASE

Total Structure Weight: 57816.04

Macromolecule Entities
Molecule Chains Length Organism Details
Ecto-NAD+ glycohydrolase (CD38 molecule) A, B 247 Bos taurus EC#: 3.2.2.5 IUBMB
Fragment: UNP residues 32-278
Gene Name(s): CD38 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CAC
Query on CAC

B CACODYLATE ION
dimethylarsinate (Synonym)
C2 H6 As O2
OGGXGZAMXPVRFZ-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.177
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 47.48 α = 90.00
b = 80.88 β = 90.00
c = 151.79 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-03-02
  • Released Date: 2010-03-16
  • Deposition author(s): Egea, P.F., Muller-Steffner, H., Stroud, R.M., Kellenberger, E., Oppenheimer, N., Schuber, F.

Revision History

  • 2011-07-13
    Type: Version format compliance
  • 2013-01-23
    Type: Database references