1OMZ

crystal structure of mouse alpha-1,4-N-acetylhexosaminyltransferase (EXTL2) in complex with UDPGalNAc

Structural Biology Knowledgebase: 1OMZ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.201

Literature

Macromolecules
Sequence Display for 1OMZ

Classification: TRANSFERASE

Total Structure Weight: 68241.91

Macromolecule Entities
Molecule Chains Length Organism Details
Alpha-1,4-N-acetylhexosaminyltransferase EXTL2 A, B 293 Mus musculus EC#: 2.4.1.223 IUBMB
Fragment: catalytic domain
Gene Name(s): Extl2 Extr2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
UD2
Query on UD2

A, B URIDINE-DIPHOSPHATE-N-ACETYLGALACTOSAMINE
3R, (Synonym)
C17 H27 N3 O17 P2
LFTYTUAZOPRMMI-NESSUJCYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.201
  • Space Group: P 4 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 126.34 α = 90.00
b = 126.34 β = 90.00
c = 83.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-02-26
  • Released Date: 2003-04-22
  • Deposition author(s): Pedersen, L.C., Dong, J., Taniguchi, F., Kitagawa, H., Krahn, J.M., Pedersen, L.G., Sugahara, K., Negishi, M.

Revision History

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