1HXK

GOLGI ALPHA-MANNOSIDASE II IN COMPLEX WITH DEOXYMANNOJIRIMICIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.216
  • R-Value Work: 0.197

Literature

Macromolecules
Sequence Display for 1HXK

Classification: HYDROLASE

Total Structure Weight: 116790.75

Macromolecule Entities
Molecule Chains Length Organism Details
ALPHA-MANNOSIDASE II A 1015 Drosophila melanogaster EC#: 3.2.1.114 IUBMB
Gene Name(s): alpha-Man-II GmII CG18802
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

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

A 1-DEOXYMANNOJIRIMYCIN
C6 H13 N O4
LXBIFEVIBLOUGU-KVTDHHQDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MRD
Query on MRD

A (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DMJ N/A in BindingDB
IC50: 400000 nM  BindingMOAD
IC50: 400000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.216
  • R-Value Work: 0.197
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 68.81 α = 90.00
b = 109.62 β = 90.00
c = 138.28 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-01-16
  • Released Date: 2002-01-16
  • Deposition author(s): van den Elsen, J.M.H., Kuntz, D.A., Rose, D.R.

Revision History

  • Version 1_0: 2002-01-16

    Type: Initial release

  • Version 1_1: 2008-04-27

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Non-polymer description, Version format compliance