1HWW

GOLGI ALPHA-MANNOSIDASE II IN COMPLEX WITH SWAINSONINE

Structural Biology Knowledgebase: 1HWW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.87 Å
  • R-Value Free: 0.209
  • R-Value Work: 0.181

Literature

Macromolecules
Sequence Display for 1HWW

Classification: HYDROLASE

Total Structure Weight: 116801.52

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)
SWA
Query on SWA

A 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2A,8B-TRIOL
SWAINSONINE (Synonym)
C8 H15 N O3
FXUAIOOAOAVCGD-WCTZXXKLSA-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 %)
SWA IC50: 37 nM (99) BindingDB
Ki: 3 nM (99) BindingDB

IC50: 20 nM  BindingMOAD
IC50: 20 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.87 Å
  • R-Value Free: 0.209
  • R-Value Work: 0.181
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.90 α = 90.00
b = 110.01 β = 90.00
c = 138.47 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-01-10
  • Released Date: 2002-01-10
  • Deposition author(s): van den Elsen, J.M.H., Kuntz, D.A., Rose, D.R.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4