1FO2

CRYSTAL STRUCTURE OF HUMAN CLASS I ALPHA1,2-MANNOSIDASE IN COMPLEX WITH 1-DEOXYMANNOJIRIMYCIN

Structural Biology Knowledgebase: 1FO2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.194

Literature

Macromolecules
Sequence Display for 1FO2

Classification: HYDROLASE

Total Structure Weight: 53273.97

Macromolecule Entities
Molecule Chains Length Organism Details
ALPHA1,2-MANNOSIDASE A 460 Homo sapiens EC#: 3.2.1.113 IUBMB
Fragment: C-TERMINAL CATALYTIC DOMAIN
Mutation: ΔT242
Gene Name(s): MAN1B1 Gene View UNQ747/PRO1477
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A 1-DEOXYMANNOJIRIMYCIN
C6 H13 N O4
LXBIFEVIBLOUGU-KVTDHHQDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-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: 20000 nM  BindingMOAD
IC50: 20000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.194
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 96.17 α = 90.00
b = 96.17 β = 90.00
c = 137.12 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-08-24
  • Released Date: 2001-01-17
  • Deposition author(s): Vallee, F., Karaveg, K., Moremen, K.W., Herscovics, A., Howell, P.L.

Revision History

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