4JFU

Crystal structure of a bacterial fucosidase with iminosugar inhibitor

Structural Biology Knowledgebase: 4JFU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.177
  • R-Value Work: 0.152

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4JFU

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 105671.64

Macromolecule Entities
Molecule Chains Length Organism Details
alpha-L-fucosidase A, B 450 Bacteroides thetaiotaomicron Fragment: RESIDUES 35-484
Gene Name(s): BT_2970
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
K80
Query on K80

A, B (2S,3R,4S,5S)-2-methyl-5-(4-methylphenyl)pyrrolidine- 3,4-diol
C12 H17 N O2
VSLJKQDKGOXAQN-IXLVHKGHSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

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

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IMD
Query on IMD

A, B IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.177
  • R-Value Work: 0.152
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.03 α = 90.00
b = 95.40 β = 90.83
c = 96.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-02-28
  • Released Date: 2013-09-18
  • Deposition author(s): Wright, D.W., Davies, G.J.

Revision History

No revisions since initial release