1FE8

CRYSTAL STRUCTURE OF THE VON WILLEBRAND FACTOR A3 DOMAIN IN COMPLEX WITH A FAB FRAGMENT OF IGG RU5 THAT INHIBITS COLLAGEN BINDING

Structural Biology Knowledgebase: 1FE8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.227

Literature

Macromolecules
Sequence Display for 1FE8

Classification: IMMUNE SYSTEM

Total Structure Weight: 201595.80

Macromolecule Entities
Molecule Chains Length Organism Details
VON WILLEBRAND FACTOR A, B, C 196 Homo sapiens Fragment: COLLAGEN BINDING DOMAIN A3
Mutation: M947M, M998M, M1022M, M1097M
Gene Name(s): VWF Gene View F8VWF
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
IMMUNOGLOBULIN IGG RU5 H, I, J 210 Mus musculus Fragment: FAB FRAGMENT HEAVY CHAIN
IMMUNOGLOBULIN IGG RU5 L, M, N 211 Mus musculus Fragment: FAB FRAGMENT LIGHT CHAIN

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

H, I, J N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUC
Query on FUC

H, I, J ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CAC
Query on CAC

L CACODYLATE ION
dimethylarsinate (Synonym)
C2 H6 As O2
OGGXGZAMXPVRFZ-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B, C L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.227
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 121.80 α = 90.00
b = 183.60 β = 116.20
c = 131.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-07-21
  • Released Date: 2001-04-04
  • Deposition author(s): Bouma, B., Huizinga, E.G., Schiphorst, M.E., Sixma, J.J., Kroon, J., Gros, P.

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