3WBD

Crystal structure of anti-polysialic acid antibody single chain Fv fragment (mAb735) complexed with octasialic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.233

Literature

Macromolecules
Sequence Display for 3WBD

Classification: IMMUNE SYSTEM

Total Structure Weight: 54888.28

Macromolecule Entities
Molecule Chains Length Organism Details
single chain Fv fragment of mAb735 A, B 246 Mus musculus

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

B O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FLC
Query on FLC

A CITRATE ANION
C6 H5 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.233
  • Space Group: P 64

Unit Cell:

Length (Å) Angle (°)
a = 161.17 α = 90.00
b = 161.17 β = 90.00
c = 45.88 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-05-14
  • Released Date: 2013-10-16
  • Deposition author(s): Nagae, M., Ikeda, A., Hanashima, S., Kitajima, K., Sato, C., Yamaguchi, Y.

Revision History

  • 2014-04-02
    Type: Database references
  • 2014-04-16
    Type: Source and taxonomy