3HZM

Crystal structure of S73-2 antibody in complex with antigen Kdo


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 3HZM

Classification: IMMUNE SYSTEM

Total Structure Weight: 48937.68

Macromolecule Entities
Molecule Chains Length Organism Details
S73-2 Fab (IgG1k) light chain A 219 Mus musculus
S73-2 Fab (IgG1k) heavy chain B 225 Mus musculus

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

B 3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID
C8 H14 O8
NNLZBVFSCVTSLA-HXUQBWEZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
KDO N/A in BindingDB
Kd: 3000 nM  BindingMOAD
Kd: 3000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.207
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 46.00 α = 90.00
b = 81.80 β = 90.00
c = 127.98 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-06-23
  • Released Date: 2010-01-12
  • Deposition author(s): Brooks, C.L., Muller-Loennies, S., Borisova, S.N., Brade, L., Kosma, P., Hirama, T., MacKenzie, C.R., Brade, H., Evans, S.V.

Revision History

  • Version 1_0: 2010-01-12

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance