1OQX

G-2 glycovariant of human IgG Fc bound to minimized version of Protein A called Z34C

Structural Biology Knowledgebase: 1OQX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.306
  • R-Value Work: 0.219

Literature

Macromolecules
Sequence Display for 1OQX

Classification: IMMUNE SYSTEM

Total Structure Weight: 58445.90

Macromolecule Entities
Molecule Chains Length Organism Details
immunoglobulin gamma-1 heavy chain constant region A, B 212 Homo sapiens Fragment: Fc Fragment
Gene Name(s): IGHG1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Protein A Z34C C, D 34 synthetic Fragment: Minimized B-domain

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

A, B BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A, B ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUC
Query on FUC

B ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUL
Query on FUL

A BETA-L-FUCOSE
6-DEOXY-BETA-L-GALACTOSE (Synonym)
C6 H12 O5
SHZGCJCMOBCMKK-KGJVWPDLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.306
  • R-Value Work: 0.219
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 87.43 α = 90.00
b = 125.68 β = 90.00
c = 53.64 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-03-11
  • Released Date: 2003-03-25
  • Deposition author(s): Raju, T.S., Mulkerrin, M.G., Parker, M., De Vos, A.M., Gazzano-Santoro, H., Totpal, K., Ultsch, M.H.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update