1OP5

Crystal Structure of Fab 2G12 bound to Man9GlcNAc2

Structural Biology Knowledgebase: 1OP5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.329
  • R-Value Work: 0.248

Literature

Macromolecules
Sequence Display for 1OP5

Classification: IMMUNE SYSTEM

Total Structure Weight: 97985.38

Macromolecule Entities
Molecule Chains Length Organism Details
FAB 2G12, light chain K, L 212 Homo sapiens Fragment: light chain
Gene Name(s): IGKC
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
FAB 2G12, heavy chain H, M 225 Homo sapiens Fragment: heavy chain

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

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

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

H, K, L, M ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.329
  • R-Value Work: 0.248
  • Space Group: I 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 135.82 α = 90.00
b = 145.71 β = 90.00
c = 148.55 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-03-04
  • Released Date: 2003-07-15
  • Deposition author(s): Calarese, D.A., Scanlan, C.N., Zwick, M.B., Deechongkit, S., Mimura, Y., Kunert, R., Stanfield, R.L., Kelly, J.W., Rudd, P.M., Dwek, R.A., Katinger, H., Burton, D.R., Wilson, I.A.

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