3B2U

Crystal structure of isolated domain III of the extracellular region of the epidermal growth factor receptor in complex with the Fab fragment of IMC-11F8


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.58 Å
  • R-Value Free: 0.291
  • R-Value Work: 0.227

Literature

Macromolecules
Sequence Display for 3B2U

Classification: IMMUNE SYSTEM / TRANSFERASE

Total Structure Weight: 578263.63

Macromolecule Entities
Molecule Chains Length Organism Details
IMC-11F8 Fab Light chain D, G, K..., L, O, R, U, XD, G, K, L, O, R, U, X 213 Homo sapiens
IMC-11F8 Fab Heavy chain C, F, H..., J, N, Q, T, WC, F, H, J, N, Q, T, W 223 Homo sapiens Gene Name(s): IGH@
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Epidermal growth factor receptor A, B, E..., I, M, P, S, VA, B, E, I, M, P, S, V 214 Homo sapiens EC#: 2.7.10.1 IUBMB
Fragment: sequence database residues 335-538
Gene Name(s): EGFR Gene View ERBB ERBB1 HER1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

A, B, E, I, M, P, S, V N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

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

A, B, E, I, M, P, S, V BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, E, G, K, O, U, V, X SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.58 Å
  • R-Value Free: 0.291
  • R-Value Work: 0.227
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 154.37 α = 90.00
b = 139.12 β = 90.02
c = 175.32 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-10-19
  • Released Date: 2008-02-19
  • Deposition author(s): Ferguson, K.M., Li, S., Kussie, P.

Revision History

  • Version 1_0: 2008-02-19

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Non-polymer description, Version format compliance

  • Version 1_2: 2017-10-25

    Type: Advisory, Refinement description