3N85

Crystallographic trimer of HER2 extracellular regions in complex with tryptophan-rich antibody fragment


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.230
  • R-Value Work: 0.206

Literature

Macromolecules
Sequence Display for 3N85

Classification: Transferase / immune system

Total Structure Weight: 119525.01

Macromolecule Entities
Molecule Chains Length Organism Details
Receptor tyrosine-protein kinase erbB-2 A 624 Homo sapiens EC#: 2.7.10.1 IUBMB
Fragment: UNP residues 23-646
Gene Name(s): ERBB2 Gene View HER2 MLN19 NEU NGL
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fab37 Light Chain L 217 Homo sapiens
Fab37 Heavy Chain H 224 Homo sapiens

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

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

A ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, H, L SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.230
  • R-Value Work: 0.206
  • Space Group: P 63 2 2

Unit Cell:

Length (Å) Angle (°)
a = 182.22 α = 90.00
b = 182.22 β = 90.00
c = 330.85 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-05-27
  • Released Date: 2010-07-28
  • Deposition author(s): Eigenbrot, C.

Revision History

  • Version 1_0: 2010-07-28

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance

  • Version 1_2: 2014-01-15

    Type: Refinement description