3L9J

Selection of a novel highly specific TNFalpha antagonist: Insight from the crystal structure of the antagonist-TNFalpha complex

Structural Biology Knowledgebase: 3L9J SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.173

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3L9J

Classification: IMMUNE SYSTEM

Total Structure Weight: 31836.41

Macromolecule Entities
Molecule Chains Length Organism Details
TNFalpha C 134 Homo sapiens Gene Name(s): CLEC3B Gene View TNA
Tumor necrosis factor, soluble form T 149 Homo sapiens Fragment: UNP residues 85-233
Gene Name(s): TNF Gene View TNFA TNFSF2

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MG
Query on MG

C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.173
  • Space Group: P 63 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 83.90 α = 90.00
b = 83.90 β = 90.00
c = 149.17 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-01-05
  • Released Date: 2010-02-23
  • Deposition author(s): Byla, P., Andersen, M.H., Thogersen, H.C., Gad, H.H., Hartmann, R.

Revision History

  • 2014-02-26
    Type: Biological assembly | Details: update with dimer
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4