3IT8

Crystal structure of TNF alpha complexed with a poxvirus MHC-related TNF binding protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.236

Literature

Macromolecules
Sequence Display for 3IT8

Classification: IMMUNE SYSTEM

Total Structure Weight: 335667.47

Macromolecule Entities
Molecule Chains Length Organism Details
Tumor necrosis factor A, B, C..., G, H, IA, B, C, G, H, I 161 Homo sapiens Fragment: Tumor necrosis factor, soluble form, UNP residues 82-233
Mutation: D143L
Gene Name(s): TNF Gene View TNFA TNFSF2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
2L protein D, E, F..., J, K, LD, E, F, J, K, L 324 Tanapox virus Gene Name(s): 2L
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

D, E, F, J, K, L N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.236
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 101.66 α = 90.00
b = 170.29 β = 92.04
c = 122.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-08-27
  • Released Date: 2009-10-20
  • Deposition author(s): Yang, Z., West Jr., A.P., Bjorkman, P.J.

Revision History

  • Version 1_0: 2009-10-20

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Non-polymer description, Version format compliance

  • Version 1_2: 2015-12-09

    Type: Database references