5KN5 Immune System date Jun 27, 2016
title Tgfalphaepiregulin Complex With Neutralizing Antibody Ly301
authors S.Atwell, J.S.Boyles, D.K.Clawson, Z.Druzina, G.H.Josef, K.Weiche D.R.Witcher
compound source
Molecule: Epiregulin Antibody Ly3016859 Fab Heavy Chain
Chain: A, D
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029

Molecule: Epiregulin Antibody Ly3016859 Fab Light Chain
Chain: B, E
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029

Molecule: Protransforming Growth Factor Alpha
Chain: C, F
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.206 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.249 164.346 64.972 90.00 104.21 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand SO4, ZN enzyme
Primary referenceStructural Basis of Selectivity and Neutralizing Activity of a TGFalpha/Epiregulin Specific Antibody., Boyles JS, Atwell S, Druzina Z, Heuer JG, Witcher DR, Protein Sci. 2016 Aug 20. doi: 10.1002/pro.3023. PMID:27543934
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (153 Kb) [Save to disk]
  • Biological Unit Coordinates (5kn5.pdb1.gz) 76 Kb
  • Biological Unit Coordinates (5kn5.pdb2.gz) 76 Kb
  • LPC: Ligand-Protein Contacts for 5KN5
  • CSU: Contacts of Structural Units for 5KN5
  • Structure Factors (252 Kb)
  • Retrieve 5KN5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KN5 from S2C, [Save to disk]
  • Re-refined 5kn5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5KN5 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 5KN5
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5kn5_E] [5kn5_B] [5kn5_F] [5kn5_D] [5kn5_C] [5kn5_A] [5kn5]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5KN5: [EGF] [IG_like] [IGv ] by SMART
    • Other resources with information on 5KN5
  • Community annotation for 5KN5 at PDBWiki (http://pdbwiki.org)

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