4ZFO Immune System date Apr 21, 2015
title J22.9-Xi: Chimeric Mousehuman Antibody Against Human Bcma (
authors S.F.Marino, O.Daumke, D.Olal
compound source
Molecule: Tumor Necrosis Factor Receptor Superfamily Member
Chain: F, K
Fragment: Extracellular (N-Terminal) Domain, Unp Residues 1
Synonym: B-Cell Maturation Protein, Bcma, Cd269
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tnfrsf17, Bcm, Bcma
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1

Molecule: J22.9-Xi Fab, Light Chain
Chain: L
Engineered: Yes
Other_details: Fab Light Chain Fragment Of Anti-Bcma Antibo Xi;

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293_6e
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptt5

Molecule: J22.9-Xi Fab, Heavy Chain
Chain: H, A
Engineered: Yes
Other_details: Fab Heavy Chain Fragment Of Anti-Bcma Antibo Xi;

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293_6e
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptt5

Molecule: J22.9-Xi Fab, Light Chain
Chain: B
Engineered: Yes
Other_details: Fab Light Chain Fragment Of Anti-Bcma Antibo Xi

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293_6e
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptt5
symmetry Space Group: P 21 21 21
R_factor 0.176 R_Free 0.209
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.801 110.139 137.279 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand BTB, CU enzyme
Primary referencePotent anti-tumor response by targeting B cell maturation antigen (BCMA) in a mouse model of multiple myeloma., Oden F, Marino SF, Brand J, Scheu S, Kriegel C, Olal D, Takvorian A, Westermann J, Yilmaz B, Hinz M, Daumke O, Hopken UE, Muller G, Lipp M, Mol Oncol. 2015 Mar 31. pii: S1574-7891(15)00068-X. doi:, 10.1016/j.molonc.2015.03.010. PMID:25953704
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (172 Kb) [Save to disk]
  • Biological Unit Coordinates (4zfo.pdb1.gz) 83 Kb
  • Biological Unit Coordinates (4zfo.pdb2.gz) 83 Kb
  • LPC: Ligand-Protein Contacts for 4ZFO
  • CSU: Contacts of Structural Units for 4ZFO
  • Structure Factors (714 Kb)
  • Retrieve 4ZFO in mmCIF format [Save to disk]
  • Re-refined 4zfo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4ZFO 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 4ZFO
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4ZFO, from MSDmotif at EBI
  • Fold representative 4zfo from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4zfo_B] [4zfo_K] [4zfo_A] [4zfo_F] [4zfo] [4zfo_H] [4zfo_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4ZFO: [IG_like] [IGv ] by SMART
  • Other resources with information on 4ZFO
  • Community annotation for 4ZFO at PDBWiki (http://pdbwiki.org)

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