› 8qya

X-ray diffraction
2.72Å resolution

J22.9-FNY, fully humanized, CDR optimized Fab Fragment based on chimeric J22.9-xi IgG against BCMA; with VH CDR2 glycosylation

Released:
DOI: 10.2210/pdb8qya/pdb
PDB entry 8qya coloured by chain, front view.
PDB entry 8qya coloured by chain, side view.
PDB entry 8qya coloured by chain, top view.
Source organisms:
Primary publication:
Structure-based humanization of a therapeutic antibody for multiple myeloma.
Marino SF, Daumke O
J Mol Med (Berl) (2024)
PMID: 39052065

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-238969 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
J22.9-FNY Fab antibody light chain Chain: L
Molecule details ›
Chain: L
Length: 214 amino acids
Theoretical weight: 23.32 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
J22.9-FNY Fab antibody heavy chain Chain: H
Molecule details ›
Chain: H
Length: 216 amino acids
Theoretical weight: 23.14 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
Tumor necrosis factor receptor superfamily member 17 Chain: A
Molecule details ›
Chain: A
Length: 36 amino acids
Theoretical weight: 4.08 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q02223 (Residues: 6-41; Coverage: 20%)
Gene names: BCM, BCMA, TNFRSF17
Sequence domains: BCMA, TALL-1 binding

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand CU 1 x CU
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: C2
Unit cell:
a: 137.266Å b: 55.371Å c: 69.486Å
α: 90° β: 108.009° γ: 90°
R-values:
R R work R free
0.235 0.231 0.299
Expression systems:
  • Homo sapiens
  • Escherichia coli BL21(DE3)

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