› 6a3w

X-ray diffraction
2Å resolution

Complex structure of 4-1BB and utomilumab

Released:
DOI: 10.2210/pdb6a3w/pdb
PDB entry 6a3w coloured by chain, front view.
PDB entry 6a3w coloured by chain, side view.
PDB entry 6a3w coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Limited Cross-Linking of 4-1BB by 4-1BB Ligand and the Agonist Monoclonal Antibody Utomilumab.
Li Y, Tan S, Zhang C, Chai Y, He M, Zhang CW, Wang Q, Tong Z, Liu K, Lei Y, Liu WJ, Liu Y, Tian Z, Cao X, Yan J, Qi J, Tien P, Gao S, Gao GF
Cell Rep 25 909-920.e4 (2018)
PMID: 30355497

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-211940 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
utomilumab VH Chains: A, D, G, J
Molecule details ›
Chains: A, D, G, J
Length: 116 amino acids
Theoretical weight: 12.87 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
utomilumab VL Chains: B, E, H, K
Molecule details ›
Chains: B, E, H, K
Length: 109 amino acids
Theoretical weight: 11.54 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
Tumor necrosis factor receptor superfamily member 9 Chains: C, F, I, L
Molecule details ›
Chains: C, F, I, L
Length: 163 amino acids
Theoretical weight: 17.52 KDa
Source organism: Homo sapiens
Expression system: Baculovirus transfer vector pFASTBAC1
UniProt:
  • Canonical: Q07011 (Residues: 24-180; Coverage: 68%)
Gene names: CD137, ILA, TNFRSF9
Sequence domains: TNFR/NGFR cysteine-rich region

Ligands and Environments

1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P21
Unit cell:
a: 50.727Å b: 184.604Å c: 90.205Å
α: 90° β: 104.04° γ: 90°
R-values:
R R work R free
0.186 0.184 0.215
Expression systems:
  • Escherichia coli BL21(DE3)
  • Baculovirus transfer vector pFASTBAC1

Quick links

Citations

10 review citations

Development of bispecific antibodies in China: overview and prospects.
Zhang et al. (2020)
9 more

2 mentions without citation

Differentiated agonistic antibody targeting CD137 eradicates large tumors without hepatotoxicity.
Eskiocak et al. (2020)
1 more