› 7joo

X-ray diffraction
2.4Å resolution

Crystal structure of ICOS in complex with antibody STIM003 and anti-kappa VHH domain

Released:
DOI: 10.2210/pdb7joo/pdb
PDB entry 7joo coloured by chain, front view.
PDB entry 7joo coloured by chain, side view.
PDB entry 7joo coloured by chain, top view.
Source organisms:
Primary publication:
Structural characterization of the ICOS/ICOS-L immune complex reveals high molecular mimicry by therapeutic antibodies.
Rujas E, Cui H, Sicard T, Semesi A, Julien JP
Nat Commun 11 5066 (2020)
PMID: 33033255

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-233373 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
anti-kappa VHH Chain: K
Molecule details ›
Chain: K
Length: 121 amino acids
Theoretical weight: 11.33 KDa
Source organism: Lama glama
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
STIM003 Fab Heavy chain Chain: H
Molecule details ›
Chain: H
Length: 227 amino acids
Theoretical weight: 24.16 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
STIM003 Fab Light chain Chain: L
Molecule details ›
Chain: L
Length: 215 amino acids
Theoretical weight: 23.62 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Inducible T-cell costimulator Chain: C
Molecule details ›
Chain: C
Length: 128 amino acids
Theoretical weight: 14.43 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9Y6W8 (Residues: 19-138; Coverage: 66%)
Gene names: AILIM, ICOS
Sequence domains: ICOS V-set domain

Ligands and Environments

2 bound ligands:
Ligand GOL 1 x GOL
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS-II BEAMLINE 17-ID-2
Spacegroup: C2
Unit cell:
a: 171.855Å b: 49.031Å c: 91.817Å
α: 90° β: 101.901° γ: 90°
R-values:
R R work R free
0.244 0.241 0.297
Expression systems:
  • Escherichia coli-Pichia pastoris shuttle vector pPpARG4
  • Homo sapiens

Quick links

Citations

6 review citations

Combinatorial Approaches for Cancer Treatment Using Oncolytic Viruses: Projecting the Perspectives through Clinical Trials Outcomes.
Malogolovkin et al. (2021)
5 more

2 mentions without citation

INDI-integrated nanobody database for immunoinformatics.
Deszyński et al. (2022)
1 more