› 5veb

X-ray diffraction
2.34Å resolution

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-134629 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 225 amino acids
Theoretical weight: 23.82 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: S6B291 (Residues: 20-123, 124-243; Coverage: 50%)
Sequence domains:
Structure domains: Immunoglobulins
Immunoglobulin kappa constant Chains: B, L
Molecule details ›
Chains: B, L
Length: 215 amino acids
Theoretical weight: 23.38 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P01834 (Residues: 1-107; Coverage: 100%)
Gene name: IGKC
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Ig-like domain-containing protein Chain: H
Molecule details ›
Chain: H
Length: 225 amino acids
Theoretical weight: 23.72 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: S6B291 (Residues: 20-123, 124-243; Coverage: 50%)
Sequence domains:
Structure domains: Immunoglobulins
Cadherin-6 Chains: X, Y
Molecule details ›
Chains: X, Y
Length: 125 amino acids
Theoretical weight: 13.91 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P55285 (Residues: 490-608; Coverage: 15%)
Gene name: CDH6
Sequence domains: Cadherin domain

Ligands and Environments

1 bound ligand:
Ligand A2G 4 x A2G
1 modified residue:
Ligand SLL 1 x SLL

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 17-ID
Spacegroup: P212121
Unit cell:
a: 78.829Å b: 88.855Å c: 186.73Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.214 0.212 0.252
Expression system: Homo sapiens

Quick links

Citations

10 review citations

Using PDX for Preclinical Cancer Drug Discovery: The Evolving Field.
Williams JA. (2018)
9 more

5 mentions without citation

RosettaCM for antibodies with very long HCDR3s and low template availability.
Kodali et al. (2021)
4 more