› 4np4

X-ray diffraction
2.89Å resolution

Clostridium difficile toxin B CROP domain in complex with FAB domains of neutralizing antibody bezlotoxumab

Released:
DOI: 10.2210/pdb4np4/pdb
PDB entry 4np4 coloured by chain, front view.
PDB entry 4np4 coloured by chain, side view.
PDB entry 4np4 coloured by chain, top view.
Source organisms:
Primary publication:
Mechanism of action and epitopes of Clostridium difficile toxin B-neutralizing antibody bezlotoxumab revealed by X-ray crystallography.
Orth P, Xiao L, Hernandez LD, Reichert P, Sheth PR, Beaumont M, Yang X, Murgolo N, Ermakov G, DiNunzio E, Racine F, Karczewski J, Secore S, Ingram RN, Mayhood T, Strickland C, Therien AG
J Biol Chem 289 18008-21 (2014)
PMID: 24821719

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-210728 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Toxin B Chain: A
Molecule details ›
Chain: A
Length: 275 amino acids
Theoretical weight: 31.66 KDa
Source organism: Clostridioides difficile
UniProt:
  • Canonical: P18177 (Residues: 1834-2099; Coverage: 11%)
Gene names: tcdB, toxB
Sequence domains:
bezlotoxumab heavy chain Chains: H, I
Molecule details ›
Chains: H, I
Length: 222 amino acids
Theoretical weight: 23.83 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins
bezlotoxumab light chain Chains: L, M
Molecule details ›
Chains: L, M
Length: 215 amino acids
Theoretical weight: 23.45 KDa
Source organism: Homo sapiens
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 17-ID
Spacegroup: P21
Unit cell:
a: 79.413Å b: 134.659Å c: 102.579Å
α: 90° β: 112.56° γ: 90°
R-values:
R R work R free
0.199 0.198 0.232

Quick links

Citations

35 review citations

Clostridium difficile Toxin Biology.
Aktories et al. (2017)
34 more

12 mentions without citation

Mechanism of action and epitopes of Clostridium difficile toxin B-neutralizing antibody bezlotoxumab revealed by X-ray crystallography.
Orth et al. (2014)
11 more