› 4nc2

X-ray diffraction
2.5Å resolution

Crystal structure of TcdB-B1 bound to B39 VHH

Released:
DOI: 10.2210/pdb4nc2/pdb
PDB entry 4nc2 coloured by chain, front view.
PDB entry 4nc2 coloured by chain, side view.
PDB entry 4nc2 coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for antibody recognition in the receptor-binding domains of toxins A and B from Clostridium difficile.
Murase T, Eugenio L, Schorr M, Hussack G, Tanha J, Kitova EN, Klassen JS, Ng KK
J Biol Chem 289 2331-43 (2014)
PMID: 24311789

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-210727 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Toxin B Chain: A
Molecule details ›
Chain: A
Length: 126 amino acids
Theoretical weight: 14.87 KDa
Source organism: Clostridioides difficile
Expression system: Escherichia coli
UniProt:
  • Canonical: P18177 (Residues: 2248-2366; Coverage: 5%)
Gene names: tcdB, toxB
Sequence domains: Putative cell wall binding repeat
Structure domains: Cholin Binding
B39 VHH Chain: B
Molecule details ›
Chain: B
Length: 141 amino acids
Theoretical weight: 15.63 KDa
Source organism: Lama glama
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P3221
Unit cell:
a: 101.3Å b: 101.3Å c: 59.47Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.194 0.192 0.229
Expression system: Escherichia coli

Quick links

Citations

10 review citations

Clostridium difficile infection.
Smits et al. (2016)
9 more

8 mentions without citation

Tumor-penetrating peptide fused EGFR single-domain antibody enhances cancer drug penetration into 3D multicellular spheroids and facilitates effective gastric cancer therapy.
Sha et al. (2015)
7 more