SMTL ID : 8yvj.1

Crystal structure of the C. difficile toxin A CROPs domain fragment 2592-2710 bound to H5.2 nanobody

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-mer

Ligands

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain A: G.115, V.116, W.119 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.116

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 2 residues within 4Å: Chain A: H.1, R.103 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.1, A:H.1 Water bridges: A:P.32, A:R.103 Salt bridges: A:R.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sluchanko, N.N. et al., Structural insight into recognition of Clostridioides difficile toxin A by novel neutralizing nanobodies targeting QTIN-like motifs within its receptor-binding domain. Int.J.Biol.Macromol. (2024)

Release Date

2024-12-18

Peptides

H5.2 nanobody (VHH): A
Toxin A: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

H5.2 nanobody (VHH)

Toxin A