SMTL ID : 6ocd.1 (1 other biounit)

Ricin A chain bound to VHH antibody V6D4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: E.98, H.102 Ligands: IMD.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.98, A:H.102

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 1 residues within 4Å: Chain A: R.110 Ligand excluded by PLIP

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 3 residues within 4Å: Chain A: E.98, H.102 Ligands: ZN.1 No protein-ligand interaction detected (PLIP)

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

EDO.4: 3 residues within 4Å: Chain A: Y.76, N.118, Y.119 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.119 Water bridges: A:Y.76, A:Y.76, A:Y.76, A:E.204

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rudolph, M.J. et al., Intracellular Neutralization of Ricin Toxin by Single-domain Antibodies Targeting the Active Site. J.Mol.Biol. (2020)

Release Date

2020-04-01

Peptides

Ricin A chain: A
VHH antibody V6D4: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ricin A chain

VHH antibody V6D4

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