SMTL ID : 6obc.1

Ricin A chain bound to camelid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

hetero-1-1-mer

Ligands

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

CL.1: 5 residues within 4Å: Chain A: L.41, P.42, T.73, V.252, Y.253 Ligand excluded by PLIP CL.2: 4 residues within 4Å: Chain A: Y.148, Y.149, S.151, T.152 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain A: G.136, N.137, R.187, I.188, R.192 Ligand excluded by PLIP

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

EDO.4: 6 residues within 4Å: Chain A: Y.76, F.89, G.117, N.118 Chain B: R.102, S.103 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.117, B:S.103 Water bridges: A:N.74, B:R.102 EDO.5: 4 residues within 4Å: Chain B: S.27, I.28, N.73, N.76 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.73 EDO.6: 4 residues within 4Å: Chain B: G.9, G.10, L.11, R.18 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.11, B:R.18, B:R.18

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: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ricin A chain

VHH antibody