SMTL ID : 6g5g.1

Crystal structure of an engineered Botulinum Neurotoxin type B mutant E1191M/S1199Y in complex with human synaptotagmin 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-2-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: I.280, D.285 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.285, H2O.2, H2O.3, H2O.5, H2O.6, H2O.25

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

EDO.2: 1 residues within 4Å: Chain A: T.30 No protein-ligand interaction detected (PLIP)

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 3 residues within 4Å: Chain B: H.947, R.967, Y.1133 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.946, B:H.947, B:Y.1133 PEG.4: 7 residues within 4Å: Chain B: S.618, F.643, G.777, S.781, K.855, Y.856, N.862 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.618, B:S.781, B:N.862 Water bridges: B:N.773, B:G.777, B:C.778, B:C.778, B:S.781, B:Y.856

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.5: 7 residues within 4Å: Chain A: F.256, F.257 Chain B: E.534, T.536, G.631, E.653 Ligands: ACT.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.631, B:E.653 Water bridges: B:T.536, B:T.536

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 5 residues within 4Å: Chain B: G.631, N.632, L.652, E.653 Ligands: TRS.5 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:N.632 Water bridges: B:N.632

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 4 residues within 4Å: Chain B: D.1138, Y.1140, I.1141, E.1291 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.1125, B:Y.1140, B:E.1291 Water bridges: B:S.1125, B:D.1138 GOL.8: 3 residues within 4Å: Chain B: K.1126, N.1135, R.1137 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.1126, B:R.1137 GOL.9: 6 residues within 4Å: Chain B: Y.542, T.545, F.546, P.547, A.562, S.566 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.542, B:T.545 GOL.10: 3 residues within 4Å: Chain B: R.1269, P.1271, N.1273 2 PLIP interactions: 2 interactions with chain B Water bridges: B:N.1273, B:N.1273

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Elliott, M. et al., Engineered botulinum neurotoxin B with improved binding to human receptors has enhanced efficacy in preclinical models. Sci Adv (2019)

Release Date

2019-01-16

Peptides

Botulinum neurotoxin type B: AB
Synaptotagmin-2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
P

Botulinum neurotoxin type B

Synaptotagmin-2

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