SMTL ID : 4isq.3 (2 other biounits)

Binding domain of Botulinum neurotoxin DC in complex with human synaptotagmin I

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

hetero-1-1-mer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: R.250, K.253 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.250, A:K.253 SO4.2: 5 residues within 4Å: Chain A: D.397, Y.398, W.399, F.400, H.402 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.397, A:Y.398, A:W.399, A:F.400 Salt bridges: A:H.402 SO4.3: 4 residues within 4Å: Chain A: K.352, Y.353 Chain B: K.10, K.14 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Y.353 Salt bridges: A:K.352, B:K.10, B:K.14 SO4.4: 2 residues within 4Å: Chain A: T.363, F.364 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.364 SO4.5: 6 residues within 4Å: Chain A: S.386, I.387, Y.390, V.408, L.417, S.422 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.386, A:S.386, A:Y.390, A:Y.390, A:S.422 SO4.6: 3 residues within 4Å: Chain A: I.47, D.302, R.304 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.304 SO4.7: 3 residues within 4Å: Chain A: R.295, I.296, T.300 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.296, A:T.300 Salt bridges: A:R.295 SO4.8: 6 residues within 4Å: Chain A: K.142, Y.244, V.260, M.263, D.365, Y.366 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.244, A:Y.244 Salt bridges: A:K.149

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 1 residues within 4Å: Chain A: N.75 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.75 GOL.10: 6 residues within 4Å: Chain A: F.48, Y.237, V.240, D.248, R.304, R.306 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.306 Water bridges: A:D.248, A:D.248 GOL.11: 4 residues within 4Å: Chain A: H.413, Y.414, A.415, S.416 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.415, A:S.416, A:S.416

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Berntsson, R.P. et al., Crystal Structures of Botulinum Neurotoxin DC in Complex with Its Protein Receptors Synaptotagmin I and II. Structure (2013)

Release Date

2013-08-14

Peptides

Neurotoxin: A
Synaptotagmin-1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Neurotoxin

Synaptotagmin-1

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