SMTL ID : 5jlv.2 (1 other biounit)

Receptor binding domain of Botulinum neurotoxin A in complex with human glycosylated SV2C

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 9 residues within 4Å: Chain A: F.85, H.196, Y.198, D.421, G.424 Chain B: I.88, D.89, K.108, N.109 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.421 Hydrophobic interactions: A:F.85, A:Y.198

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

ACT.2: 1 residues within 4Å: Chain A: R.408 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.408 Water bridges: A:S.407 Salt bridges: A:R.408 ACT.3: 4 residues within 4Å: Chain A: M.276 Chain B: P.99, F.107, F.112 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.112

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

PO4.4: 3 residues within 4Å: Chain A: E.114, R.128, V.130 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.114 Salt bridges: A:R.128

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yao, G. et al., N-linked glycosylation of SV2 is required for binding and uptake of botulinum neurotoxin A. Nat.Struct.Mol.Biol. (2016)

Release Date

2016-06-15

Peptides

Botulinum neurotoxin type A: A
Synaptic vesicle glycoprotein 2C: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Botulinum neurotoxin type A

Synaptic vesicle glycoprotein 2C

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