SMTL ID : 9f2y.1

Focused refinement of SV2B-LD-BoNT/A1 at pH 5.5

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 5 residues within 4Å: Chain A: I.515, N.516 Chain B: F.970, H.1081, G.1309 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.970

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 2 residues within 4Å: Chain A: N.491, R.513 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.513 NAG.3: 1 residues within 4Å: Chain A: N.441 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khanppnavar, B. et al., Cryo-EM structure of the botulinum neurotoxin A/SV2B complex and its implications for translocation. Nat Commun (2025)

Release Date

2025-03-12

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Synaptic vesicle glycoprotein 2B

Botulinum neurotoxin type A

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