PDBsum entry 9f3c

Membrane protein

PDB id: 9f3c

Contents

Protein chains

527 a.a.

1239 a.a.

Ligands

NAG-NAG-BMA

NAG ×2

PDB id:

9f3c

Name:

Membrane protein

Title:

Low-resolution (5.4 angstrom) cryo-em structure of sv2b-bont/a1 at ph 5.5

Structure:

Synaptic vesicle glycoprotein 2b. Chain: a. Engineered: yes. Botulinum neurotoxin type a. Chain: b. Synonym: bont/a,bontoxilysin-a,botox,botulinum neurotoxin type a1. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: sv2b, kiaa0735. Expressed in: homo sapiens. Expression_system_taxid: 9606. Clostridium botulinum. Organism_taxid: 1491. Gene: bota, atx, bont.

Authors:

B.Khanppnavar,O.Leka,V.Korkhov,R.Kammerer

Key ref:

B.Khanppnavar et al. (2025). Cryo-Em structure of the botulinum neurotoxin a/sv2b and its implications for translocation.. Nat commun, 16, 1224. PubMed id: 39934119

Date:

25-Apr-24 Release date: 12-Mar-25

Protein chain

Q7L1I2  (SV2B_HUMAN) -  Synaptic vesicle glycoprotein 2B from Homo sapiens

Seq: 683 a.a.

Struc: 527 a.a.

Protein chain

P0DPI0  (BXA1_CLOBO) -  Botulinum neurotoxin type A from Clostridium botulinum

Seq: 1296 a.a.

Struc: 1239 a.a.*

* PDB and UniProt seqs differ at 5 residue positions (black crosses)

Enzyme reactions

• Enzyme class: Chain B: E.C.3.4.24.69 - bontoxilysin.
• Reaction: Limited hydrolysis of proteins of the neuroexocytosis apparatus, synaptobrevins, SNAP25 or syntaxin. No detected action on small molecule substrates.
• Cofactor: Zn(2+)