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Crystal structure of the Botulinum neurotoxin type B complexed with synaptotagamin-II ectodomain

Source organisms:
Biochemical function: toxin activity
Biological process: protein transmembrane transport
Cellular component: host cell presynaptic membrane

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EC 3.4.24.69: Bontoxilysin

Reaction catalysed:
Limited hydrolysis of proteins of the neuroexocytosis apparatus, synaptobrevin (also known as neuronal vesicle-associated membrane protein, VAMP), synaptosome-associated protein of 25 kDa (SNAP25) or syntaxin. No detected action on small molecule substrates.
Systematic name:
-
Alternative Name(s):
  • BoNT
  • Botulinum neurotoxin

GO terms

Sequence families

Pfam Protein families (Pfam)
PF07951
Domain description: Clostridium neurotoxin, C-terminal receptor binding
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of Pfam domain PF07951 (Clostridium neurotoxin, C-terminal receptor binding) in Botulinum neurotoxin type B. Showing 1 copy in chain A.

PF07953
Domain description: Clostridium neurotoxin, N-terminal receptor binding
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of Pfam domain PF07953 (Clostridium neurotoxin, N-terminal receptor binding) in Botulinum neurotoxin type B. Showing 1 copy in chain A.

PF07952
Domain description: Clostridium neurotoxin, Translocation domain
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of Pfam domain PF07952 (Clostridium neurotoxin, Translocation domain) in Botulinum neurotoxin type B. Showing 1 copy in chain A.

PF01742
Domain description: Clostridial neurotoxin zinc protease
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of Pfam domain PF01742 (Clostridial neurotoxin zinc protease) in Botulinum neurotoxin type B. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR000395
Domain description: Botulinum/Tetanus toxin, catalytic chain
Occurring in:
  1. Botulinum neurotoxin type B
IPR036248
Domain description: Clostridium neurotoxin, translocation domain
Occurring in:
  1. Botulinum neurotoxin type B
IPR011065
Domain description: Kunitz inhibitor STI-like superfamily
Occurring in:
  1. Botulinum neurotoxin type B
IPR013104
Domain description: Clostridium neurotoxin, receptor-binding C-terminal
Occurring in:
  1. Botulinum neurotoxin type B
IPR012928
Domain description: Clostridium neurotoxin, receptor binding N-terminal
Occurring in:
  1. Botulinum neurotoxin type B
IPR013320
Domain description: Concanavalin A-like lectin/glucanase domain superfamily
Occurring in:
  1. Botulinum neurotoxin type B
IPR012500
Domain description: Clostridium neurotoxin, translocation
Occurring in:
  1. Botulinum neurotoxin type B

Structure domains

CATH CATH domains
1.20.1120.10
Class: Mainly Alpha
Architecture: Up-down Bundle
Topology: Clostridium botulinum neurotoxin B, "coiled-coil" domain
Homology: Clostridium botulinum neurotoxin b, "coiled-coil" domain
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of CATH domain 1.20.1120.10 (Clostridium botulinum neurotoxin B, in Botulinum neurotoxin type B. Showing 1 copy in chain A.">
2.80.10.50
Class: Mainly Beta
Architecture: Trefoil
Topology: Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Homology: Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of CATH domain 2.80.10.50 (Trefoil (Acidic Fibroblast Growth Factor, subunit A)) in Botulinum neurotoxin type B. Showing 1 copy in chain A.
2.60.120.200
Class: Mainly Beta
Architecture: Sandwich
Topology: Jelly Rolls
Homology: Jelly Rolls
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of CATH domain 2.60.120.200 (Jelly Rolls) in Botulinum neurotoxin type B. Showing 1 copy in chain A.
3.90.1240.10
Class: Alpha Beta
Architecture: Alpha-Beta Complex
Topology: Zincin-like
Homology: Metalloproteases ("zincins"), catalytic domain like
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of CATH domain 3.90.1240.10 (Zincin-like) in Botulinum neurotoxin type B. Showing 1 copy in chain A.
SCOP SCOP annotations
50399
Class: All beta proteins
Fold: beta-Trefoil
Superfamily: STI-like
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of SCOP domain 50399 (Clostridium neurotoxins, C-terminal domain) in Botulinum neurotoxin type B. Showing 1 copy in chain A.
49956
Class: All beta proteins
Fold: Concanavalin A-like lectins/glucanases
Superfamily: Concanavalin A-like lectins/glucanases
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of SCOP domain 49956 (Clostridium neurotoxins, the second last domain) in Botulinum neurotoxin type B. Showing 1 copy in chain A.
58092
Class: Coiled coil proteins
Fold: Antiparallel coiled-coil
Superfamily: Clostridium neurotoxins, "coiled-coil" domain
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of SCOP domain 58092 (Clostridium neurotoxins, in Botulinum neurotoxin type B. Showing 1 copy in chain A.">
55512
Class: Alpha and beta proteins (a+b)
Fold: Zincin-like
Superfamily: Metalloproteases ("zincins"), catalytic domain
Occurring in:
  1. Botulinum neurotoxin type B
The deposited structure of PDB entry 2np0 contains 1 copy of SCOP domain 55512 (Clostridium neurotoxins, catalytic domain) in Botulinum neurotoxin type B. Showing 1 copy in chain A.

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