3DDB

Crystal structure of the catalytic domain of Botulinum neurotoxin serotype a with a substrate analog peptide

Structural Biology Knowledgebase: 3DDB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.200

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3DDB

Classification: HYDROLASE

Total Structure Weight: 50436.77

Macromolecule Entities
Molecule Chains Length Organism Details
Botulinum neurotoxin A light chain A 430 Clostridium botulinum EC#: 3.4.24.69 IUBMB
Fragment: residues 1-424
Gene Name(s): botA atx bna
Synaptosomal-associated protein 25 B 7 Homo sapiens Gene Name(s): SNAP25 Gene View SNAP

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
NH2
Query on NH2
B NON-POLYMER H2 N --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.200
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 50.87 α = 90.00
b = 66.58 β = 98.34
c = 65.06 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-06-05
  • Released Date: 2008-09-16
  • Deposition author(s): Kumaran, D., Swaminathan, S.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4