2NP0 Hydrolase date Oct 26, 2006
title Crystal Structure Of The Botulinum Neurotoxin Type B Complex Synaptotagamin-II Ectodomain
authors Q.Chai, J.W.Arndt, R.C.Stevens
compound source
Molecule: Botulinum Neurotoxin Type B
Chain: A
Ec: 3.4.24.69
 Organism_scientific: Clostridium Botulinum
Organism_taxid: 1491
Strain: Type B1_okra

Molecule: Synaptotagmin-2
Chain: B
Fragment: Vesicular (Residues 1-60)
Synonym: Synaptotagmin II, Sytii
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Syt2
symmetry Space Group: C 2 2 21
R_factor 0.186 R_Free 0.227
crystal
cell
length a length b length c angle alpha angle beta angle gamma
170.415 351.971 101.968 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.62 Å
ligand CA, CL, ZN enzyme Hydrolase E.C.3.4.24.69 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • protein transmembrane transp...
  • toxin activity


    • Primary referenceStructural basis of cell surface receptor recognition by botulinum neurotoxin B., Chai Q, Arndt JW, Dong M, Tepp WH, Johnson EA, Chapman ER, Stevens RC, Nature. 2006 Dec 21;444(7122):1096-100. Epub 2006 Dec 13. PMID:17167418
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (227 Kb) [Save to disk]
  • Biological Unit Coordinates (2np0.pdb1.gz) 220 Kb
  • Biological Unit Coordinates (2np0.pdb2.gz) 434 Kb
  • LPC: Ligand-Protein Contacts for 2NP0
  • CSU: Contacts of Structural Units for 2NP0
  • Structure Factors (1309 Kb)
  • Retrieve 2NP0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2NP0 from S2C, [Save to disk]
  • Re-refined 2np0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2NP0 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 2NP0
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2NP0, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2np0] [2np0_A] [2np0_B]
  • SWISS-PROT database: [P10844] [P46097]
  • Domain organization of [BXB_CLOBO] [SYT2_MOUSE] by SWISSPFAM
    • Other resources with information on 2NP0
  • Community annotation for 2NP0 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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