3BX4 Toxin date Jan 11, 2008
title Crystal Structure Of The Snake Venom Toxin Aggretin
authors E.Hooley, E.Papagrigoriou, A.Navdaev, A.Pandey, J.M.Clemetson, K.J.Clemetson, J.Emsley
compound source
Molecule: Aggretin Alpha Chain
Chain: A, C
 Organism_scientific: Agkistrodon Rhodostoma
Organism_common: Malayan Pit Viper
Secretion: Venom

Molecule: Aggretin Beta Chain
Chain: B, D
Organism_scientific: Agkistrodon Rhodostoma
Organism_common: Malayan Pit Viper
Secretion: Venom
symmetry Space Group: P 21 21 2
R_factor 0.202 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.318 91.305 118.916 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand GOL, SO4 enzyme
note 3BX4 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, C
  • toxin activity


    • Primary referenceThe crystal structure of the platelet activator aggretin reveals a novel (alphabeta)2 dimeric structure., Hooley E, Papagrigoriou E, Navdaev A, Pandey AV, Clemetson JM, Clemetson KJ, Emsley J, Biochemistry. 2008 Jul 29;47(30):7831-7. Epub 2008 Jul 3. PMID:18597489
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (98 Kb) [Save to disk]
  • Biological Unit Coordinates (3bx4.pdb1.gz) 91 Kb
  • LPC: Ligand-Protein Contacts for 3BX4
  • CSU: Contacts of Structural Units for 3BX4
  • Likely Quarternary Molecular Structure file(s) for 3BX4
  • Structure Factors (1124 Kb)
  • Retrieve 3BX4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BX4 from S2C, [Save to disk]
  • Re-refined 3bx4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3BX4 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 3BX4
  • 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 3BX4, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bx4_A] [3bx4_C] [3bx4_B] [3bx4] [3bx4_D]
  • SWISS-PROT database: [Q9I841] [Q9I840]
  • Domain organization of [AGGA_AGKRH] [AGGB_AGKRH] by SWISSPFAM
  • Domain found in 3BX4: [CLECT ] by SMART
    • Other resources with information on 3BX4
  • Community annotation for 3BX4 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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