1Y62 Toxin date Dec 03, 2004
title A 2.4 Crystal Structure Of Conkunitzin-S1, A Novel Kunitz-Fo Snail Neurotoxin.
authors C.Y.Dy, P.Buczek, M.P.Horvath
compound source
Molecule: Conkunitzin-S1
Chain: A, B, C, D, E, F
Engineered: Yes
 Synthetic: Yes
Other_details: The Sequence Of This Peptide Occurs Naturall Conus Striatus (Cone Snail). This Peptide Was Synthesized I Parts And Subsequently Joined Through Native Chemical Ligat
symmetry Space Group: P 1
R_factor 0.221 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.756 51.543 51.600 119.92 107.52 91.14
method X-Ray Diffractionresolution 2.45 Å
ligand SO4 enzyme
note 1Y62 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B
  • serine-type endopeptidase in...
  • toxin activity


    • Primary referenceStructure of conkunitzin-S1, a neurotoxin and Kunitz-fold disulfide variant from cone snail., Dy CY, Buczek P, Imperial JS, Bulaj G, Horvath MP, Acta Crystallogr D Biol Crystallogr. 2006 Sep;62(Pt 9):980-90. Epub 2006, Aug 19. PMID:16929098
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (61 Kb) [Save to disk]
  • Biological Unit Coordinates (1y62.pdb1.gz) 11 Kb
  • Biological Unit Coordinates (1y62.pdb2.gz) 11 Kb
  • Biological Unit Coordinates (1y62.pdb3.gz) 11 Kb
  • Biological Unit Coordinates (1y62.pdb4.gz) 11 Kb
  • Biological Unit Coordinates (1y62.pdb5.gz) 11 Kb
  • Biological Unit Coordinates (1y62.pdb6.gz) 11 Kb
  • LPC: Ligand-Protein Contacts for 1Y62
  • CSU: Contacts of Structural Units for 1Y62
  • Likely Quarternary Molecular Structure file(s) for 1Y62
  • Structure Factors (225 Kb)
  • Retrieve 1Y62 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y62 from S2C, [Save to disk]
  • Re-refined 1y62 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1Y62 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 1Y62
  • 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 1Y62, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y62_A] [1y62_F] [1y62_E] [1y62_B] [1y62_C] [1y62] [1y62_D]
  • SWISS-PROT database: [P0C1X2]
  • Domain organization of [CONK1_CONST] by SWISSPFAM
  • Domain found in 1Y62: [KU ] by SMART
    • Other resources with information on 1Y62
  • Community annotation for 1Y62 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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