1GYG Hydrolase date Apr 23, 2002
title R32 Closed Form Of Alpha-Toxin From Clostridium Perfringens Cer89l43
authors A.K.Basak, J.T.Eaton, R.W.Titball
compound source
Molecule: Phospholipase C
Chain: A, B
Synonym: Alpha-Toxin, Phosphatidylcholine Cholinephosphohyd Hemolysin, Lecithinase;
Ec: 3.1.4.3
 Organism_scientific: Clostridium Perfringens
Organism_taxid: 1502
Strain: Cer89l43
symmetry Space Group: H 3 2
R_factor 0.208 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
151.400 151.400 195.500 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand ZN enzyme Hydrolase E.C.3.1.4.3 BRENDA
related structures by homologous chain: 1QMD
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • toxin activity


    • Primary referenceCrystal structure of the C. perfringens alpha-toxin with the active site closed by a flexible loop region., Eaton JT, Naylor CE, Howells AM, Moss DS, Titball RW, Basak AK, J Mol Biol 2002 May 31;319(2):275-81. PMID:12051905
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (133 Kb) [Save to disk]
  • Biological Unit Coordinates (1gyg.pdb1.gz) 189 Kb
  • Biological Unit Coordinates (1gyg.pdb2.gz) 188 Kb
  • LPC: Ligand-Protein Contacts for 1GYG
  • CSU: Contacts of Structural Units for 1GYG
  • Likely Quarternary Molecular Structure file(s) for 1GYG
  • Retrieve 1GYG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GYG from S2C, [Save to disk]
    • View 1GYG 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 1GYG
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1GYG, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gyga1, region A:1-249 [Jmol] [rasmolscript] [script source]
        - Domain d1gyga2, region A:250-370 [Jmol] [rasmolscript] [script source]
        - Domain d1gygb1, region B:1-249 [Jmol] [rasmolscript] [script source]
        - Domain d1gygb2, region B:250-370 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1gyg_A] [1gyg_B] [1gyg]
  • SWISS-PROT database: [P0C216]
  • Domain organization of [PHLC1_CLOPE] by SWISSPFAM
  • Domain found in 1GYG: [Zn_dep_PLPC ] by SMART
    • Other resources with information on 1GYG
  • Community annotation for 1GYG 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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