1XX1 Hydrolase date Nov 03, 2004
title Structural Basis For Ion-Coordination And The Catalytic Mech Sphingomyelinases D
authors M.T.Murakami, D.V.Tambourgi, R.K.Arni
compound source
Molecule: Sphingomyelinase I
Chain: A, B, C, D
Synonym: Smase I
Ec: 3.1.4.41
Engineered: Yes
 Organism_scientific: Loxosceles Laeta
Organism_taxid: 58217
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
symmetry Space Group: P 65
R_factor 0.186 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
139.818 139.818 113.461 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.75 Å
ligand EPE, MG, SO4 enzyme Hydrolase E.C.3.1.4.41 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • toxin activity


    • Primary referenceStructural basis for metal-ion coordination and the catalytic mechanism of sphingomyelinases D., Murakami MT, Fernandes-Pedrosa MF, Tambourgi DV, Arni RK, J Biol Chem 2005 Jan 14;. PMID:15654080
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (214 Kb) [Save to disk]
  • Biological Unit Coordinates (1xx1.pdb1.gz) 106 Kb
  • Biological Unit Coordinates (1xx1.pdb2.gz) 105 Kb
  • Biological Unit Coordinates (1xx1.pdb3.gz) 206 Kb
  • Biological Unit Coordinates (1xx1.pdb4.gz) 208 Kb
  • Biological Unit Coordinates (1xx1.pdb5.gz) 207 Kb
  • LPC: Ligand-Protein Contacts for 1XX1
  • CSU: Contacts of Structural Units for 1XX1
  • Likely Quarternary Molecular Structure file(s) for 1XX1
  • Structure Factors (1742 Kb)
  • Retrieve 1XX1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XX1 from S2C, [Save to disk]
  • Re-refined 1xx1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1XX1 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 1XX1
  • 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 1XX1, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1xx1_D] [1xx1_A] [1xx1_B] [1xx1] [1xx1_C]
  • SWISS-PROT database: [Q8I914]
  • Domain organization of [A311_LOXLA] by SWISSPFAM
    • Other resources with information on 1XX1
  • Community annotation for 1XX1 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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