3LVY Lyase date Feb 22, 2010
title Crystal Structure Of Carboxymuconolactone Decarboxylase Family Protein Smu.961 From Streptococcus Mutans
authors Y.Kim, X.Xu, H.Cui, S.Chin, A.Edwards, A.Savchenko, A.Joachimiak, Midwest Center For Structural Genomics (Mcsg)
compound source
Molecule: Carboxymuconolactone Decarboxylase Family
Chain: A, B, C, D, E, F
Engineered: Yes
 Organism_scientific: Streptococcus Mutans
Organism_taxid: 1309
Strain: Ua159
Gene: Smu_961
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21 Magic
symmetry Space Group: C 1 2 1
R_factor 0.184 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
97.996 73.741 183.708 90.00 98.68 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand BME, CL, MSE, SO4 enzyme
note 3LVY is a representative structure
Gene SMU
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B
  • peroxiredoxin activity


    • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (374 Kb) [Save to disk]
  • Biological Unit Coordinates (3lvy.pdb1.gz) 127 Kb
  • Biological Unit Coordinates (3lvy.pdb2.gz) 123 Kb
  • Biological Unit Coordinates (3lvy.pdb3.gz) 121 Kb
  • LPC: Ligand-Protein Contacts for 3LVY
  • CSU: Contacts of Structural Units for 3LVY
  • Structure Factors (583 Kb)
  • Retrieve 3LVY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3LVY from S2C, [Save to disk]
  • Re-refined 3lvy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3LVY 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 3LVY
  • 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 3LVY, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3lvy] [3lvy_F] [3lvy_D] [3lvy_C] [3lvy_B] [3lvy_E] [3lvy_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3LVY
  • Community annotation for 3LVY 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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