4OGG Crystal Structure of Arabidopsis thaliana DJ-1d with glyoxylate as substrate analog date
authors Choi, D., Kim, J., Ryu, K.S., Park, C.
compound source
symmetry
R_factor
R_Free 0.2124
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.60
ligand CGV enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, B
  • glyoxalase III activity


    • Primary referenceStereospecific mechanism of DJ-1 glyoxalases inferred from their hemithioacetal-containing crystal structures., Choi D, Kim J, Ha S, Kwon K, Kim EH, Lee HY, Ryu KS, Park C, FEBS J. 2014 Oct 4. doi: 10.1111/febs.13085. PMID:25283443
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (195 Kb) [Save to disk]
  • Biological Unit Coordinates (4ogg.pdb1.gz) 191 Kb
  • LPC: Ligand-Protein Contacts for 4OGG
  • CSU: Contacts of Structural Units for 4OGG
  • Structure Factors (1588 Kb)
  • Retrieve 4OGG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4OGG from S2C, [Save to disk]
  • Re-refined 4ogg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4OGG 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 4OGG
  • 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 4OGG, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ogg_A] [4ogg_C] [4ogg_B] [4ogg]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4OGG
  • Community annotation for 4OGG at PDBWiki (http://pdbwiki.org)

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