1UER Oxidoreductase date May 20, 2003
title Crystal Structure Of Porphyromonas Gingivalis Sod
authors F.Yamakura, S.Sugio, B.Y.Hiraoka, T.Yokota, D.Ohmori
compound source
Molecule: Superoxide Dismutase
Chain: A, B, C, D
Synonym: Sod
Ec: 1.15.1.1
Engineered: Yes
Organism_scientific: Porphyromonas Gingivalis
Organism_taxid: 837
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tb-1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmal-C2
symmetry Space Group: P 21 21 21
R_factor 0.231 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.320 95.930 101.390 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand FE enzyme Oxidoreductase E.C.1.15.1.1 BRENDA
related structures by homologous chain: 1QNN, 1UES
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • superoxide dismutase activit...


  • Primary referencePronounced conversion of the metal-specific activity of superoxide dismutase from Porphyromonas gingivalis by the mutation of a single amino acid (Gly155Thr) located apart from the active site., Yamakura F, Sugio S, Hiraoka BY, Ohmori D, Yokota T, Biochemistry 2003 Sep 16;42(36):10790-9. PMID:12962504
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (133 Kb) [Save to disk]
  • Biological Unit Coordinates (1uer.pdb1.gz) 67 Kb
  • Biological Unit Coordinates (1uer.pdb2.gz) 64 Kb
  • LPC: Ligand-Protein Contacts for 1UER
  • CSU: Contacts of Structural Units for 1UER
  • Likely Quarternary Molecular Structure file(s) for 1UER
  • Retrieve 1UER in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1UER from S2C, [Save to disk]
  • View 1UER 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 1UER
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1UER, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1uera1, region A:1-84 [Jmol] [rasmolscript] [script source]
        - Domain d1uera2, region A:85-191 [Jmol] [rasmolscript] [script source]
        - Domain d1uerb1, region B:201-284 [Jmol] [rasmolscript] [script source]
        - Domain d1uerb2, region B:285-391 [Jmol] [rasmolscript] [script source]
        - Domain d1uerc1, region C:401-484 [Jmol] [rasmolscript] [script source]
        - Domain d1uerc2, region C:495-581 [Jmol] [rasmolscript] [script source]
        - Domain d1uerd1, region D:601-684 [Jmol] [rasmolscript] [script source]
        - Domain d1uerd2, region D:685-791 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1uer] [1uer_B] [1uer_A] [1uer_C] [1uer_D]
  • SWISS-PROT database: [P19665]
  • Domain organization of [SODF_PORGI] by SWISSPFAM
  • Other resources with information on 1UER
  • Community annotation for 1UER 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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