1GN3 Oxidoreductase date Oct 02, 2001
title H145q Mutant Of Mycobacterium Tuberculosis Iron-Superoxide Dismutase.
authors K.A.Bunting, J.B.Cooper, M.O.Badasso, I.J.Tickle, M.Newton, S.P.Wood, Y.Zhang, D.B.Young
compound source
Molecule: Superoxide Dismutase
Chain: A, B
Ec: 1.15.1.1
Engineered: Yes
Mutation: Yes
 Organism_scientific: Mycobacterium Tuberculosis
Expression_system: Mycobacterium Vaccae
symmetry Space Group: P 31 2 1
R_factor 0.168
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.880 103.880 69.920 90.00 90.00 120.00
method X-Ray Diffractionresolution 4. Å
ligand FE enzyme Superoxide dismutase;. Superoxidase dismutase;. Copper-zinc superoxide dismutase;. Cu-Zn superoxide dismutase;. Ferrisuperoxide dismutase;. Superoxide dismutase I;. Superoxide dismutase II;. SOD;. Cu,Zn-SOD;. Mn-SOD;. Fe-SOD;. SODF;. SODS;. SOD-1;. SOD-2;. SOD-3;. SOD-4;. Hemocuprein;. Erythrocuprein;. Cytocuprein;. Cuprein;. Hepatocuprein. Oxidoreductase E.C.1.15.1.1 BRENDA
similarity Belongs to the iron/manganese superoxide dismutase family.[Sod_Fe_C]
subunit Homotetramer.
catalytic activ. 2 superoxide + 2 h(+) = o(2) + h(2)o(2).
subcellular loc. Secreted protein.
genes sodB (A. fumigatus); SOD1 (B. taurus); sodA (D. radiodurans); sodA, sodB, sodC (E. coli); SOD1, SOD2 (H. sapiens); sod (M. thermoautotrophicum); MT0447, sodC (M. tuberculosis); sodC (P. leiognathi); sodB (P. gingivalis); sodA (P. freudenreichii); sodB (P. putida); sod (P. aerophilum); sodC1, sodC (S. typhimurium); SOD (S. mansoni); SODCP (S. oleracea); sodN (S. seoulensis); sod (S. acidocaldarius); sod (S. solfataricus); sodA (T. thermophilus); sod1-B (X. laevis); SOD1 (S. cerevisiae)
function Destroys radicals which are normally produced within the cells and which are toxic to biological systems.
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • superoxide dismutase activit...
  • iron ion binding
  • oxidoreductase activity
  • metal ion binding
  • superoxide metabolic process...

    • disease Amyotrophic lateral sclerosis,due to SOD1 deficiency
    Superoxide Dismutase 2; Sod2
    Primary referenceEngineering a change in metal-ion specificity of the iron-dependent superoxide dismutase from Mycobacterium tuberculosis-- X-ray structure analysis of site-directed mutants., Bunting K, Cooper JB, Badasso MO, Tickle IJ, Newton M, Wood SP, Zhang Y, Young D, Eur J Biochem 1998 Feb 1;251(3):795-803. PMID:9490054
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (1gn3.pdb1.gz) 61 Kb
  • CSU: Contacts of Structural Units for 1GN3
  • Likely Quarternary Molecular Structure file(s) for 1GN3
  • Structure Factors (74 Kb)
  • Retrieve 1GN3 in mmCIF format [Save to disk]
    • View 1GN3 in 3D
  • 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.
  • On AstexViewer, from MSD-EBI (viewer documentation).
  • On RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 1GN3
  • Protein Explorer, Easier to use and more powerful than RasMol. (Win and Mac only)
  • Noncovalent Bond Finder displays the closest contacts to ligand or interface, reports distances, walks over water bridges.
  • STING, shows the sequence and maps the locations of sequence residues or residue ranges onto the 3D structure.
  • GRASS (Graphical Representation and Analysis of Structure Server)
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1GN3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gn3a1, region A:2-85 [Jmol] [rasmolscript] [script source]
        - Domain d1gn3a2, region A:86-199 [Jmol] [rasmolscript] [script source]
        - Domain d1gn3b1, region B:2-85 [Jmol] [rasmolscript] [script source]
        - Domain d1gn3b2, region B:86-199 [Jmol] [rasmolscript] [script source]
  • Fold representative 1gn3 from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1gn3_B] [1gn3_A]
    • Other resources with information on 1GN3
  • InterPro: IPR001189
  • PDBREPORT (protein verification by WHAT_CHECK procedures)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2006
    Bioinformatics and Biological Computing
    Weizmann Institute of Science