1VAR Oxidoreductase date Jan 04, 1996
title Mitochondrial Manganese Superoxide Dismutase Variant With Il Replaced By Thr
authors G.E.O.Borgstahl, H.E.Parge, J.A.Tainer
compound source
Molecule: Manganese Superoxide Dismutase
Chain: A, B
Ec: 1.15.1.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Kidney
Gene: Human Kidney Sod2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Sodasodb
Expression_system_gene: Human Kidney Sod2
symmetry Space Group: P 21 21 2
R_factor 0.170 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.000 78.100 68.100 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand MN3 enzyme Oxidoreductase E.C.1.15.1.1 BRENDA
related structures by homologous chain: 1LUW
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceHuman mitochondrial manganese superoxide dismutase polymorphic variant Ile58Thr reduces activity by destabilizing the tetrameric interface., Borgstahl GE, Parge HE, Hickey MJ, Johnson MJ, Boissinot M, Hallewell RA, Lepock JR, Cabelli DE, Tainer JA, Biochemistry 1996 Apr 9;35(14):4287-97. PMID:8605177
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (89 Kb) [Save to disk]
  • Biological Unit Coordinates (1var.pdb1.gz) 168 Kb
  • LPC: Ligand-Protein Contacts for 1VAR
  • CSU: Contacts of Structural Units for 1VAR
  • Likely Quarternary Molecular Structure file(s) for 1VAR
  • Retrieve 1VAR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VAR from S2C, [Save to disk]
  • View 1VAR 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 1VAR
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1VAR, from MSDmotif at EBI
  • Genome occurence of 1VAR's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vara1, region A:1-83 [Jmol] [rasmolscript] [script source]
        - Domain d1vara2, region A:84-198 [Jmol] [rasmolscript] [script source]
        - Domain d1varb1, region B:1-83 [Jmol] [rasmolscript] [script source]
        - Domain d1varb2, region B:84-198 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1var_B] [1var] [1var_A]
  • SWISS-PROT database: [P04179]
  • Domain organization of [SODM_HUMAN] by SWISSPFAM
  • Other resources with information on 1VAR
  • Community annotation for 1VAR 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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