1XDC Oxidoreductase date Sep 05, 2004
title Hydrogen Bonding In Human Manganese Superoxide Dismutase Con Fluorotyrosine
authors I.Ayala, J.J.Perry, J.Szczepanski, D.E.Cabelli, J.A.Tainer, M.T.V H.S.Nick, D.N.Silverman
compound source
Molecule: Superoxide Dismutase [Mn], Mitochondrial
Chain: A, B
Ec: 1.15.1.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sod2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Qc774i (Sod--)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptrc99a
symmetry Space Group: P 21 21 2
R_factor 0.212 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.036 75.419 67.818 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand MN, YOF enzyme Oxidoreductase E.C.1.15.1.1 BRENDA
related structures by homologous chain: 1LUV, 1N0N
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceHydrogen bonding in human manganese superoxide dismutase containing 3-fluorotyrosine., Ayala I, Perry JP, Szczepanski J, Tainer JA, Vala MT, Nick HS, Silverman DN, Biophys J 2005 Sep 8;. PMID:16150974
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (1xdc.pdb1.gz) 142 Kb
  • LPC: Ligand-Protein Contacts for 1XDC
  • CSU: Contacts of Structural Units for 1XDC
  • Likely Quarternary Molecular Structure file(s) for 1XDC
  • Structure Factors (358 Kb)
  • Retrieve 1XDC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XDC from S2C, [Save to disk]
  • Re-refined 1xdc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1XDC 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 1XDC
  • 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 1XDC, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1xdc_A] [1xdc_B] [1xdc]
  • SWISS-PROT database: [P04179]
  • Domain organization of [SODM_HUMAN] by SWISSPFAM
  • Other resources with information on 1XDC
  • Community annotation for 1XDC 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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