1DYZ Electron Transport date Feb 11, 2000
title Oxidised Azurin II From Alcaligenes Xylosoxidans
authors F.E.Dodd, Z.H.L.Abraham, R.R.Eady, S.S.Hasnain
compound source
Molecule: Azurin II
Chain: A
 Organism_scientific: Alcaligenes Xylosoxidans
Organism_taxid: 85698
Cellular_location: Periplasm
Other_details: Ncimb 11015
symmetry Space Group: P 41 2 2
R_factor 0.189 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
52.650 52.650 100.630 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand CU enzyme
note 1DYZ supersedes 1ARN
related structures by homologous chain: 1DZ0, 1NWP
Gene
Ontology
ChainFunctionProcessComponent
A
  • electron transfer activity


    • Primary referenceStructures of oxidized and reduced azurin II from Alcaligenes xylosoxidans at 1.75 A resolution., Dodd FE, Abraham ZH, Eady RR, Hasnain SS, Acta Crystallogr D Biol Crystallogr 2000 Jun;56 ( Pt 6):690-6. PMID:10818345
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (25 Kb) [Save to disk]
  • Biological Unit Coordinates (1dyz.pdb1.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 1DYZ
  • CSU: Contacts of Structural Units for 1DYZ
  • Likely Quarternary Molecular Structure file(s) for 1DYZ
  • Structure Factors (143 Kb)
  • Retrieve 1DYZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DYZ from S2C, [Save to disk]
  • Re-refined 1dyz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1DYZ 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 1DYZ
  • 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 1DYZ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dyza_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dyz] [1dyz_A]
  • SWISS-PROT database: [P56275]
  • Domain organization of [AZUR2_ALCXX] by SWISSPFAM
    • Other resources with information on 1DYZ
  • Community annotation for 1DYZ 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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