3W08 Lyase date Oct 24, 2012
title Crystal Structure Of Aldoxime Dehydratase
authors H.Hashimoto, J.Nomura, Y.Hashimoto, K.I.Oinuma, K.Wada, A.Hishiki M.Kobayashi
compound source
Molecule: Aldoxime Dehydratase
Chain: A, B
Engineered: Yes
 Organism_scientific: Pseudomonas Chlororaphis
Organism_taxid: 587753
Gene: Oxda
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.157 R_Free 0.189
crystal
cell
length a length b length c angle alpha angle beta angle gamma
152.946 84.458 76.360 90.00 114.32 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand HEM enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of aldoxime dehydratase and its catalytic mechanism involved in carbon-nitrogen triple-bond synthesis., Nomura J, Hashimoto H, Ohta T, Hashimoto Y, Wada K, Naruta Y, Oinuma KI, Kobayashi M, Proc Natl Acad Sci U S A. 2013 Feb 4. PMID:23382199
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (258 Kb) [Save to disk]
  • Biological Unit Coordinates (3w08.pdb1.gz) 252 Kb
  • LPC: Ligand-Protein Contacts for 3W08
  • CSU: Contacts of Structural Units for 3W08
  • Structure Factors (1201 Kb)
  • Retrieve 3W08 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3W08 from S2C, [Save to disk]
  • Re-refined 3w08 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3W08 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 3W08
  • 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 3W08, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3w08_B] [3w08_A] [3w08]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3W08
  • Community annotation for 3W08 at PDBWiki (http://pdbwiki.org)

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