5LTE Oxidoreductase date Sep 06, 2016
title Crystal Structure Of The Alpha Subunit Of Heme Dependent Oxi Demethylase (Hodm)
authors M.Ortmayer, D.Leys
compound source
Molecule: Heme Dependent Oxidative N-Demethylase
Chain: A
Engineered: Yes
 Organism_scientific: Pseudomonas Mendocina (Strain Ymp)
Organism_taxid: 399739
Strain: Ymp
Gene: Pmen_3455
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 43 21 2
R_factor 0.163 R_Free 0.194
crystal
cell
length a length b length c angle alpha angle beta angle gamma
79.908 79.908 144.712 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.65 Å
ligand ETX, HEM, NA enzyme
Gene PMEN
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAn oxidative N-demethylase reveals PAS transition from ubiquitous sensor to enzyme., Ortmayer M, Lafite P, Menon BR, Tralau T, Fisher K, Denkhaus L, Scrutton NS, Rigby SE, Munro AW, Hay S, Leys D, Nature. 2016 Nov 24;539(7630):593-597. doi: 10.1038/nature20159. Epub 2016 Nov, 16. PMID:27851736
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (5lte.pdb1.gz) 64 Kb
  • LPC: Ligand-Protein Contacts for 5LTE
  • CSU: Contacts of Structural Units for 5LTE
  • Structure Factors (1179 Kb)
  • Retrieve 5LTE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5LTE from S2C, [Save to disk]
  • Re-refined 5lte structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5LTE 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 5LTE
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5lte] [5lte_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5LTE
  • Community annotation for 5LTE at PDBWiki (http://pdbwiki.org)

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