1NRG Oxidoreductase date Jan 24, 2003
title Structure And Properties Of Recombinant Human Pyridoxine-5'- Oxidase
authors F.N.Musayev, M.L.Di Salvo, T.P.Ko, V.Schirch, M.K.Safo
compound source
Molecule: Pyridoxine 5'-Phosphate Oxidase
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Human
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Hms174
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 31 2 1
R_factor 0.192 R_Free 0.253
length a length b length c angle alpha angle beta angle gamma
82.747 82.747 59.327 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.95 Å
ligand BME, FMN, PLP, PO4 enzyme
note 1NRG is a representative structure

Primary referenceStructure and properties of recombinant human pyridoxine 5'-phosphate oxidase., Musayev FN, Di Salvo ML, Ko TP, Schirch V, Safo MK, Protein Sci. 2003 Jul;12(7):1455-63. PMID:12824491
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (1nrg.pdb1.gz) 82 Kb
  • LPC: Ligand-Protein Contacts for 1NRG
  • CSU: Contacts of Structural Units for 1NRG
  • Likely Quarternary Molecular Structure file(s) for 1NRG
  • Structure Factors (93 Kb)
  • Retrieve 1NRG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NRG from S2C, [Save to disk]
  • Re-refined 1nrg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1NRG 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 1NRG
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1NRG, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nrga_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1nrg from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1nrg] [1nrg_A]
  • SWISS-PROT database: [Q9NVS9]
  • Domain organization of [PNPO_HUMAN] by SWISSPFAM
  • Other resources with information on 1NRG
  • Community annotation for 1NRG 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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