2DY5 Oxidoreductase date Sep 06, 2006
title Crystal Structure Of Rat Heme Oxygenase-1 In Complex With He [2-(4-Chlorophenyl)Ethyl]-2-[(1h-Imidazol-1-Yl)Methyl]-1,3-
authors M.Sugishima, H.Takahashi, K.Fukuyama
compound source
Molecule: Heme Oxygenase 1
Chain: A
Fragment: C-Terminal Truncated Form
Synonym: Ho-1, Hsp32
Ec: 1.14.99.3
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbace
symmetry Space Group: P 32 2 1
R_factor 0.194 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.780 66.780 121.390 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.70 Å
ligand 224, CL, HEM enzyme Oxidoreductase E.C.1.14.99.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceX-ray crystallographic and biochemical characterization of the inhibitory action of an imidazole-dioxolane compound on heme oxygenase., Sugishima M, Higashimoto Y, Oishi T, Takahashi H, Sakamoto H, Noguchi M, Fukuyama K, Biochemistry. 2007 Feb 20;46(7):1860-7. Epub 2007 Jan 25. PMID:17253780
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (42 Kb) [Save to disk]
  • Biological Unit Coordinates (2dy5.pdb1.gz) 37 Kb
  • LPC: Ligand-Protein Contacts for 2DY5
  • CSU: Contacts of Structural Units for 2DY5
  • Likely Quarternary Molecular Structure file(s) for 2DY5
  • Structure Factors (130 Kb)
  • Retrieve 2DY5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DY5 from S2C, [Save to disk]
  • Re-refined 2dy5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2DY5 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 2DY5
  • 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 2DY5, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dy5] [2dy5_A]
  • SWISS-PROT database: [P06762]
  • Domain organization of [HMOX1_RAT] by SWISSPFAM
  • Other resources with information on 2DY5
  • Community annotation for 2DY5 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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