3MDL Oxidoreductase date Mar 30, 2010
title X-Ray Crystal Structure Of 1-Arachidonoyl Glycerol Bound To Cyclooxygenase Channel Of Cyclooxygenase-2
authors A.J.Vecchio, M.G.Malkowski
compound source
Molecule: Prostaglandin Gh Synthase 2
Chain: A, B
Fragment: Unp Residues 20 To 599
Synonym: Cyclooxygenase-2, Cox-2, Prostaglandin-Endoperoxid 2, Prostaglandin H2 Synthase 2, Pgh Synthase 2, Pghs-2, Phs Glucocorticoid-Regulated Inflammatory Cyclooxygenase, Gripg Protein, Macrophage Activation-Associated Marker Protein P7 2;
Ec: 1.14.99.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Ptgs2, Cox-2, Cox2, Pghs-B, Tis10
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_strain: Sf21
Expression_system_vector_type: Expression
Expression_system_plasmid: Pfastbac1
symmetry Space Group: I 2 2 2
R_factor 0.165 R_Free 0.215
crystal
cell
length a length b length c angle alpha angle beta angle gamma
118.958 131.773 179.858 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand 1AG, AKR, BOG, COH, GOL, MAN, NAG enzyme Oxidoreductase E.C.1.14.99.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • peroxidase activity


  • Primary referenceThe structural basis of endocannabinoid oxygenation by cyclooxygenase-2., Vecchio AJ, Malkowski MG, J Biol Chem. 2011 Jun 10;286(23):20736-45. Epub 2011 Apr 13. PMID:21489986
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (329 Kb) [Save to disk]
  • Biological Unit Coordinates (3mdl.pdb1.gz) 317 Kb
  • LPC: Ligand-Protein Contacts for 3MDL
  • CSU: Contacts of Structural Units for 3MDL
  • Structure Factors (1119 Kb)
  • Retrieve 3MDL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MDL from S2C, [Save to disk]
  • Re-refined 3mdl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MDL in 3D
  • Proteopedia, because life has more than 2D.
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  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3MDL
  • 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 3MDL, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mdl_A] [3mdl_B] [3mdl]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3MDL: [EGF ] by SMART
  • Other resources with information on 3MDL
  • Community annotation for 3MDL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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