1DDX Oxidoreductase date Nov 11, 1999
title Crystal Structure Of A Mixture Of Arachidonic Acid And Prost Bound To The Cyclooxygenase Active Site Of Cox-2: Prostagla Structure
authors J.R.Kiefer, J.L.Pawlitz, K.T.Moreland, R.A.Stegeman, J.K.Gierse, A.M.Stevens, D.C.Goodwin, S.W.Rowlinson, L.J.Marnett, W.C.Stall R.G.Kurumbail
compound source
Molecule: Protein (Prostaglandin H2 Synthase-2)
Chain: A, B, C, D
Synonym: Cox-2
Ec: 1.14.99.1
Engineered: Yes
 Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_plasmid: Pvl1393
symmetry Space Group: P 21 21 2
R_factor 0.267 R_Free 0.324
crystal
cell
length a length b length c angle alpha angle beta angle gamma
180.240 134.800 122.510 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand BOG, NAG, PGX enzyme Oxidoreductase E.C.1.14.99.1 BRENDA
related structures by homologous chain: 1FE2
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • peroxidase activity


    • Primary referenceStructural insights into the stereochemistry of the cyclooxygenase reaction., Kiefer JR, Pawlitz JL, Moreland KT, Stegeman RA, Hood WF, Gierse JK, Stevens AM, Goodwin DC, Rowlinson SW, Marnett LJ, Stallings WC, Kurumbail RG, Nature 2000 May 4;405(6782):97-101. PMID:10811226
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (371 Kb) [Save to disk]
  • Biological Unit Coordinates (1ddx.pdb1.gz) 184 Kb
  • Biological Unit Coordinates (1ddx.pdb2.gz) 184 Kb
  • LPC: Ligand-Protein Contacts for 1DDX
  • CSU: Contacts of Structural Units for 1DDX
  • Likely Quarternary Molecular Structure file(s) for 1DDX
  • Structure Factors (406 Kb)
  • Retrieve 1DDX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DDX from S2C, [Save to disk]
  • Re-refined 1ddx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1DDX 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 1DDX
  • 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 1DDX, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ddxa2, region A:33-73 [Jmol] [rasmolscript] [script source]
        - Domain d1ddxa1, region A:74-583 [Jmol] [rasmolscript] [script source]
        - Domain d1ddxb2, region B:1033-1073 [Jmol] [rasmolscript] [script source]
        - Domain d1ddxb1, region B:1074-1583 [Jmol] [rasmolscript] [script source]
        - Domain d1ddxc2, region C:2033-2073 [Jmol] [rasmolscript] [script source]
        - Domain d1ddxc1, region C:2074-2583 [Jmol] [rasmolscript] [script source]
        - Domain d1ddxd2, region D:3033-3073 [Jmol] [rasmolscript] [script source]
        - Domain d1ddxd1, region D:3074-3583 [Jmol] [rasmolscript] [script source]
  • 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: [1ddx_A] [1ddx_C] [1ddx_D] [1ddx_B] [1ddx]
  • SWISS-PROT database: [Q05769]
  • Domain organization of [PGH2_MOUSE] by SWISSPFAM
  • Domain found in 1DDX: [EGF ] by SMART
    • Other resources with information on 1DDX
  • Community annotation for 1DDX 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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