1PXX Oxidoreductase date Jul 07, 2003
title Crystal Structure Of Diclofenac Bound To The Cyclooxygenase Site Of Cox-2
authors J.R.Kiefer, S.W.Rowlinson, J.J.Prusakiewicz, J.L.Pawlitz, K.R.Ko A.S.Kalgutkar, W.C.Stallings, L.J.Marnett, R.G.Kurumbail
compound source
Molecule: Prostaglandin Gh Synthase 2
Chain: A, B, C, D
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
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Ptgs2 Or Cox2 Or Cox-2 Or Tis10 Or Pghs-B
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pvl1393
symmetry Space Group: P 21 21 2
R_factor 0.254 R_Free 0.302
crystal
cell
length a length b length c angle alpha angle beta angle gamma
181.145 135.090 124.165 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand BOG, DIF, HEM, NAG BindingDB enzyme Oxidoreductase E.C.1.14.99.1 BRENDA
related structures by homologous chain: 1DIY, 1IGZ
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceA novel mechanism of cyclooxygenase-2 inhibition involving interactions with Ser-530 and Tyr-385., Rowlinson SW, Kiefer JR, Prusakiewicz JJ, Pawlitz JL, Kozak KR, Kalgutkar AS, Stallings WC, Kurumbail RG, Marnett LJ, J Biol Chem 2003 Nov 14;278(46):45763-9. Epub 2003 Aug 18. PMID:12925531
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (379 Kb) [Save to disk]
  • Biological Unit Coordinates (1pxx.pdb1.gz) 186 Kb
  • Biological Unit Coordinates (1pxx.pdb2.gz) 187 Kb
  • LPC: Ligand-Protein Contacts for 1PXX
  • CSU: Contacts of Structural Units for 1PXX
  • Likely Quarternary Molecular Structure file(s) for 1PXX
  • Structure Factors (446 Kb)
  • Retrieve 1PXX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PXX from S2C, [Save to disk]
  • Re-refined 1pxx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PXX 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 1PXX
  • 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 1PXX, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pxxa2, region A:33-73 [Jmol] [rasmolscript] [script source]
        - Domain d1pxxa1, region A:74-583 [Jmol] [rasmolscript] [script source]
        - Domain d1pxxb2, region B:1033-1073 [Jmol] [rasmolscript] [script source]
        - Domain d1pxxb1, region B:1074-1583 [Jmol] [rasmolscript] [script source]
        - Domain d1pxxc2, region C:2033-2073 [Jmol] [rasmolscript] [script source]
        - Domain d1pxxc1, region C:2074-2583 [Jmol] [rasmolscript] [script source]
        - Domain d1pxxd2, region D:3033-3073 [Jmol] [rasmolscript] [script source]
        - Domain d1pxxd1, region D:3074-3583 [Jmol] [rasmolscript] [script source]
  • Fold representative 1pxx 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: [1pxx_C] [1pxx_A] [1pxx_B] [1pxx] [1pxx_D]
  • SWISS-PROT database: [Q05769]
  • Domain organization of [PGH2_MOUSE] by SWISSPFAM
  • Domain found in 1PXX: [EGF ] by SMART
  • Other resources with information on 1PXX
  • Community annotation for 1PXX 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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