1V04 Hydrolase date Mar 22, 2004
title Serum Paraoxonase By Directed Evolution
authors M.Harel, A.Aharoni, L.Gaidukov, B.Brumshtein, O.Khersonsky, S.Yag R.Meged, H.Dvir, R.B.G.Ravelli, A.Mccarthy, L.Toker, I.Silman, J.L.Sussman, D.S.Tawfik
compound source
Molecule: Serum Paraoxonasearylesterase 1
Chain: A
Synonym: A-Esterase 1, Serum Aryldialkylphosphatase 1, Pon1 Esterase 1;
Engineered: Yes
Other_details: Paraoxonase-1 (Pon1)
Organism_scientific: Homo Sapiens, Oryctolagus Cuniculus, M Musculus, Rattus Rattus;
Organism_taxid: 9606, 9986, 10090, 10117
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Origami B (De3)
Expression_system_plasmid: Pet 32b(+)
Other_details: From Shuffled Genes Of Human, Rabbit, Mouse Paraoxonase
symmetry Space Group: P 43 21 2
R_factor 0.185 R_Free 0.217
length a length b length c angle alpha angle beta angle gamma
98.440 98.440 139.170 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand CA, PO4 enzyme Hydrolase E.C. BRENDA
  • aryldialkylphosphatase activ...
  • antioxidant activity

  • Primary referenceStructure and evolution of the serum paraoxonase family of detoxifying and anti-atherosclerotic enzymes., Harel M, Aharoni A, Gaidukov L, Brumshtein B, Khersonsky O, Meged R, Dvir H, Ravelli RB, McCarthy A, Toker L, Silman I, Sussman JL, Tawfik DS, Nat Struct Mol Biol 2004 May;11(5):412-9. Epub 2004 Apr 18. PMID:15098021
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (60 Kb) [Save to disk]
  • Biological Unit Coordinates (1v04.pdb1.gz) 56 Kb
  • LPC: Ligand-Protein Contacts for 1V04
  • CSU: Contacts of Structural Units for 1V04
  • Likely Quarternary Molecular Structure file(s) for 1V04
  • Structure Factors (256 Kb)
  • Retrieve 1V04 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V04 from S2C, [Save to disk]
  • Re-refined 1v04 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1V04 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 1V04
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1V04, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1v04a_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1v04 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1v04] [1v04_A]
  • SWISS-PROT database: [P27169]
  • Belongs to the epithelial na(+) channel (enac) family according to TCDB.
  • Domain organization of [PON1_HUMAN] by SWISSPFAM
  • Other resources with information on 1V04
  • Community annotation for 1V04 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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