1ZD3 Hydrolase date Apr 14, 2005
title Human Soluble Epoxide Hydrolase 4-(3-Cyclohexyluriedo)- Butyric Acid Complex
authors G.A.Gomez, C.Morisseau, B.D.Hammock, D.W.Christianson
compound source
Molecule: Epoxide Hydrolase 2, Cytoplasmic
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ephx2
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: Achseh1
symmetry Space Group: P 65 2 2
R_factor 0.212 R_Free 0.254
length a length b length c angle alpha angle beta angle gamma
92.410 92.410 243.316 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand 15P, MG, NC4, PO4 BindingDB enzyme Hydrolase E.C. BRENDA

Primary referenceHuman soluble epoxide hydrolase: structural basis of inhibition by 4-(3-cyclohexylureido)-carboxylic acids., Gomez GA, Morisseau C, Hammock BD, Christianson DW, Protein Sci. 2006 Jan;15(1):58-64. Epub 2005 Dec 1. PMID:16322563
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (1zd3.pdb1.gz) 181 Kb
  • LPC: Ligand-Protein Contacts for 1ZD3
  • CSU: Contacts of Structural Units for 1ZD3
  • Likely Quarternary Molecular Structure file(s) for 1ZD3
  • Structure Factors (200 Kb)
  • Retrieve 1ZD3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZD3 from S2C, [Save to disk]
  • Re-refined 1zd3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1ZD3 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 1ZD3
  • 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 1ZD3, from MSDmotif at EBI
  • Fold representative 1zd3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1zd3] [1zd3_A]
  • SWISS-PROT database: [P34913]
  • Domain organization of [HYES_HUMAN] by SWISSPFAM
  • Other resources with information on 1ZD3
  • Community annotation for 1ZD3 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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