1URO Lyase date Aug 21, 1998
title Uroporphyrinogen Decarboxylase
authors F.G.Whitby, J.D.Phillips, J.P.Kushner, C.P.Hill
compound source
Molecule: Protein (Uroporphyrinogen Decarboxylase)
Chain: A
Synonym: Uro-D, Urod
Ec: 4.1.1.37
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Other_details: His-Tag Cleaved
symmetry Space Group: P 31 2 1
R_factor 0.184 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.000 103.000 73.700 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand BME enzyme Lyase E.C.4.1.1.37 BRENDA
related structures by homologous chain: 1R3R, 1R3Y
Gene
Ontology
ChainFunctionProcessComponent
A
  • uroporphyrinogen decarboxyla...


  • Primary referenceCrystal structure of human uroporphyrinogen decarboxylase., Whitby FG, Phillips JD, Kushner JP, Hill CP, EMBO J 1998 May 1;17(9):2463-71. PMID:9564029
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk]
  • Biological Unit Coordinates (1uro.pdb1.gz) 121 Kb
  • LPC: Ligand-Protein Contacts for 1URO
  • CSU: Contacts of Structural Units for 1URO
  • Likely Quarternary Molecular Structure file(s) for 1URO
  • Structure Factors (709 Kb)
  • Retrieve 1URO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1URO from S2C, [Save to disk]
  • Re-refined 1uro structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1URO 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 1URO
  • 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 1URO, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1uroa_, region A [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: [1uro] [1uro_A]
  • SWISS-PROT database: [P06132]
  • Domain organization of [DCUP_HUMAN] by SWISSPFAM
  • Other resources with information on 1URO
  • Community annotation for 1URO 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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