4AOZ Hydrolase date Mar 30, 2012
title B. Subtilis Dutpase Yncf In Complex With Du, Ppi And Mg (P21
authors J.Timm, J.Garcia-Nafria, C.Harrison, J.P.Turkenburg, K.S.Wilson
compound source
Molecule: Probable Deoxyuridine 5'-Triphosphate Nucleotidoh Yncf;
Chain: A, B, C
Synonym: Dutpase, Dutp Pyrophosphatase
Ec: 3.6.1.23
Engineered: Yes
 Organism_scientific: Bacillus Subtilis
Organism_taxid: 1423
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.159 R_Free 0.213
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.270 71.534 92.299 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand ACT, CL, DUR, MG, POP enzyme Hydrolase E.C.3.6.1.23 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceTying down the arm in Bacillus dUTPase: structure and mechanism., Garcia-Nafria J, Timm J, Harrison C, Turkenburg JP, Wilson KS, Acta Crystallogr D Biol Crystallogr. 2013 Aug;69(Pt 8):1367-80. doi:, 10.1107/S090744491300735X. Epub 2013 Jul 13. PMID:23897460
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (4aoz.pdb1.gz) 80 Kb
  • LPC: Ligand-Protein Contacts for 4AOZ
  • CSU: Contacts of Structural Units for 4AOZ
  • Structure Factors (1412 Kb)
  • Retrieve 4AOZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4AOZ from S2C, [Save to disk]
  • Re-refined 4aoz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4AOZ 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 4AOZ
  • 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 4AOZ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4aoz_B] [4aoz] [4aoz_A] [4aoz_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4AOZ
  • Community annotation for 4AOZ at PDBWiki (http://pdbwiki.org)

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