3ZF6 Hydrolase date Dec 10, 2012
title Phage Dutpases Control Transfer Of Virulence Genes By A Prot Oncogenic G Protein-Like Mechanism. (Staphylococcus Bacteri 80alpha Dutpase D81a D110c S168c Mutant With Dupnhpp).
authors M.A.Tormo-Mas, J.Donderis, M.Garcia-Caballer, A.Alt, I.Mir-Sanch A.Marina, J.R.Penades
compound source
Molecule: Dutpase
Chain: A
Ec: 3.6.1.23
Engineered: Yes
Mutation: Yes
Other_details: Structure In Presence Of Dump
Organism_scientific: Staphylococcus Phage 80alpha
Organism_taxid: 53369
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet28a
symmetry Space Group: P 21 3
R_factor 0.224 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
87.460 87.460 87.460 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand NI, UMP enzyme Hydrolase E.C.3.6.1.23 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referencePhage dUTPases Control Transfer of Virulence Genes by a Proto-Oncogenic G Protein-like Mechanism., Tormo-Mas MA, Donderis J, Garcia-Caballer M, Alt A, Mir-Sanchis I, Marina A, Penades JR, Mol Cell. 2013 Jan 15. pii: S1097-2765(12)01049-0. doi:, 10.1016/j.molcel.2012.12.013. PMID:23333307
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (35 Kb) [Save to disk]
  • Biological Unit Coordinates (3zf6.pdb1.gz) 83 Kb
  • LPC: Ligand-Protein Contacts for 3ZF6
  • CSU: Contacts of Structural Units for 3ZF6
  • Structure Factors (258 Kb)
  • Retrieve 3ZF6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ZF6 from S2C, [Save to disk]
  • Re-refined 3zf6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3ZF6 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 3ZF6
  • 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 3ZF6, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3zf6] [3zf6_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3ZF6
  • Community annotation for 3ZF6 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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