4EDK The structure of the S. aureus DnaG RNA Polymerase Domain bound to GTP and Manganese date 2012-03-27
authors Rymer, R.U., Solorio, F.A., Chu, C., Corn, J.E., Wang, J.D., Berger, J.M.
compound source
symmetry
R_factor
R_Free 0.1999
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.00
ligand BEN, GTP, MN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceBinding Mechanism of MetalNTP Substrates and Stringent-Response Alarmones to Bacterial DnaG-Type Primases., Rymer RU, Solorio FA, Tehranchi AK, Chu C, Corn JE, Keck JL, Wang JD, Berger JM, Structure. 2012 Jul 10. PMID:22795082
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk]
  • Biological Unit Coordinates (4edk.pdb1.gz) 114 Kb
  • LPC: Ligand-Protein Contacts for 4EDK
  • CSU: Contacts of Structural Units for 4EDK
  • Structure Factors (261 Kb)
  • Retrieve 4EDK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4EDK from S2C, [Save to disk]
  • Re-refined 4edk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4EDK 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 4EDK
  • 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 4EDK, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4edk_A] [4edk]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4EDK: [TOPRIM ] by SMART
    • Other resources with information on 4EDK
  • Community annotation for 4EDK at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science