6RKU E. coli DNA Gyrase - DNA binding and cleavage domain in State 1 date
authors Broeck, A.Vanden., Lamour, V.
compound source
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 4.00
ligand JHN enzyme
A, C

D, B

Primary referenceCryo-EM structure of the complete E. coli DNA gyrase nucleoprotein complex., Vanden Broeck A, Lotz C, Ortiz J, Lamour V, Nat Commun. 2019 Oct 30;10(1):4935. doi: 10.1038/s41467-019-12914-y. PMID:31666516
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (293 Kb) [Save to disk]
  • Biological Unit Coordinates (6rku.pdb1.gz) 277 Kb
  • LPC: Ligand-Protein Contacts for 6RKU
  • CSU: Contacts of Structural Units for 6RKU
  • Retrieve 6RKU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6RKU from S2C, [Save to disk]
  • View 6RKU 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 6RKU
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6rku from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6rku_G] [6rku_A] [6rku_H] [6rku_E] [6rku_C] [6rku_D] [6rku_B] [6rku_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6RKU
  • Community annotation for 6RKU at PDBWiki (http://pdbwiki.org)

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