4P20 Crystal structures of the bacterial ribosomal decoding site complexed with amikacin date
authors Kondo, J., Francois, B., Russell, R.J.M., Murray, J.B., Westhof, E.
compound source
symmetry
R_factor
R_Free 0.2679
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.70
ligand AKN enzyme
note 4P20 supersedes 2G5Q
Primary referenceCrystal structure of the bacterial ribosomal decoding site complexed with amikacin containing the gamma-amino-alpha-hydroxybutyryl (haba) group., Kondo J, Francois B, Russell RJ, Murray JB, Westhof E, Biochimie. 2006 Aug;88(8):1027-31. Epub 2006 Jun 13. PMID:16806634
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (26 Kb) [Save to disk]
  • Biological Unit Coordinates (4p20.pdb1.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 4P20
  • CSU: Contacts of Structural Units for 4P20
  • Structure Factors (31 Kb)
  • Retrieve 4P20 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4P20 from S2C, [Save to disk]
  • Re-refined 4p20 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4P20 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 4P20
  • 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 4P20, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4p20] [4p20_A] [4p20_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4P20
  • Community annotation for 4P20 at PDBWiki (http://pdbwiki.org)

    • 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