4D6O THE CRYSTAL STRUCTURE OF I-DMOI IN COMPLEX WITH ITS TARGET DNA AT 1H INCUBATION IN 5MM MG (STATE 2) date
authors Molina, R., Stella, S., Redondo, P., Gomez, H., Marcaida, M.J., Orozco, M., Prieto, J., Montoya, G.
compound source
symmetry
R_factor
R_Free 0.2201
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.20
ligand ACT, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, G
  • nuclease activity
  • endonuclease activity


    • Primary referenceVisualizing phosphodiester-bond hydrolysis by an endonuclease., Molina R, Stella S, Redondo P, Gomez H, Marcaida MJ, Orozco M, Prieto J, Montoya G, Nat Struct Mol Biol. 2014 Dec 8. doi: 10.1038/nsmb.2932. PMID:25486305
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (4d6o.pdb1.gz) 56 Kb
  • Biological Unit Coordinates (4d6o.pdb2.gz) 53 Kb
  • Biological Unit Coordinates (4d6o.pdb3.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 4D6O
  • CSU: Contacts of Structural Units for 4D6O
  • Structure Factors (4085 Kb)
  • Retrieve 4D6O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4D6O from S2C, [Save to disk]
  • Re-refined 4d6o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4D6O 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 4D6O
  • 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 4D6O, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4d6o_I] [4d6o_D] [4d6o_C] [4d6o_B] [4d6o] [4d6o_H] [4d6o_F] [4d6o_G] [4d6o_A] [4d6o_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4D6O
  • Community annotation for 4D6O at PDBWiki (http://pdbwiki.org)

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