5DUN Rna date Sep 19, 2015
title The Crystal Structure Of Ome Substituted Twister Ribozyme
authors A.Ren, D.J.Patel, R.Micura, K.R.Rajashankar
compound source
Molecule: Rna (54-Mer)
Chain: A
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 43 21 2
R_factor 0.194 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.819 46.819 143.751 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.64 Å
ligand K, MG, OMU enzyme
Primary referenceA Mini-Twister Variant and Impact of Residues/Cations on the Phosphodiester Cleavage of this Ribozyme Class., Kosutic M, Neuner S, Ren A, Flur S, Wunderlich C, Mairhofer E, Vusurovic N, Seikowski J, Breuker K, Hobartner C, Patel DJ, Kreutz C, Micura R, Angew Chem Int Ed Engl. 2015 Dec 7;54(50):15128-33. doi: 10.1002/anie.201506601. , Epub 2015 Oct 16. PMID:26473980
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (5dun.pdb1.gz) 24 Kb
  • LPC: Ligand-Protein Contacts for 5DUN
  • CSU: Contacts of Structural Units for 5DUN
  • Structure Factors (53 Kb)
  • Retrieve 5DUN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DUN from S2C, [Save to disk]
  • Re-refined 5dun structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5DUN 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 5DUN
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dun_A] [5dun]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5DUN
  • Community annotation for 5DUN at PDBWiki (http://pdbwiki.org)

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