5DEK date
authors
compound source
symmetry
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution
ligand NCO enzyme
Primary referenceStructural Basis of Duplex Thermodynamic Stability and Enhanced Nuclease Resistance of 5'-C-Methyl Pyrimidine-Modified Oligonucleotides., Kel In AV, Zlatev I, Harp J, Jayaraman M, Bisbe A, O Shea J, Taneja N, Manoharan RM, Khan S, Charisse K, Maier MA, Egli M, Rajeev KG, Manoharan M, J Org Chem. 2016 Mar 18;81(6):2261-79. doi: 10.1021/acs.joc.5b02375. Epub 2016, Mar 4. PMID:26940174
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (19 Kb) [Save to disk]
  • Biological Unit Coordinates (5dek.pdb1.gz) 8 Kb
  • Biological Unit Coordinates (5dek.pdb2.gz) 8 Kb
  • LPC: Ligand-Protein Contacts for 5DEK
  • CSU: Contacts of Structural Units for 5DEK
  • Structure Factors (300 Kb)
  • Retrieve 5DEK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DEK from S2C, [Save to disk]
  • Re-refined 5dek structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5DEK 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.
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dek] [5dek_A] [5dek_B] [5dek_C] [5dek_D]
  • SWISS-PROT database:

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