1DNX RNA/DNA DODECAMER R(G)D(CGTATACGC) WITH MAGNESIUM BINDING SITES date
authors Robinson, H., Gao, Y.G., Sanishvili, R., Joachimiak, A., Wang, A.H.J.
compound source
symmetry
R_factor
R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.70
ligand MG enzyme
Primary referenceHexahydrated magnesium ions bind in the deep major groove and at the outer mouth of A-form nucleic acid duplexes., Robinson H, Gao YG, Sanishvili R, Joachimiak A, Wang AH, Nucleic Acids Res 2000 Apr 15;28(8):1760-6. PMID:10734195
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (14 Kb) [Save to disk]
  • Biological Unit Coordinates (1dnx.pdb1.gz) 10 Kb
  • LPC: Ligand-Protein Contacts for 1DNX
  • CSU: Contacts of Structural Units for 1DNX
  • Likely Quarternary Molecular Structure file(s) for 1DNX
  • Structure Factors (93 Kb)
  • Retrieve 1DNX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DNX from S2C, [Save to disk]
  • Re-refined 1dnx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1DNX 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 1DNX
  • 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 1DNX, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dnx] [1dnx_A] [1dnx_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 1DNX
  • Community annotation for 1DNX at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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