1S47 Dna date Jan 15, 2004
title Crystal Structure Analysis Of The Dna Quadruplex D(Tggggt)S2
authors C.Caceres, G.Wright, C.Gouyette, G.Parkinson, J.A.Subirana
compound source
Molecule: 5'-D(Tpgpgpgpgpt)-3'
Chain: A, B, C, D, E, F, G, H, I, J, K, L
Engineered: Yes
 Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Tetrahymen
symmetry Space Group: P 1 21 1
R_factor 0.224 R_Free 0.311
crystal
cell
length a length b length c angle alpha angle beta angle gamma
28.319 56.341 51.746 90.00 99.17 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand NA, TL enzyme
Primary referenceA thymine tetrad in d(TGGGGT) quadruplexes stabilized with Tl+/Na+ ions., Caceres C, Wright G, Gouyette C, Parkinson G, Subirana JA, Nucleic Acids Res 2004 Feb 11;32(3):1097-102. Print 2004. PMID:14960719
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (1s47.pdb1.gz) 12 Kb
  • Biological Unit Coordinates (1s47.pdb2.gz) 12 Kb
  • Biological Unit Coordinates (1s47.pdb3.gz) 11 Kb
  • LPC: Ligand-Protein Contacts for 1S47
  • CSU: Contacts of Structural Units for 1S47
  • Likely Quarternary Molecular Structure file(s) for 1S47
  • Structure Factors (66 Kb)
  • Retrieve 1S47 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1S47 from S2C, [Save to disk]
  • Re-refined 1s47 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1S47 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 1S47
  • 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 1S47, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1s47_I] [1s47_F] [1s47_E] [1s47_L] [1s47_C] [1s47_H] [1s47_D] [1s47_A] [1s47_J] [1s47_G] [1s47_K] [1s47_B] [1s47]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 1S47
  • Community annotation for 1S47 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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