3T5E Dna date Jul 27, 2011
title Crystal Structure Of An Intramolecular Human Telomeric Dna G Quadruplex Bound By The Naphthalene Diimide Bmsg-Sh-4
authors G.W.Collie, R.Promontorio, G.N.Parkinson
compound source
Molecule: Human Telomeric Dna Sequence
Chain: A
Engineered: Yes
 Synthetic: Yes
Other_details: Dna Sequence Synthesised By Standard Phospho Chemistry
symmetry Space Group: P 6
R_factor 0.243 R_Free 0.282
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.034 63.034 42.389 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand K, T5E enzyme
Primary referenceStructural basis for telomeric g-quadruplex targeting by naphthalene diimide ligands., Collie GW, Promontorio R, Hampel SM, Micco M, Neidle S, Parkinson GN, J Am Chem Soc. 2012 Feb 8;134(5):2723-31. Epub 2012 Jan 31. PMID:22280460
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (28 Kb) [Save to disk]
  • Biological Unit Coordinates (3t5e.pdb1.gz) 22 Kb
  • LPC: Ligand-Protein Contacts for 3T5E
  • CSU: Contacts of Structural Units for 3T5E
  • Structure Factors (81 Kb)
  • Retrieve 3T5E in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3T5E from S2C, [Save to disk]
  • Re-refined 3t5e structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3T5E 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 3T5E
  • 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 3T5E, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3t5e_A] [3t5e]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3T5E
  • Community annotation for 3T5E at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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