PDBsum entry 2hbn

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dna_rna metals links
_TL ×10
Waters ×44
PDB id:
Name: DNA
Title: Crystallization of the tl+-form of the oxytricha nova g- quadruplex
Structure: 5'-d( Gp Gp Gp Gp Tp Tp Tp Tp Gp Gp Gp G)-3'. Chain: a, b, c, d. Engineered: yes
Source: Synthetic: yes. Other_details: this sequence occurs naturally in sterkiella nova telomere
Biol. unit: Dimer (from PQS)
1.55Å     R-factor:   0.226     R-free:   0.248
Authors: M.L.Gill,S.A.Strobel,J.P.Loria
Key ref: M.L.Gill et al. (2006). Crystallization and characterization of the thallium form of the Oxytricha nova G-quadruplex. Nucleic Acids Res, 34, 4506-4514. PubMed id: 16945956
14-Jun-06     Release date:   19-Sep-06    


Nucleic Acids Res 34:4506-4514 (2006)
PubMed id: 16945956  
Crystallization and characterization of the thallium form of the Oxytricha nova G-quadruplex.
M.L.Gill, S.A.Strobel, J.P.Loria.
The crystal structure of the Tl+ form of the G-quadruplex formed from the Oxytricha nova telomere sequence, d(G4T4G4), has been solved to 1.55 A. This G-quadruplex contains five Tl+ ions, three of which are interspersed between adjacent G-quartet planes and one in each of the two thymine loops. The structure displays a high degree of similarity to the K+ crystal structure [Haider et al. (2002), J. Mol. Biol., 320, 189-200], including the number and location of the monovalent cation binding sites. The highly isomorphic nature of the two structures, which contain such a large number of monovalent binding sites (relative to nucleic acid content), verifies the ability of Tl+ to mimic K+ in nucleic acids. Information from this report confirms and extends the assignment of 205Tl resonances from a previous report [Gill et al. (2005), J. Am. Chem. Soc., 127, 16 723-16 732] where 205Tl NMR was used to study monovalent cation binding to this G-quadruplex. The assignment of these resonances provides evidence for the occurrence of conformational dynamics in the thymine loop region that is in slow exchange on the 205Tl timescale.

Literature references that cite this PDB file's key reference

  PubMed id Reference
19088983 H.Liu, and J.W.Gauld (2009).
Protonation of guanine quartets and quartet stacks: insights from DFT studies.
  Phys Chem Chem Phys, 11, 278-287.  
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