2LE6

Structure of a dimeric all-parallel-stranded G-quadruplex stacked via the 5'-to-5' interface

• PDB DOI: https://doi.org/10.2210/pdb2LE6/pdb
• NAKB: 2LE6
• BMRB: 17697

• Classification: DNA
• Mutation(s): No 


• Deposited: 2011-06-10 Released: 2011-08-31 
• Deposition Author(s): Do, N.Q., Lim, K.W., Teo, M.H., Heddi, B., Phan, A.T.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Literature

Stacking of G-quadruplexes: NMR structure of a G-rich oligonucleotide with potential anti-HIV and anticancer activity

Do, N.Q., Lim, K.W., Teo, M.H., Heddi, B., Phan, A.T.

(2011) Nucleic Acids Res 

• PubMed: 21840903 
• DOI: https://doi.org/10.1093/nar/gkr539
• Primary Citation of Related Structures:  
  2LE6


• PubMed Abstract: 
  

  G-rich oligonucleotides T30695 (or T30923), with the sequence of (GGGT)(4), and T40214, with the sequence of (GGGC)(4), have been reported to exhibit anti-HIV and anticancer activity. Here we report on the structure of a dimeric G-quadruplex adopted by a derivative of these sequences in K(+) solution. It comprises two identical propeller-type parallel-stranded G-quadruplex subunits each containing three G-tetrad layers that are stacked via the 5'-5' interface. We demonstrated control over the stacking of the two monomeric subunits by sequence modifications. Our analysis of possible structures at the stacking interface provides a general principle for stacking of G-quadruplexes, which could have implications for the assembly and recognition of higher-order G-quadruplex structures.

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Organizational Affiliation: 

School of Physical and Mathematical Sciences and School of Biological Sciences, Nanyang Technological University, Singapore.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 10.21 kDa 
• Atom Count: 680 
• Modelled Residue Count: 32 
• Deposited Residue Count: 32 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*GP*IP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')	A, B	16	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-08-31 
Deposition Author(s): Do, N.Q., Lim, K.W., Teo, M.H., Heddi, B., Phan, A.T.

Revision History  

• Version 1.0: 2011-08-31
  Type: Initial release
  
• Version 1.1: 2023-06-14
  Changes: Data collection, Database references, Other