5YEY

The structure of a chair-type G-quadruplex of the human telomeric variant in K+ solution


Experimental Data Snapshot

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

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

A chair-type G-quadruplex structure formed by a human telomeric variant DNA in K+solution.

Liu, C.Zhou, B.Geng, Y.Yan Tam, D.Feng, R.Miao, H.Xu, N.Shi, X.You, Y.Hong, Y.Tang, B.Z.Kwan Lo, P.Kuryavyi, V.Zhu, G.

(2019) Chem Sci 10: 218-226

  • DOI: https://doi.org/10.1039/c8sc03813a
  • Primary Citation of Related Structures:  
    5YEY

  • PubMed Abstract: 

    Guanine tracts of human telomeric DNA sequences are known to fold into eight different four-stranded structures that vary by the conformation of guanine nucleotides arranged in the stack of G-tetrads in their core and by different kinds and orders of connecting loops, called G-quadruplexes. Here, we present a novel G-quadruplex structure formed in K + solution by a human telomeric variant d[(GGGTTA)2GGGTTTGGG], htel21 T 18 . This variant DNA is located in the subtelomeric regions of human chromosomes 8, 11, 17, and 19 as well as in the DNase hypersensitive region and in the subcentromeric region of chromosome 5. Interestingly, single A18T substitution that makes htel21 T 18 different from the human telomeric sequence results in the formation of a three-layer chair-type G-quadruplex, a fold previously unknown among human telomeric repeats, with two loops interacting through the reverse Watson-Crick A6·T18 base pair. The loops are edgewise; glycosidic conformation of guanines is syn · anti · syn · anti around each tetrad, and each strand of the core has two antiparallel adjacent strands. Our results expand the repertoire of known G-quadruplex folding topologies and may provide a potential target for structure-based anticancer drug design.


  • Organizational Affiliation

    Division of Life Science , The Hong Kong University of Science and Technology , Clear Water Bay , Kowloon , Hong Kong SAR , China . Email: gzhu@ust.hk.


Macromolecules

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Entity ID: 1
MoleculeChains LengthOrganismImage
DNA (5'-D(*GP*GP*GP*TP*TP*AP*GP*GP*GP*TP*TP*AP*GP*GP*GP*TP*TP*TP*GP*GP*G)-3')21Homo sapiens
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

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

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-09-26
    Type: Initial release
  • Version 1.1: 2019-04-10
    Changes: Data collection, Database references
  • Version 1.2: 2023-06-14
    Changes: Data collection, Database references, Other