A two-stranded template-based approach to G·(C-A) triad formation: Designing novel structural elements into an existing DNA framework Journal Article

  


Authors: Kettani, A.; Basu, G.; Gorin, A.; Majumdar, A.; Skripkin, E.; Patel, D. J.
Article Title: A two-stranded template-based approach to G·(C-A) triad formation: Designing novel structural elements into an existing DNA framework
Abstract: We have designed a DNA sequence, d(G-G-G-T-T-C-A-G-G), which dimerizes to form a 2-fold symmetric G-quadruplex in which G(syn)·G(anti)·G(syn)·G(anti) tetrads are sandwiched between all trans G·(C-A) triads. The NMR-based solution structural analysis was greatly aided by monitoring hydrogen bond alignments across N - H···N and N - H···O=C hydrogen bonds within the triad and tetrad, in a uniformly (13C,15N)-labeled sample of the d(G-G-G-T-T-C-A-G-G) sequence. The solution structure establishes that the guanine base-pairs with the cytosine through Watson-Crick G·C pair formation and with adenine through sheared G·A mismatch formation within the G·(C-A) triad. A model of triad DNA was constructed that contains the experimentally determined G·(C-A) triad alignment as the repeating stacked unit. (C) 2000 Academic Press.
Keywords: nonhuman; structure-activity relationship; dna; molecular sequence data; guanine; nuclear magnetic resonance spectroscopy; base sequence; base pairing; dna sequence; dna structure; hydrogen bond; hydrogen bonding; models, molecular; protons; dimerization; nucleic acid conformation; structure analysis; g-quadruplex; phosphorus; adenine; nuclear magnetic resonance, biomolecular; base mispairing; base pair mismatch; cytosine; templates, genetic; human; priority journal; article; uniform 13c, 15n-labeled dna; g·(c-a) base triad; minor groove recognition of g·c pair
Journal Title: Journal of Molecular Biology
Volume: 301
Issue: 1
ISSN: 0022-2836
Publisher: Academic Press Inc., Elsevier Science  
Date Published: 2000-08-04
Start Page: 129
End Page: 146
Language: English
DOI: 10.1006/jmbi.2000.3932
PUBMED: 10926497
PROVIDER: scopus
DOI/URL:

http://www.scopus.com/inward/record.url?eid=2-s2.0-0034604385&partnerID=40&md5=4a917b0abeb9564d1aa8df5b4d794d2e
Notes: Export Date: 18 November 2015 -- Source: Scopus
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MSK Authors
  1. Eugene A Skripkin
    15 Skripkin
  2. Ananya Majumdar
    33 Majumdar
  3. Andrey A Gorin
    25 Gorin
  4. Dinshaw J Patel
    480 Patel
  5. Gautam Basu
    1 Basu
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