1F3S

Solution Structure of DNA Sequence GGGTTCAGG Forms GGGG Tetrade and G(C-A) Triad.

Summary for 1F3S

• Entry DOI: 10.2210/pdb1f3s/pdb
• Descriptor: DNA (5'-D(*GP*GP*GP*TP*TP*CP*AP*GP*G)-3') (1 entity in total)
• Functional Keywords: g.(c-a) base triad, g-quadruplex, triad dna model, uniform 13c, 15n-labeled dna, dna
• Total number of polymer chains: 2
• Total formula weight: 5623.69

Authors

Kettani, A.,Basu, G.,Gorin, A.,Majumdar, A.,Skripkin, E.,Patel, D.J. (deposition date: 2000-06-06, release date: 2000-11-13, Last modification date: 2024-05-22)

Primary citation

Kettani, A.,Basu, G.,Gorin, A.,Majumdar, A.,Skripkin, E.,Patel, D.J.
A two-stranded template-based approach to G.(C-A) triad formation: designing novel structural elements into an existing DNA framework.
J.Mol.Biol., 301:129-146, 2000

PubMed 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 ((13)C,(15)N)-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.

PubMed: 10926497
DOI: 10.1006/jmbi.2000.3932

Experimental method

SOLUTION NMR