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Literature DB >> 21686245

DNA breathes Hoogsteen.

Abstract

A recent claim is discussed that Watson-Crick pairs in the naked duplex DNA spontaneously flip into Hoogsteen pairs under ordinary conditions. The claim is considered within the historical retrospective and is put into the broader context of DNA biophysics.

Year: 2011 PMID： 21686245 PMCID： PMC3116583 DOI： 10.4161/adna.2.1.15509

Source DB: PubMed Journal: Artif DNA PNA XNA ISSN： 1949-095X

9 in total

1. A bacterium that can grow by using arsenic instead of phosphorus.

Authors: Felisa Wolfe-Simon; Jodi Switzer Blum; Thomas R Kulp; Gwyneth W Gordon; Shelley E Hoeft; Jennifer Pett-Ridge; John F Stolz; Samuel M Webb; Peter K Weber; Paul C W Davies; Ariel D Anbar; Ronald S Oremland
Journal: Science Date: 2010-12-02 Impact factor: 47.728

2. Sequence-dependent base pair opening in DNA double helix.

Authors: Andrew Krueger; Ekaterina Protozanova; Maxim D Frank-Kamenetskii
Journal: Biophys J Date: 2006-02-24 Impact factor: 4.033

3. DNA chemistry. How the double helix breathes.

Authors: M Frank-Kamenetskii
Journal: Nature Date: 1987 Jul 2-8 Impact factor: 49.962

4. A single mode of DNA base-pair opening drives imino proton exchange.

Authors: M Guéron; M Kochoyan; J L Leroy
Journal: Nature Date: 1987 Jul 2-8 Impact factor: 49.962

5. Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs.

Authors: Malka Kitayner; Haim Rozenberg; Remo Rohs; Oded Suad; Dov Rabinovich; Barry Honig; Zippora Shakked
Journal: Nat Struct Mol Biol Date: 2010-04-04 Impact factor: 15.369

Review 6. Two sides of the coin: affinity and specificity of nucleic acid interactions.

Authors: Vadim V Demidov; Maxim D Frank-Kamenetskii
Journal: Trends Biochem Sci Date: 2004-02 Impact factor: 13.807

Review 7. Triplex DNA structures.

Authors: M D Frank-Kamenetskii; S M Mirkin
Journal: Annu Rev Biochem Date: 1995 Impact factor: 23.643

8. Acid-induced exchange of the imino proton in G.C pairs.

Authors: S Nonin; J L Leroy; M Gueron
Journal: Nucleic Acids Res Date: 1996-02-15 Impact factor: 16.971

9. Transient Hoogsteen base pairs in canonical duplex DNA.

Authors: Evgenia N Nikolova; Eunae Kim; Abigail A Wise; Patrick J O'Brien; Ioan Andricioaei; Hashim M Al-Hashimi
Journal: Nature Date: 2011-01-26 Impact factor: 49.962

9 in total

5 in total

DNA breathes Hoogsteen.

1. A bacterium that can grow by using arsenic instead of phosphorus.

2. Sequence-dependent base pair opening in DNA double helix.

3. DNA chemistry. How the double helix breathes.

4. A single mode of DNA base-pair opening drives imino proton exchange.

5. Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs.

Review 6. Two sides of the coin: affinity and specificity of nucleic acid interactions.

Review 7. Triplex DNA structures.

8. Acid-induced exchange of the imino proton in G.C pairs.

9. Transient Hoogsteen base pairs in canonical duplex DNA.

1. Free Energy Landscape and Conformational Kinetics of Hoogsteen Base Pairing in DNA vs. RNA.

2. Free energy landscape and transition pathways from Watson-Crick to Hoogsteen base pairing in free duplex DNA.

3. Computational mapping reveals dramatic effect of Hoogsteen breathing on duplex DNA reactivity with formaldehyde.

4. Surprising Conformers of the Biologically Important A·T DNA Base Pairs: QM/QTAIM Proofs.

5. Modulation of Hoogsteen dynamics on DNA recognition.