Robust IR-based detection of stable and fractionally populated G-C+ and A-T Hoogsteen base pairs in duplex DNA

Autor: Hashim M. Al-Hashimi, Huiqing Zhou, Yu Xu, Mary C. Clay, Seung H. Choi, Dawn K. Merriman, Allison L. Stelling
Rok vydání: 2017
Předmět:
Models
Molecular
0301 basic medicine
Guanine
Spectrophotometry
Infrared
Base pair
Hoogsteen base pair
Biophysics
Echinomycin
Triple-stranded DNA
010402 general chemistry
01 natural sciences
Biochemistry
Article
03 medical and health sciences
chemistry.chemical_compound
Nuclear magnetic resonance
Structural Biology
Chromosomal Instability
Spectroscopy
Fourier Transform Infrared
Genetics
A-DNA
Spectroscopy
Base Pairing
Nuclear Magnetic Resonance
Biomolecular
Molecular Biology
Binding Sites
Chemistry
Adenine
Circular Dichroism
Hydrogen Bonding
Stereoisomerism
DNA
Cell Biology
Nuclear magnetic resonance spectroscopy
Hydrogen-Ion Concentration
Anti-Bacterial Agents
0104 chemical sciences
Crystallography
030104 developmental biology
Spectrophotometry
Duplex (building)
Feasibility Studies
Nucleic Acid Conformation
Zdroj: FEBS Letters. 591:1770-1784
ISSN: 0014-5793
DOI: 10.1002/1873-3468.12681
Popis: Non-canonical G-C+ and A-T Hoogsteen base pairs can form in duplex DNA and play roles in recognition, damage repair, and replication. Identifying Hoogsteen base pairs in DNA duplexes remains challenging due to difficulties in resolving syn versus anti purine bases with X-ray crystallography; and size limitations and line broadening can make them difficult to characterize by NMR spectroscopy. Here, we show how infrared (IR) spectroscopy can identify G-C+ and A-T Hoogsteen base pairs in duplex DNA across a range of different structural contexts. The utility of IR-based detection of Hoogsteen base pairs is demonstrated by characterizing the first example of adjacent A-T and G-C+ Hoogsteen base pairs in a DNA duplex where severe broadening complicates detection with NMR. This article is protected by copyright. All rights reserved.
Databáze: OpenAIRE
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