Finding needles in a basestack: recognition of mismatched base pairs in DNA by small molecules

A Granzhan, N Kotera… - Chemical Society Reviews, 2014 - pubs.rsc.org
Mismatched (non-Watson–Crick) base pairs represent the most common type of DNA
damage, as they are permanently formed in living cells due to erroneous insertion, deletion …

One Ring to Bind Them All”—Part I: The Efficiency of the Macrocyclic Scaffold for G‐Quadruplex DNA Recognition

D Monchaud, A Granzhan, N Saettel… - Journal of Nucleic …, 2010 - Wiley Online Library
Macrocyclic scaffolds are particularly attractive for designing selective G‐quadruplex ligands
essentially because, on one hand, they show a poor affinity for the “standard” B‐DNA …

Identifying G-quadruplex-DNA-disrupting small molecules

J Mitteaux, P Lejault, F Wojciechowski… - Journal of the …, 2021 - ACS Publications
The quest for small molecules that strongly bind to G-quadruplex-DNA (G4), so-called G4
ligands, has invigorated the G4 research field from its very inception. Massive efforts have …

Shape matters: size-exclusion HPLC for the study of nucleic acid structural polymorphism

E Largy, JL Mergny - Nucleic acids research, 2014 - academic.oup.com
In recent years, an increasing number of reports have been focused on the structure and
biological role of non-canonical nucleic acid secondary structures. Many of these studies …

Modulation of DNA binding by reversible metal-controlled molecular reorganizations of scorpiand-like ligands

M Inclan, MT Albelda, JC Frias, S Blasco… - Journal of the …, 2012 - ACS Publications
DNA interaction with scorpiand azamacrocycles has been achieved through modulation of
their binding affinities. Studies performed with different experimental techniques provided …

Monitoring DNA–ligand interactions in living human cells using NMR spectroscopy

M Krafcikova, S Dzatko, C Caron… - Journal of the …, 2019 - ACS Publications
Studies on DNA–ligand interactions in the cellular environment are problematic due to the
lack of suitable biophysical tools. To address this need, we developed an in-cell NMR-based …

NMR determination of the 2: 1 binding complex of naphthyridine carbamate dimer (NCD) and CGG/CGG triad in double-stranded DNA

T Yamada, K Furuita, S Sakurabayashi… - Nucleic Acids …, 2022 - academic.oup.com
Trinucleotide repeat (TNR) diseases are caused by the aberrant expansion of CXG (X= C, A,
G and T) sequences in genomes. We have reported two small molecules binding to TNR …

Preparation and physicochemical properties of [6] helicenes fluorinated at terminal rings

V Církva, P Jakubík, T Strašák, J Hrbáč… - The Journal of …, 2019 - ACS Publications
The first racemization-stable helicene derivatives fluorinated at terminal rings, 1, 2, 3, 4-
tetrafluoro [6] helicene (6) and 1, 2, 3, 4, 13, 14, 15, 16-octafluoro [6] helicene (15), were …

Dynamic docking of conformationally constrained macrocycles: methods and applications

SE Allen, NV Dokholyan, AA Bowers - ACS chemical biology, 2016 - ACS Publications
Many natural products consist of large and flexible macrocycles that engage their targets via
multiple contact points. This combination of contained flexibility and large contact area often …

Ratiometric detection of ATP by fluorescent cyclophanes with bellows‐type sensing mechanism

AM Agafontsev, TA Shumilova… - … A European Journal, 2020 - Wiley Online Library
Pyrene‐based cyclophanes have been synthesized with the aim to realize a bellows‐type
sensing mechanism for the ratiometric detection of nucleotide concentrations in a buffered …