4.7.1 Introduction

Zimmer, C.; Wähnert, U.

doi:10.1007/10407393_19

Cited by 14 publications

(17 citation statements)

References 31 publications

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“…For minor‐groove recognition we used distamycin A,9 a well known tripyrrole antibiotic that binds DNA preferentially at A–T rich sites. For the major‐groove counterpart we chose the basic region of GCN4, a bZIP protein which binds specifically to the cAMP response element site (CRE: 5′‐ATGAcgTCAT‐3′).…”

Section: Methodsmentioning

confidence: 99%

Design and Synthesis of a Peptide That Binds Specific DNA Sequences through Simultaneous Interaction in the Major and in the Minor Groove

et al. 2001

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Section: Methodsmentioning

confidence: 99%

Design and Synthesis of a Peptide That Binds Specific DNA Sequences through Simultaneous Interaction in the Major and in the Minor Groove

et al. 2001

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“…The well‐known antibiotic netropsin (Nt) and its derivatives bind noncovalently to AT‐rich double‐stranded DNA stretches1 and are capable of inhibiting numerous DNA‐binding enzymes such as gyrase, human DNA topoisomerases I and II, DNAse, and so forth. The DNA binding of these classical nonintercalators is extremely sequence specific.…”

Section: Introductionmentioning

confidence: 99%

Raman and surface-enhanced Raman scattering spectroscopy of bis-netropsins and their DNA complexes

et al. 2000

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The interactions of three bis‐netropsins (bis‐Nts), which are potent catalytic inhibitors of DNA‐binding enzymes, with three double‐stranded oligonucleotides (OLIGs), which contain sites of different specific affinities for each bis‐Nt, were analyzed. Raman spectroscopy was performed for selective monitoring of modifications of the bis‐Nt or the OLIG structure upon bis‐Nt–DNA binding, and surface‐enhanced Raman scattering spectroscopy (SERS) was an additional tool for topology studies of ligand–DNA complexes. The spectral data showed conformational changes of both partners (bis‐Nt and OLIG) upon complexation. Structural variations of bis‐Nts appeared to be dependent on a bis‐Nt–OLIG binding constant and were found to be small in the specific DNA binding and highest for nonspecific binding of bis‐Nt with the corresponding OLIG. The conformational changes of the OLIGs were varied with a bis‐Nt–OLIG binding constant in the same manner. The bis‐Nts seemed to induce a perturbation in the OLIG's structure, as well as in the positions of their direct binding. These DNA structural modification effects may explain the inhibition of DNA‐binding enzymes in the variety of very distinct DNA–enzyme binding sites by bis‐Nts reported previously. © 2000 John Wiley & Sons, Inc. Biopolymers (Biospectroscopy) 57: 272–281, 2000

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“…As part of these studies we recently discovered that the previously reported32 self‐assembled Ru 2 Re 2 heterometallomacrocycle binds with high affinity to duplex DNA through a unique external binding mode that results in a large‐scale bending deformation of the duplex 29. Contrastingly, although the mononuclear “building block” for the macrocycle [Ru(bpy) 2 (qtpy)] 2+ ( 1 ; qtpy=2,2 ′ :4,4 ′′ :4 ′ ,4 ′′′ ‐quaterpyridyl) also binds strongly to DNA, it does so through intercalation;29, 33 this observation is somewhat surprising as it is often assumed that intercalation requires a system of condensed polyaromatic rings,34–36 whereas unfused polyaromatic ring systems, such as those of qtpy are assumed to interact with DNA through minor‐groove binding 37–39. However, a small number of previous studies have demonstrated that this assumption is sometimes inaccurate.…”

Section: Introductionmentioning

confidence: 99%

From Intercalation to Groove Binding: Switching the DNA‐Binding Mode of Isostructural Transition‐Metal Complexes

Ahmad

Wragg

Cullen

et al. 2014

Chemistry A European J

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The interaction with duplex DNA of a small library of structurally related complexes that all contain a d6-metal ion coordinated to either the 2,2′:4,4′′:4′,4′′′-quaterpyridyl ligand or its methylated derivative are reported. This library is made up of a mixture of newly synthesised and previously reported systems. Despite their structural similarities the complexes display an almost 20-fold variation in binding affinities. Although effects due to the overall charge of the complexes are apparent, the differences in binding characteristics are deeper than this; indeed, in a number of cases, changes in overall charge have little effect on binding affinity. Intriguingly, despite interacting with DNA through unfused ring systems, although two of the complexes studied are groove binders, the majority are non-classical intercalators. A rationale for these effects has been obtained through a combination of experimental and computational studies.

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4.7.1 Introduction

Cited by 14 publications

References 31 publications

Design and Synthesis of a Peptide That Binds Specific DNA Sequences through Simultaneous Interaction in the Major and in the Minor Groove

Design and Synthesis of a Peptide That Binds Specific DNA Sequences through Simultaneous Interaction in the Major and in the Minor Groove

Raman and surface-enhanced Raman scattering spectroscopy of bis-netropsins and their DNA complexes

From Intercalation to Groove Binding: Switching the DNA‐Binding Mode of Isostructural Transition‐Metal Complexes

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