DNA minor groove binding of cross-linked lexitropsins: experimental conditions required to observe the covalently linked WPPW (groove wall-peptide-peptide-groove wall) motif.
A theoretical analysis of binding interactions between covalently cross-linked lexitropsins and DNA is undertaken, in which a novel cyclic symmetric 2:2 dimeric lexitropsin-DNA-binding model is proposed. Applicability of commonly used techniques including NMR, quantitative footprinting, CD, and ethidium fluorometry to differentiate the covalently linked WPPW (groove Wall-Peptide-Peptide-groove Wall) from a 2:2 cross-linked lexitropsin-DNA duplex structure is examined.
Chen
Y H
YH
Department of Chemistry, University of Alberta, Edmonton, Canada.
Lown
J W
JW
D000970:Antineoplastic Agents / Q000737:chemistry; D000998:Antiviral Agents / Q000737:chemistry; D001665:Binding Sites; D003432:Cross-Linking Reagents / Q000737:chemistry; D004247:DNA / Q000737:chemistry* / Q000378:metabolism; D007093:Imidazoles; D007700:Kinetics; D009682:Magnetic Resonance Spectroscopy; D008433:Mathematics; D008962:Models, Theoretical; D009429:Netropsin / Q000031:analogs & derivatives* / Q000737:chemistry / Q000378:metabolism; D009690:Nucleic Acid Conformation; D009692:Nucleic Acid Heteroduplexes / Q000737:chemistry; D009838:Oligodeoxyribonucleotides / Q000737:chemistry; D011485:Protein Binding; D011487:Protein Conformation
D000970:Antineoplastic Agents; D000998:Antiviral Agents; D003432:Cross-Linking Reagents; D007093:Imidazoles; D009692:Nucleic Acid Heteroduplexes; D009838:Oligodeoxyribonucleotides; C053654:lexitropsin; D009429:Netropsin; D004247:DNA