Investigation of DNA-binding properties of an aminoglycoside-polyamine library using quantitative structure-activity relationship (QSAR) models.
We have recently developed a novel multivalent cationic library based on the derivatization of aminoglycosides by linear polyamines. In the current study, we describe the DNA-binding activity of this library. Screening results indicated that several candidates from the library showed high DNA-binding activities with some approaching those of cationic polymers. Quantitative Structure-Activity Relationship (QSAR) models of the screening data were employed to investigate the physicochemical effects governing polyamine-DNA binding. The utility of these models for the a priori prediction of polyamine-DNA-binding affinity was also demonstrated. Molecular descriptors selected in the QSAR modeling indicated that molecular size, basicity, methylene group spacing between amine centers, and hydrogen-bond donor groups of the polyamine ligands were important contributors to their DNA-binding efficacy. The research described in this paper has led to the development of new multivalent ligands with high DNA-binding activity and improved our understanding of structure-activity relationships involved in polyamine-DNA binding. These results have implications for the discovery of novel polyamine ligands for nonviral gene delivery, plasmid DNA purification, and anticancer therapeutics.
Rege
Kaushal
K
Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, 110 8th Street, Troy, New York 12180, USA.
Ladiwala
Asif
A
Hu
Shanghui
S
Breneman
Curt M
CM
Dordick
Jonathan S
JS
Cramer
Steven M
SM
D000617:Aminoglycosides / Q000737:chemistry / Q000378:metabolism*; D002240:Carbohydrate Sequence; D004247:DNA / Q000737:chemistry / Q000378:metabolism*; D003839:Deoxyadenosines / Q000737:chemistry; D004353:Drug Evaluation, Preclinical; D008024:Ligands; D008958:Models, Molecular; D008969:Molecular Sequence Data; D011073:Polyamines / Q000737:chemistry / Q000378:metabolism*; D021281:Quantitative Structure-Activity Relationship
D000617:Aminoglycosides; D003839:Deoxyadenosines; D008024:Ligands; D011073:Polyamines; D004247:DNA; C058118:2'-deoxyadenosine