Conformational search of antisense nucleotides. Part 2.
In this study is presented the phosphorotioate nucleotide compound (1) possessing an unusual moiety with a chiral P and a Se atoms double bonded. It required a force field parameterization for carrying out standard molecular mechanics calculations. A new set of MMFF parameters was developed and applied for the complete conformational search of the diastereoisomers, using both Monte Carlo and molecular dynamics, with the purpose to validate them by the comparison between calculated structural properties and NMR measurements.
Alcaro
Stefano
S
Dipartimento di Scienze Farmacobiologiche, Università di Catanzaro "Magna Graecia", Complesso Ninì Barbieri, Roccelletta di Borgia (CZ) 88021, Italy. alcaro@unicz.it
Ortuso
Francesco
F
Gallelli
Andrea
A
Battaglia
Danilo
D
Tafi
Andrea
A
Botta
Maurizio
M
D009682:Magnetic Resonance Spectroscopy; D008958:Models, Molecular; D009690:Nucleic Acid Conformation; D016376:Oligonucleotides, Antisense / Q000737:chemistry*; D012643:Selenium / Q000737:chemistry
D016376:Oligonucleotides, Antisense; D012643:Selenium