Nucleoside 5′-triphosphate
(dNTP) analogues in which the
β,γ-oxygen is mimicked by a CXY group (β,γ-CXY-dNTPs)
have provided information about DNA polymerase catalysis and fidelity.
Definition of CXY stereochemistry is important to elucidate precise
binding modes. We previously reported the (R)- and
(S)-β,γ-CHX-dGTP diastereomers (X = F,
Cl), prepared via P,C-dimorpholinamide CHCl (6a, 6b) and CHF (7a, 7b) bisphosphonates
(BPs) equipped with an (R)-mandelic acid as a chiral
auxiliary, with final deprotection using H2/Pd. This method
also affords the β,γ-CHCl-dTTP (11a, 11b), β,γ-CHF (12a, 12b), and β,γ-CHCl (13a, 13b)
dATP diastereomers as documented here, but the reductive deprotection
step is not compatible with dCTP or the bromo substituent in β,γ-CHBr-dNTP
analogues. To complete assembly of the toolkit, we describe an alternative
synthetic strategy featuring ethylbenzylamine or phenylglycine-derived
chiral BP synthons incorporating a photolabile protecting group. After
acid-catalyzed removal of the (R)-(+)-α-ethylbenzylamine
auxiliary, coupling with activated dCMP and photochemical deprotection,
the individual diastereomers of β,γ-CHBr- (33a, 33b), β,γ-CHCl- (34a, 34b), β,γ-CHF-dCTP (35a, 35b) were obtained. The β,γ-CH(CH3)-dATPs (44a, 44b) were obtained using a methyl (R)-(−)-phenylglycinate auxiliary. 31P
and 19F NMR Δδ values are correlated with CXY
stereochemistry and pK
a2–4 values
for 13 CXY-bisphosphonic acids and imidodiphosphonic acid are tabulated.