Assessment of 4-nitrogenated benzyloxymethyl groups for 2'-hydroxyl protection in solid-phase RNA synthesis

Org Lett. 2007 Feb 15;9(4):671-4. doi: 10.1021/ol0629824. Epub 2007 Jan 26.

Abstract

The search for a 2'-OH protecting group that would impart ribonucleoside phosphoramidites with coupling kinetics and coupling efficiencies comparable to those of deoxyribonucleoside phosphoramidites led to an assessment of 2'-O-(4-nitrogenated benzyloxy)methyl groups through solid-phase RNA synthesis using phosphoramidites 2a-d, 12a, and 14a. These phosphoramidites exhibited rapid and efficient coupling properties. Particularly noteworthy is the cleavage of the 2'-O-[4-(N-methylamino)benzyloxy]methyl groups in 0.1 M AcOH, which led to U19dT within 15 min at 90 degrees C. [reaction: see text]

MeSH terms

  • Benzyl Compounds / chemistry*
  • Chromatography, High Pressure Liquid
  • Indicators and Reagents
  • Kinetics
  • Methylation
  • Nitro Compounds / chemistry
  • RNA / chemical synthesis*
  • Thymidine / chemistry
  • Uridine / chemistry

Substances

  • Benzyl Compounds
  • Indicators and Reagents
  • Nitro Compounds
  • RNA
  • Thymidine
  • Uridine