A new approach to the synthesis of phosphotriester intermediates of nucleosides and nucleic acids

Marel, Gijs van der; Boeckel, C. A. A. Van; Wille, G.; Boom, J. H. van

doi:10.1016/s0040-4039(01)91336-x

Cited by 166 publications

(61 citation statements)

References 16 publications

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“…The three undecamers used in this study were synthesized by the phosphotriester method (9,10). The central base pair corresponds to the sequence position 208 from the amino terminus of the wild-type or mutant cI gene product.…”

Section: Materials Amd Methodsmentioning

confidence: 99%

Comparison of the conformation of an oligonucleotide containing a central G-T base pair with the non-mismatch sequence by proton NMR

Quignard¹,

Fazakerley²,

Marel

et al. 1987

Nucl Acids Res

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We have recorded NOESY spectra of two non-selfcomplementary undecanucleotide duplexes. Frma the observed NOEs we do not detect any significant distortion of the helix when a 6-C pair is replaced by a G-T pair and the normal interresidue connectivities can be followed through the mismatch site. We conclude that the 2D spectra of the non-exchangeable protons do not allow differentiation between a wobble or rare tautmer form for the mismatch. NOE measurements in HIO, however, clearly show that the mismatch adopts a wobble structure and give information on the hydration in the minor groove for the G-T base pair which is embedded between two A-T base pairs in the sequence.

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Section: Materials Amd Methodsmentioning

confidence: 99%

Comparison of the conformation of an oligonucleotide containing a central G-T base pair with the non-mismatch sequence by proton NMR

Quignard¹,

Fazakerley²,

Marel

et al. 1987

Nucl Acids Res

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“…The DNA octamer was synthesized via an improved phosphotriester method (7,8) Imino-proton spectra were recorded with a time-shared pulse as described elsewhere (9). 1H-NMR spectra were recorded on a…”

Section: Methodsmentioning

confidence: 99%

Hairpin and duplex formation of the DNA octamer d(m⁵C-G-m⁵C-G-T-G-m5C-G) in solution. An NMR study

et al. 1986

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“…The oligonucleotides under investigation were synthesized by the I-hydroxybenzotriazole method [44,45]. After purification the compounds were passed over a Dowex cation-exchange resin (Na + form) to yield the sodium salts.…”

Section: Methodsmentioning

confidence: 99%

Sequence‐dependent structural variation in single‐helical DNA Proton NMR studies of d(T‐A‐T‐A) and d(A‐T‐A‐T) in aqueous solution

Mellema

Pieters

Marel

et al. 1984

European Journal of Biochemistry

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The two deoxyribotetranucleoside triphosphates d(T‐A‐T‐A) and d(A‐T‐A‐T) were investigated in aqueous solution by one‐ and two‐dimensional proton NMR at 300 and 500 MHz. It is demonstrated that both compounds occur predominantly in the single‐helical form. Accurate coupling constants are obtained by computer simulation of several 500‐MHz spectra. The data are interpreted in terms of N and S pseudorotational ranges. The geometry of the major S‐type conformers displays a clear sequence dependence, as expressed by variation of the endocyclic backbone angle δ (C5′‐C4′‐C3′‐O3′). A simple sum rule is proposed to predict δ variation in single‐helical DNA fragments. Comparisons are made with other sequence‐dependent geometries as observed in a double‐helical B‐DNA fragment in the crystalline state. Furthermore, one‐ and two‐dimensional nuclear Overhauser effect (NOE) spectroscopy was carried out on d(T‐A‐T‐A). An inventory is made of the observed intra‐ and inter‐residue NOEs. The NOE data confirm the presence of a highly stacked single‐helical conformation of d(T‐A‐T‐A) in solution. No indications are found for the formation of a bulge‐out structure as observed for analogous alternating purine‐pyrimidine oligoribonucleotides.

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A new approach to the synthesis of phosphotriester intermediates of nucleosides and nucleic acids

Cited by 166 publications

References 16 publications

Comparison of the conformation of an oligonucleotide containing a central G-T base pair with the non-mismatch sequence by proton NMR

Comparison of the conformation of an oligonucleotide containing a central G-T base pair with the non-mismatch sequence by proton NMR

Hairpin and duplex formation of the DNA octamer d(m⁵C-G-m⁵C-G-T-G-m5C-G) in solution. An NMR study

Sequence‐dependent structural variation in single‐helical DNA Proton NMR studies of d(T‐A‐T‐A) and d(A‐T‐A‐T) in aqueous solution

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A new approach to the synthesis of phosphotriester intermediates of nucleosides and nucleic acids

Cited by 166 publications

References 16 publications

Comparison of the conformation of an oligonucleotide containing a central G-T base pair with the non-mismatch sequence by proton NMR

Comparison of the conformation of an oligonucleotide containing a central G-T base pair with the non-mismatch sequence by proton NMR

Hairpin and duplex formation of the DNA octamer d(m5C-G-m5C-G-T-G-m5C-G) in solution. An NMR study

Sequence‐dependent structural variation in single‐helical DNA Proton NMR studies of d(T‐A‐T‐A) and d(A‐T‐A‐T) in aqueous solution

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Hairpin and duplex formation of the DNA octamer d(m⁵C-G-m⁵C-G-T-G-m5C-G) in solution. An NMR study