Synthesis of branched oligonucleotides with three different sequences using an oxidatively removable tritylthio group

We synthesized a three-way branched oligodeoxynucleotide (ODN) 30-mer using a new branch unit with acid-labile DMTr and oxidatively cleavable TrS groups as orthogonal protecting groups. The branched ODN was successfully synthesized using 5-[3,5-bis(trifluoromethyl)phenyl]-1H-tetrazole and (2R,8aS)-(+)-(camphorylsulfonyl)oxaziridine as the activator of phosphoramidite units and the oxidizing reagent, respectively. We also found that the TrS group was orthogonal to the Lev, TBDMS, and Fmoc groups. These results indicate the possibility of the synthesis of more complex four- and five-way branched ODNs by the combined use of DMTr, TrS, Lev, TBDMS, and Fmoc groups.     

New set of orthogonal protecting groups for the modular synthesis of heparan sulfate fragments

Six strategically chosen monosaccharide building blocks, which are protected by a novel set of four orthogonal protecting groups (Lev, Fmoc, TBDPS, and All), can be employed for the efficient synthesis of the 20 disaccharide moieties found in heparan sulfate. The properly protected disaccharide building blocks can be converted into glycosyl donors and acceptors, which can be used for the modular synthesis of a wide range of well-defined oligosaccharides that differ in sulfation pattern. [structure: see text]     

A new functional bis(m-phenylene)-32-crown-10-based cryptand host for paraquats

The pseudorotaxane complex of the new hydroxymethyl cryptand 3 with N,N'-dimethyl-4,4'-bipyridinium bis(hexafluorophosphate), PQ(PF6)2, has an association constant of 2.0(+/-0.3) x 10(4) M(-1). In the crystal structure of 3 x PQ(PF6)2 one of the bonding elements appears to be an aromatic edge-to-face interaction of a paraquat beta-proton with the hydroquinone moiety; this is the first time this interaction has been reported between a cryptand and paraquat.     

Development of novel water-soluble, organometallic compounds for potential use in nuclear medicine: synthesis, characterization, and (1)H and (31)P NMR investigations of the complexes fac-[ReBr(CO)3L] (L=bis(bis(hydroxymethyl)phosphino)ethane, bis(bis(hydroxymethyl)phosphino)benzene)

The bidentate, water-soluble phosphine ligands, bis(bis(hydroxymethyl)phosphino)benzene (HMPB, 1) and bis(bis(hydroxymethyl)phosphino)ethane (HMPE, 2) were reacted with the organometallic precursor fac-[ReBr(3)(CO)(3)](2-), 3, to produce the complexes fac-[Re(OH(2))(CO)(3)L](+) and fac-[ReBr(CO)(3)L] (L = HMPE, HMPB), respectively, in good yields. The rhenium complexes fac-[ReBr(CO)(3)HMPB], 5, and fac-[ ReBr(CO)(3)HMPE], 8, were characterized using (1)H and (31)P NMR spectroscopy. The structure of fac-[ReBr(CO)(3)HMPB] was confirmed by single-crystal X-ray spectroscopy. The substitution reactions of HMPE/HMPB with the rhenium precursor 3 in aqueous solution were monitored using time-dependent (31)P NMR techniques. A significant discrepancy in the reaction kinetics and the substitution mechanism between the two bidentate ligands could be observed presumably due to the different chemical backbones.     

Protecting group controlled stereoselective alkylation of asymmetrized bis(hydroxymethyl)propanoates (BHYMP*)

The diastereoselective methylation of the enolates derived from some asymmetrized bis(hydroxymethyl)propanoates (BHYMP*) has been studied. Good results were achieved when one of the two hydroxymethyl groups was unprotected. The induction was interpreted on the basis of an acyclic stereocontrol governed by stereoelectronic effects.     

Quantum-chemical investigation of thermal transformations of tris(hydroxymethyl)phosphine

In keeping with the calculations of thermodynamic characteristics of possible transformations of tris(hydroxymethyl)phosphine in the framework of DFT-approach using hybrid exchange-correlation functional B3LYP with the basis 6–311++G** the probability of transformation of tris(hydroxymethyl)phosphine at the temperature below 350 K into methylbis(hydroxymethyl)phosphine oxide is higher than the conversion into methyl(hydroxymethyl)phosphine oxide, and at the temperature over 350 K the trend is opposite. The probability of the formation of a heterocyclic dimer at the temperature over 300 K is somewhat lower and of bis(hydroxymethyl)phosphine in the temperature range 250–550 K is significantly lower.     

Synthesis of linear and tripoidal oligo(phenylene ethynylene)-based building blocks for application in modular DNA-programmed assembly

Rigid linear and tripoidal organic modules based on the oligo(phenylene ethynylene) backbone having salicylaldehyde-derived termini are synthesized. A highly functionalized 5-iodosalicyl aldehyde was prepared and coupled to each ethynyl group of 1,4-diethynylbenzene or 1,3,5-triethynylbenzene in Sonogashira couplings. The two or three termini of the compounds are functionalized for incorporation in linear and branched oligonucleotide strands. For the linear module (LM), the two termini are equipped with amide spacers, and one of these was functionalized with a DMTr (dimethoxytrityl)-protected hydroxy group and the other with a phosphoramidite. One of the tripoidal modules is prepared with DMTr groups in two of its three termini. A tripoidal module is also synthesized with three different groups on its hydroxy termini: a phosphoramidite, a DMTr group, and an Fmoc group. Extended studies have shown that these rigid linear and tripoidal organic modules can be incorporated into short oligonucleotides. Several of these modules can be applied for DNA-directed assembly and covalent coupling into structures of predetermined connectivity. Such structures have potential application for molecular electronics and nanotechnology.     

Reactions of p-Hydroxyphenylphosphine and Functionally Substituted Bis(hydroxymethyl)phosphines with Heterocumulenes

Reactions of p-hydroxyphenylphosphine, bis(hydroxymethyl)(p-hydroxyphenyl)phosphine, and bis(hydroxymethyl)(5-allyl-2-ethoxybenzyl)phosphine with nitrogen-containing heterocumulenes were studied. The competitive reactivity of the phenol, phosphine, and hydroxymethyl groups in these reactions was examined.     

2,2-二羟甲基-1,3-丙二醇单缩醛的合成

引言２，２－二羟甲基－１，３－丙二醇（以下称季戊四醇）单缩醛是有机合成的重要中间体。我们曾用季戊四醇单缩醛与氢化钠及１，３－丙磺内酯反应合成了一系列含有１，３－二氧六环的磺酸盐型可断裂表面活性剂［１］。目前，有关季戊四醇单缩醛的文献报道极少。Ｃｏｎｒ...     

Diastereocontrolled synthesis of dinucleoside phosphorothioates using a novel class of activators, dialkyl(cyanomethyl)ammonium tetrafluoroborates

A novel class of activators, dialkyl(cyanomethyl)ammonium tetrafluoroborates 1a-c, has been developed and applied to the condensations of diastereopure 5'-O-tert-butyldiphenylsilylthymidine 3'-cyclic phosphoramidites 3a-d with 3'-O-tert-butyldimethylsilylthymidine (4a). Among them, the condensation of 3a with 4a in the presence of 1a completed within 5 min and gave only one diastereoisomer of the corresponding phosphite 5a. After sulfurization and deprtection, almost diastereopure (Rp)-TpsT 7 was obtained (d.r. = 99:1). Next the 5'-O-(DMTr)nucleoside 3'-phosphoramidites 8a-d containing thymine, N6-benzoyladenine, N4-benzoylcytosine, and N2-phenylacetylguanine have been synthesized and allowed to condense with 3'-O-protected thymidine and 2'-deoxyadenosine. The 5'-O-DMTr group and the N-acyl groups of the nucleobases were compatible with the reaction conditions and the condensations completed quickly with excellent diastereoselectivity.     

Hydroxymethyl group conformation in saccharides: structural dependencies of (2)J(HH), (3)J(HH), and (1)J(CH) spin-spin coupling constants

Experimental and theoretical methods have been used to correlate (2)J(HH) and (3)J(HH) values within the exocyclic hydroxymethyl groups (CH(2)OH) of saccharides with specific molecular parameters, and new equations are proposed to assist in the structural interpretation of these couplings. (3)J(HH) depends mainly on the C-C torsion angle (omega) as expected, and new Karplus equations derived from J-couplings computed from density functional theory (DFT) in a model aldopyranosyl ring are in excellent agreement with experimental values and with couplings predicted from a previously reported general Karplus equation. These results confirm the reliability of DFT-calculated (1)H-(1)H couplings in saccharides. (2)J(HH) values depend on both the C-C (omega) and C-O (theta) torsions. Knowledge of the former, which may be derived from other parameters (e.g., (3)J(HH)), allows theta to be evaluated indirectly from (2)J(HH). This latter approach complements more direct determinations of theta from (3)J(HCOH) and potentially extends these more conventional analyses to O-substituted systems lacking the hydroxyl proton. (1)J(CH) values within hydroxymethyl fragments were also examined and found to depend on r(CH), which is modulated by specific bond orientation and stereoelectronic factors. These latter factors could be largely, but not completely, accounted for by C-C and C-O torsional variables, leading to only semiquantitative treatments of these couplings (details discussed in the Supporting Information). New equations pertaining to (2)J(HH) and (3)J(HH) have been applied to the analysis of hydroxymethyl group J-couplings in several mono- and oligosaccharides, yielding information on C5-C6 and/or C6-O6 rotamer populations.     

Practical Synthesis of New β‐Diketone‐Connected Bipyridine and Its Conversion to Pyrazole‐Centered Bipyridine Ligand

Two new polydentate ligands, 1‐(6‐hydroxymethyl‐2‐pyridyl)‐3‐(2‐pyridyl)‐propane‐1,3‐dione (6) and 1,3‐bis(6‐hydroxymethyl‐2‐pyridyl)‐propane‐1, 3‐dione (8), have been synthesized starting from 2,6‐pyridinedicarboxylic acid by conventional esterification, reduction, and condensation reactions. They were further converted to two new polydentate ligands, 3‐(6‐hydroxymethyl‐2‐pyridyl)‐5‐(2‐pyridyl)‐1H‐pyrazole (7) and 3,5‐bis(6‐hydroxymethyl‐2‐pyridyl)‐1H‐pyrazole (9), by reaction with hydrazine hydrate. These four compounds were characterized by proton nuclear magnetic resonance (¹H NMR), electrospray ionization‐mass spectrum (ESI‐MS), infrared spectrum (IR), and elemental analyses. The structure of 9 was also determined by X‐ray diffraction.     

Assembly of a Complex Branched Oligosaccharide by Combining Fluorous‐Supported Synthesis and Stereoselective Glycosylations using Anomeric Sulfonium Ions

There is an urgent need to develop reliable strategies for the rapid assembly of complex oligosaccharides. This paper presents a set of strategically selected orthogonal protecting groups, glycosyl donors modified by a (S)‐phenylthiomethylbenzyl ether at C‐2, and a glycosyl acceptor containing a fluorous tag, which makes it possible to rapidly prepare complex branched oligosaccharides of biological importance. The C‐2 auxiliary controlled the 1,2‐cis anomeric selectivity of the various galactosylations. The orthogonal protecting groups, 2‐naphthylmethyl ether (Nap) and levulinic ester (Lev), made it possible to generate glycosyl acceptors and allowed the installation of a crowded branching point. After the glycosylations, the chiral auxiliary could be removed using acidic conditions, which was compatible with the presence of the orthogonal protecting groups Lev and Nap, thereby allowing the efficient installation of 1,2‐linked glycosides. The light fluorous tag made it possible to purify the compounds by a simple filtration method using silica gel modified by fluorocarbons. The set of building blocks was successfully employed for the preparation of the carbohydrate moiety of the GPI anchor of Trypanosoma brucei, which is a parasite that causes sleeping sickness in humans and similar diseases in domestic animals.     

2,3- and 3,4-Bis(diethoxyphosphorylmethyl)-5-tert-butylfurans

Reduction of 2-, 4-acetoxymethyl derivatives of 5-tert-butylfuran-3-carboxylic acid leads to the corresponding bis(hydroxymethyl)furans. Bis(chloromethyl)furans prepared from the latter were involvedin reaction with sodium diethyl phosphite. In the presence of two equivalents of a phosphorus-containing nucleophile, bis(phosphonomethyl)furans are formed. One equivalent of sodium diethyl phosphite reacts with 3,4-bis(chloromethyl)furan to give a mixture of 3-and 4-phosphorylated products in a 4.5:1 ratio in a low yield. The revealed difference in reactivity between the 3- and 4-chloromethyl groups demonstrates the importance of shielding of the chloromethyl group by the neighboring tert-butyl substituent. Examination of the ¹H NMR spectra of 3,4-bis(hydroxymethyl)-, 3,4-bis(chloromethyl)-, 3,4-bis(diethoxyphosphorylmethyl)-5-tert-butylfurans, and also specially prepared 5-tert-butyl-3-(diethoxyphosphorylmethyl)-4-(ethoxymethyl)-2-methylfuran established that the signal of the substituent neighboring to the tert-butyl group is always shifted downfield.     

Methoxymethyl (MOM) group nitrogen protection of pyrimidines bearing C-6 acyclic side-chains

Novel N-methoxymethylated (MOM) pyrimidine (4-13) and pyrimidine-2,4-diones (15-17) nucleoside mimetics in which an isobutyl side-chain is attached at the C-6 position of the pyrimidine moiety were synthesized. Synthetic methods via O-persilylated or N-anionic uracil derivatives have been evaluated for the synthesis of N-1- and/or N-3-MOM pyrimidine derivatives with C-6 acyclic side-chains. A synthetic approach using an activated N-anionic pyrimidine derivative afforded the desired N,N-1,3-diMOM and N-1-MOM pyrimidines 4 and 5 in good yield. Introduction of fluorine into the side-chain was performed with DAST as the fluorinating reagent to give a N,N-1,3-diMOM pyrimidine 13 with a 1-fluoro-3-hydroxyisobutyl moiety at C-6. Conformational study of the monotritylated N-1-MOM pyrimidine 12 by the use of the NOE experiments revealed the predominant conformation of the compound to be one where the hydroxymethyl group in the C-6 side-chain is close to the N-1-MOM moiety, while the OMTr is in proximity to the CH(3)-5 group. Contrary to this no NOE enhancements between the N-1-MOM group and hydroxymethyl or fluoromethyl protons in 13 were observed, which suggested a nonrestricted rotation along the C-6 side-chain. Fluorinated N,N-1,3-diMOM pyrimidine 13 emerged as a model compound for development of tracer molecules for non-invasive imaging of gene expression using positron emission tomography (PET).     

Rhodium, palladium and platinum complexes of tris(pyridylalkyl)amine and tris(benzimidazolylmethyl)amine N4-tripodal ligands

To investigate the influence of a potentially N4-tripodal amine ligand on the structure and internal exchange processes of its complexes with late transition metals, five rhodium, six palladium and two platinum complexes have been prepared from seven alkyl-bridged N-heterocyclic amine tripodal ligands: tris(2-pyridylmethyl)amine, (2-(2-pyridylethyl))bis(2-pyridylmethyl)amine, bis(2-(2-pyridylethyl))-2-pyridylmethylamine, bis(2-(2-pyridylethyl))amine, ((6-(hydroxymethyl)-2-pyridyl)methyl)bis(2-pyridylmethyl)amine, tris(2-benzimidazolylmethyl)amine (tbima) and tris(3-ethyl-2-benzimidazolylmethyl)amine. Single-crystal X-ray diffraction studies were completed for ten complexes: the d6-rhodium(III) complexes are octahedral with kappa 4 N-bound ligands, whereas the d8-palladium(II) and d8-platinum(II) complexes are square planar, kappa 3 N-bound by the tripodal ligand with a dangling N-donor leg, except for the unusual [Pd2(tbima)2Cl2]Cl2 dimer in which each palladium(II) ion is square planar and bound by two benzimidazole legs from one tbima ligand, one leg from the other tbima ligand and a chloride ancillary ligand. Cation bilayers are a common structural motif in the crystal structures. Variable-temperature 1H NMR studies reveal exchange occurs between the coordinated and dangling N-donor legs in the palladium and platinum complexes. Exchange free energy (Delta G++ c) values have been calculated and some general rules governing the favoured complex structures and exchange pathways elucidated. The palladium(II) and platinum(II) complexes of a ligand with an pyridylethyl leg are unstable with respect to elimination of vinylpyridine.     

双羟甲基-18-冠-6及其衍生物的合成

报道了双羟甲基-18-冠-6及其正丁基、烯丙基、酯基、羧酸基衍生物的合成。所合成的八种新冠醚化合物的结构已经IR、MS、NMR、元素分析证实。     

2,3-Unsaturated allyl glycosides as glycosyl donors for selective α-glycosylation

In the presence of NBS and a catalytic amount of a Lewis acid, 2,3-unsaturated allyl glycosides [6-(allyloxy)-3,6-dihydro-2-(hydroxymethyl)-2H-pyran-3-ol] have been successfully used as versatile glycosyl donors for the stereoselective α-glycosylation of a variety of alcohols comprising sensitive functions such as acetonide, keto, nitro, and ester in 50-90% yields. The methodology offers an equally facile alternative to 4-pentenyl replacement in unsaturated sugars.     

Synthetic 6-O-methylglucose-containing polysaccharides (sMGPs): design and synthesis

With the hope of mimicking the chemical and biological properties of natural 6-O-methyl-D-glucose-containing polysaccharides (MGPs), synthetic 6-O-methyl-D-glucose-containing polysaccharides (sMGPs) were designed and synthesized from alpha-, beta-, and gamma-cyclodextrins (CDs). The synthetic route proved to be flexible and general, to furnish a series of sMGPs ranging from 6-mer to 20-mer. A practical and scalable method was discovered selectively to cleave the CD derivatives and furnish the linear precursors to the glycosyl donors and acceptors. The Mukaiyama glycosidation was adopted to couple the glycosyl donors with the glycosyl acceptors. Unlike in the 3-O-methyl-D-mannose-containing polysaccharide (sMMP) series, the amount of the Mukaiyama acid required in the sMGP series increased with an increase of substrate size; that is, for large oligomers, more than one equivalent of the acid was required.     

Solvent Influence on the Diels‐Alder Reaction Rates of 9‐(Hydroxymethyl)anthracene and 9,10‐Bis(hydroxymethyl)anthracene with Two Maleimides

The rates of the Diels–Alder reaction of 9‐(hydroxymethyl)anthracene and 9,10‐bis(hydroxymethyl)anthracene with maleic anhydride and two maleimides, N‐ethyl‐ and N‐phenylmaleimide, have been studied at various temperatures and pressures in different solvent media. A rate acceleration in water in comparison with organic solvents is observed. Thermodynamic functions of activation for the reaction of 9,10‐bis(hydroxymethyl)anthracene with N‐ethylmaleimide in binary 1,4‐dioxane–water mixtures are determined. From the observed tendencies, it can be concluded that acceleration of the Diels–Alder reactions in water is linked with an energetically favorable dehydration of the reaction centers of the reactants on the way to the activated complex. Addition of an organic cosolvent makes the desolvation of these centers less favorable.