Direct Synthesis of Amides from Carboxylic Acids and Amines Using B(OCH2CF3)3

B(OCH2CF3)3, prepared from readily available B2O3 and 2,2,2-trifluoroethanol, is as an effective reagent for the direct amidation of a variety of carboxylic acids with a broad range of amines. In most cases, the amide products can be purified by a simple filtration procedure using commercially available resins, with no need for aqueous workup or chromatography. The amidation of N-protected amino acids with both primary and secondary amines proceeds effectively, with very low levels of racemization. B(OCH2CF3)3 can also be used for the formylation of a range of amines in good to excellent yield, via transamidation of dimethylformamide

B(OCH2CF3)3-mediated amidation reactions

This thesis describes the further development of a borate ester, B(OCH2CF3)3, as a reagent for amidation with a focus on carboxylic acids, including N-protected amino acids, and on the amidation of unprotected amino acids. In addition, a novel methodology for the determination of enantiomeric ratio in chiral amines is reported. The B(OCH2CF3)3-mediated direct amidation of carboxylic acids furnishes the amide product in generally excellent yield (A). A formylation method using DMF as the formyl donor was also developed (B). The B(OCH2CF3)3-mediated amidation method allows the amidation of α-chiral acids (for example, N-protected amino acids) in good yield with excellent retention of enantiopurity (C). Importantly, a solid-phase work-up procedure was developed which enables the purification of all of these amide products without the need for column chromatography or aqueous work-up. The application of B(OCH2CF3)3 to the amidation of unprotected amino acids is described (D). This covers an optimisation study and an investigation into the scope of the reaction. As a result of this study a new method for the determination of enantiomeric purity of chiral amines was developed. Using an aldehyde derived from lactic acid the enantiopurity of chiral amines can be determined by NMR, circumventing the need for chiral HPLC. Additionally, a mechanistic study of the direct amidation reaction is discussed. A reaction intermediate as well as a tentative mechanism are proposed based on the results of this mechanistic study and preliminary experimental evidence

A lactate-derived chiral aldehyde for determining the enantiopurity of enantioenriched primary amines

In this paper we describe the use of a chiral aldehyde derived from lactate esters for determining the enantiopurity of primary amines, via the formation of diastereomeric imines. The method was shown to be suitable for reproducibly determining the enantiopurity of a diverse set of chiral amines. Both enantiomers of the aldehyde can be prepared in two steps from commercially available materials

B(OCH2CF3)3-mediated direct amidation of pharmaceutically relevant building blocks in cyclopentyl methyl ether

The use of B(OCH2CF3)3 for mediating direct amidation reactions of a wide range of pharmaceutically relevant carboxylic acids and amines is described, including numerous heterocycle-containing examples. An initial screen of solvents for the direct amidation reaction suggested that cyclopentyl methyl ether, a solvent with a very good safety profile suitable for use over a wide temperature range, was an excellent replacement for the previously used solvent acetonitrile. Under these conditions amides could be prepared from 18 of the 21 carboxylic acids and 18 of the 21 amines examined. Further optimisation of one of the low yielding amidation reactions (36% yield) via a design of experiments approach enabled an 84% yield of the amide to be obtained

Protecting‐Group‐Free Amidation of Amino Acids using Lewis Acid Catalysts

Amidation of unprotected amino acids has been investigated using a variety of ‘classical“ coupling reagents, stoichiometric or catalytic group(IV) metal salts, and boron Lewis acids. The scope of the reaction was explored through the attempted synthesis of amides derived from twenty natural, and several unnatural, amino acids, as well as a wide selection of primary and secondary amines. The study also examines the synthesis of medicinally relevant compounds, and the scalability of this direct amidation approach. Finally, we provide insight into the chemoselectivity observed in these reactions

Motional timescale predictions by molecular dynamics simulations: Case study using proline and hydroxyproline sidechain dynamics.

We propose a new approach for force field optimisations which aims at reproducing dynamics characteristics using biomolecular MD simulations, in addition to improved prediction of motionally averaged structural properties available from experiment. As the source of experimental data for dynamics fittings, we use (13) C NMR spin-lattice relaxation times T1 of backbone and sidechain carbons, which allow to determine correlation times of both overall molecular and intramolecular motions. For structural fittings, we use motionally averaged experimental values of NMR J couplings. The proline residue and its derivative 4-hydroxyproline with relatively simple cyclic structure and sidechain dynamics were chosen for the assessment of the new approach in this work. Initially, grid search and simplexed MD simulations identified large number of parameter sets which fit equally well experimental J couplings. Using the Arrhenius-type relationship between the force constant and the correlation time, the available MD data for a series of parameter sets were analyzed to predict the value of the force constant that best reproduces experimental timescale of the sidechain dynamics. Verification of the new force-field parameters against NMR J couplings and correlation times showed consistent and significant improvements compared to the original force field in reproducing both structural and dynamics properties. The results suggest that matching experimental timescales of motions together with motionally averaged characteristics is the valid approach for force field parameter optimisation. Such a comprehensive approach is not restricted to cyclic residues and can be extended to other amino acid residues, as well as to the backbone. © Proteins 2013;. © 2013 Wiley Periodicals, Inc

Direct amidation of unprotected amino acids using B(OCH2CF3)3

A commercially available borate ester, B(OCH2CF3)3, can be used to achieve protecting-group free direct amidation of α-amino acids with a range of amines in cyclopentyl methyl ether. The method can be applied to the synthesis of medicinally relevant compounds, and can be scaled up to obtain gram quantities of products