Solid-phase synthesis of photoaffinity probes: highly efficient incorporation of biotin-tag and cross-linking groups

A benzophenone cross-linking group and a biotin-tag hybrid, resin 1a, attached to our novel resin 2 was readily converted to the photoaffnity probe 20 by condensation with the ligand carboxylic acid 19 and cleavage from the resin without purification.     

P-BOSS: a new filtering method for treasure hunting in metabolomics

Metabolomics is expected to boost data driven research. In biomarker discovery, powerful filtering methods to remove noise and outliers are essential for screening significant candidates from the huge volume of omic data. Here we propose a post-measurement peak filtering method (named P-BOSS) for CE electrospray ionization-time-of-flight MS (CE-TOFMS) data. Combining outlier detection method functions in parallel, we applied P-BOSS to the data using Escherichia coli knockout mutants of the tryptophan and purine biosynthesis pathways. As the result, P-BOSS showed remarkably superior performance, reducing 65% of all peaks, while leaving significant peaks.     

Conformational behaviors of tetra-O-methylsulfinylcalix[4]arenes--an approach to control the conformation of thiacalix[4]arenes by oxidizing sulfur bridges

The conformational behaviors of all four stereoisomers [5(rctt), 5(rcct), 5(rtct), and 5(rccc)] of tetra-O-methylsulfinylcalix[4]arene were studied by the 1H NMR spectroscopic method. Variable-temperature (VT) NMR experiments of 5(rctt), 5(rcct), and 5(rtct) revealed that each compound adopted the same conformation as that in the crystals at low temperatures and exhibited a self-exchange between the two equivalent species of this conformation at elevated temperatures. The values of the activation enthalpy DeltaH for the self-exchange were similar (approximately 70 kJ mol-1). Further, the activation entropy DeltaS++ was more important for 5(rtct) (-40 J mol-1 K-1) than for 5(rctt) (-5 J mol-1 K-1) and 5(rcct) (-7 J mol-1 K-1); consequently, the exchange rate of 5(rtct) was 150-180 times less than that of the other isomers at 273 K. On the other hand, 5(rccc) was in an equilibrium state between cone and partial-cone conformers at 253 K with the molar ratio being 85:15, which was in reasonable agreement with the relative stability between the two conformers calculated by the ab initio molecular orbital method.     

Intramolecular rearrangement of 1,3-bistriflate ester of thiacalix[4]arene to 1,2-counterpart: an efficient di-O-protection method for the stereoselective synthesis of anti-1,2-diethers

A net anti-selective dialkylation of the proximal hydroxy groups of thiacalix[4]arene 2 is achieved for the first time via the initial protection of the two proximal hydroxy groups of compound 2 with Tf moieties by intramolecular rearrangement of easily preparable 1,3-bistriflate ester 3 to 1,2-counterpart 4, followed by anti-selective dialkylation of the remaining hydroxy groups with alkyl halides or under the Mitsunobu conditions and subsequent removal of the Tf moieties.     

A high-throughput phage display screening method using a combination of real-time PCR and affinity chromatography

Phage display is one of the best methods to identify drug targets, although technical problems including imprecision in quantifying phage and false-positive results are common. To address these difficulties, we propose two methods to more rapidly identify drug-binding phage particles. First, quantification of phage using SYBR Green Real-time PCR significantly improved accuracy and reproducibility. Second, affinity-column chromatography for selection of drug-binding phage particles concentrated particles more than a 96-well plate, making a phage amplification step, which can bias phage distribution, unnecessary. The methods proposed here should be suitable for high-throughput phage-display screenings and ultimately lead to more rapid identification of drug targets.     

Interaction between quaternary ammonium ions and dipeptides: positive anion allosteric effect

The binding properties of dipeptides possessing aromatic residues towards quaternary ammonium ions have been investigated by 1H-NMR spectroscopy. The intermolecular hydrogen bonding between exchangeable protons (OH and NH) of aromatic residues of dipeptides and the counter anion of ammonium ion is the primary force. After the formation of the intermolecular hydrogen bonding, two aromatic residues of dipeptides can provide pi-base cavity to interact with the quaternary ammonium moiety.     

Synthesis,resolution, and absolute stereochemistry of (-)-blestriarene C

A naturally occurring 1,1'-biphenanthrene, blestriarene C (1), was prepared in 13 steps and 30% overall yield. The key steps are the ester-mediated nucleophilic aromatic substitution on 2,6-di-tert-butyl-4-methoxyphenyl 5-isopropoxy-2-methoxybenzoate (4) by 2-methoxy-4-methoxymethoxy-6-methylphenylmagnesium bromide (5) and a novel intramolecular cyclization of the resulting 4-isopropoxy-2'-methoxy-4'-methoxymethoxy-6'-methylbiphenyl-2-carboxylic ester 14 to 7-isopropoxy-4-methoxy-2-(methoxymethoxy)phenanthren-9-ol (15). The racemic blestriarene C was optically resolved by chiral HPLC on a preparative scale to give several 10-mg yields of both the enantiomers in up to 95% ee. The absolute stereochemistry was determined to be S(a)-(-) by the axial chirality recognition method, which was based on the stereospecific formation of a 12-membered cyclic diester containing two biaryl-o,o'-diyl unites joined by ester -CO(2)- linkages. The validity of the method was confirmed by an X-ray crystallographic analysis and ab initio conformational analyses of such 12-membered cyclic diesters. It was found that blestriarene C and its 7,7'-diisopropyl ether 2 underwent rapid photoracemization even under ambient light exposure.