NOE Experiments Research Articles

Heterologous production of new lasso peptide koreensin based on genome mining.

Lasso peptides are a class of ribosomally biosynthesized and posttranslationally modified peptides with a knot structure as a common motif. Based on a genome search, a new biosynthetic gene cluster of lasso peptide was found in the genome of the proteobacterium Sphingomonas koreensis. Interestingly, the amino acid sequence of the precursor peptide gene includes two cell adhesion motif sequences (KGD and DGR). Heterologous production of the new lasso peptide was performed using the cryptic biosynthetic gene cluster of S. koreensis. As a result, a new lasso peptide named koreensin was produced by the gene expression system in the host strain Sphingomonas subterranea. The structure of koreensin was determined by NMR and ESI-MS analysis. The three-dimensional structure of koreensin was obtained based on an NOE experiment and the coupling constants. A variant peptide (koreensin-RGD), which had RGD instead of KGD, was produced by heterologous production with site-directed mutagenesis experiment. Koreensin and koreensin-RGD did not show cell adhesion inhibitory activity, although the molecules possessed cell adhesion motifs. The possible presence of a salt bridge between the motifs in koreensin was indicated, and it may prevent the cell adhesion motif from functioning.

Synthesis of novel 2,5-substituted p-aminophenols and 2,5-substituted p-quinones in a one-pot reaction between α-alkoxyvinyl(ethoxy)carbene complexes, amines and alkynes

The synthesis of novel p-aminophenols 19a-o and p-quinones 21a-i was carried out by an aminolysis reaction/[3 + 2+1] cycloaddition cascade process of α-alkoxyvinyl (ethoxy) Fischer carbene complexes of group 6 metals (M = Cr, Mo, W), primary and secondary amines and terminal alkynes. The multicomponent reaction of carbenes 1a-c with morpholine (6a) and piperidine (6c), respectively, and terminal alkynes 17a-d only afforded the 4-aminophenols 19a-o in moderated yields. The products bore the terminal alkyne substituent at the ortho position of the hydroxyl group. These one-pot reactions showed highly regio- and chemoselectivity, favoring the benzannulation products. When carbene complexes 1a-c were reacted with primary amines 10a-c and alkynes 17a-c under the same conditions, the cascade process led to the formation of p-quinones 21a-21i, in moderate yields. The regiochemistry of the compounds was established by NOE experiments, and the structures of morpholinocarbene 7a, p-aminophenols 19b, 19d and p-quinone 21b were confirmed by single-crystal X-ray diffraction.

Synthesis, structure elucidation and plants growth promoting effects of novel quinolinyl chalcones

The readily synthesized 3-(4-Hydroxy-1-methyl-1,2-dihydro-2-oxoquinolin-3-yl)-1-phenyl-1H-pyrazole-4-carbaldehyd (5) and 3-(2-Oxo-2H-chromen-3-yl)-1-phenyl-1H-pyrazole-4-carbaldehyde (6) were utilized as a convenient starting precursor materials for synthesis of novel enone system 4-hydroxy-1-methyl-3-(4-(2H-2-oxo-chromen-3-yl)prop-2-enoyl)-1-phenyl-1H-pyrazol-4-yl)quinolin-2(1H)-one (7) and4-hydroxy-1-methyl-3-(2E)-3-(3-(2-oxo-2H-chromen-3-yl)-1-phenyl-1H-pyrazol-4-yl)acryloyl)quinolin-2(1H)-one (8). Simple homonuclear NOE experiment (NOESY 1D) method was performed for structure elucidation of the novel quinolinyl chalcones. The synthesized compounds have been estimated for their effect of growth on some selective crop of plants (Hibiscus, Mint and Basil).

Intra- and intermolecular H-bonding of benzotriazole UV stabilizers evidenced using 1D nuclear Overhauser effect experiments

The UV absorber protection mechanism of 2-hydroxyphenylbenzotriazoles is based upon energy dissipation via an excited state proton transfer from the phenolic OH group to the triazole nitrogen(s). Using 1H-NMR NOE experiments we have established that 2-(2’hydroxy-5′- methylphenyl)-benzotriazole (UVA1) exists in chloroform as an intramolecularly H-bonded form whereas in DMSO this bond is disrupted by the formation of intermolecular H-bonding to the solvent. Conversely, for compounds 2-(2′-hydroxy-3′,5′-di(1,1-dimethyl propane))-benzotriazole (UVA2), and 3′-methylene-hydantoin-2-(2′-hydroxy-5′-methylphenyl)-benzotriazole (UVA3) having bulky substituents ortho to the phenolic OH group 1H-NMR NOE experiments indicate that upon changing solvent from DMSO to chloroform the strength of the intramolecular H-bond is not appreciably affected. The implication of the H-bond strength upon the UV stabilizing effectiveness is discussed.

New optically active camphor-derived cyclopalladated complexes with an asymmetric carbon bonded to the metal

N,N-Dimethylhydrazone of D-camphor 1 was obtained as the single E isomer in 80% yield by treating the enantiopure ketone with N,N-dimethylhydrazine in the presence of an equimolar amount of p-toluenesulfonic acid in ethanol. Direct cyclopalladation of hydrazone 1 was accomplished at the C(3)H2 group using [Pd(MeCN)2Cl2] and NaOAc in MeCN at the reflux temperature. The product of the reaction, dinuclear cyclopalladated complex 2, was isolated in 89% yield as a mixture of diastereoisomers, which differ by the absolute configuration of the chiral carbon bound to the metal. Compound 2 was converted to the mononuclear complexes 3 and 4 by treating the dimer with PPh3 and Na(acac), respectively. Compounds 3 and 4 were also mixtures of two diastereomers with the Pd atom either in endo or exo position at the new chiral center in the norbornane moiety. Isomers of complex 3 were partly separated by column chromatography to obtain samples of (1S,2S,4R)-3 and (1S,2R,4R)-3 with 96% and 86% de, respectively. The structures of all new compounds were supported by 1H, 13C{1H}, and 31P{1H} spectra as well as 1D NOE experiments. X-ray crystallographic data of complexes 2, (1S,2S,4R)-3 and (1S,2R,4R)-3 supported the cyclopalladation at the C(3)H2 group of the ligand and the absolute configuration of the Pd-bound chiral carbon in both endo and exo palladacycles.

Annular Tautomerism of 3(5)-Disubstituted-1H-pyrazoles with Ester and Amide Groups.

A series of disubstituted 1H-pyrazoles with methyl (1), amino (2), and nitro (3) groups, as well as ester (a) or amide (b) groups in positions 3 and 5 was synthesized, and annular tautomerism was investigated using X-ray, theoretical calculations, NMR, and FT-IR methods. The X-ray experiment in the crystal state showed for the compounds with methyl (1a, 1b) and amino (2b) groups the tautomer with ester or amide groups at position 3 (tautomer 3), but for those with a nitro group (3b, 4), tautomer 5. Similar results were obtained in solution by NMR NOE experiments in CDCl3, DMSO-d6, and CD3OD solvents. However, tautomer equilibrium was observed for 2b in DMSO. The FT-IR spectra in chloroform and acetonitrile showed equilibria, which can be ascribed to conformational changes of the cis/trans arrangement of the ester/amide group and pyrazole ring. Theoretical analysis using the M06-2X/6-311++G(d,p) method (in vacuo, chloroform, acetonitrile, and water) and measurement of aromaticity (NICS) showed dependence on internal hydrogen bonds, the influence of the environment, and the effect of the substituent. These factors, pyrazole aromaticity and intra- and inter-molecular interactions, seem to have a considerable influence on the choice of tautomer.

Silver-catalyzed carboxylative cyclization of alkynic hydrazones with carbon dioxide

The development of new catalytic methodologies to synthesize heterocyclic fine chemicals using carbon dioxide as a synthon has attracted considerable attention. Herein, we report the silver(I)-catalyzed carboxylative cyclization of a variety of alkynic hydrazones with carbon dioxide to produce the corresponding 1,3,4-oxadiazin-2-ones under mild reaction conditions. In this reaction, silver(I) salts play a π-Lewis acid role for the highly efficient activation of the alkyne moiety in the hydrazone substrates. Single-crystal X-ray analysis and NOE experiments confirm that the newly formed oxadiazinone products exhibit Z configuration. Based on control experiments and NMR studies, a mechanism including the formation of a reactive carbazate intermediate, electrophilic cyclization, and subsequent protonation is proposed. This study offers an efficient and atom-economical method for the synthesis of biologically important 1,3,4-oxadiazin-2-ones.

A Comprehensive View on (-)-7-Oxo-ent-kaur-16-en-19-oic Acid, the Major Constituent of Xylopia sericea Leaves Extract: Complete NMR Assignments, X-Ray Crystallographic Structure, in Vitro Antimalarial Activity and Cytotoxicity.

Bioguided fractionation of Xylopia sericea antiplasmodial dichloromethane leaves extract led to the isolation of (-)-7-oxo-ent-kaur-16-en-19-oic acid (C20 H28 O3 ) that was identified by a combination of 1D and 2D NMR experiments (COSY, HMBC, HSQC, HSQC-TOCSY, HSQC-NOESY and NOESY) and by X-ray crystallography. A feature to be pointed out is its (4R) configuration that was inferred from the NOE experiments (HSQC-NOESY and NOESY) and X-ray crystallography. In vitro evaluation of this rare diterpene acid against the chloroquine-resistant strain Plasmodium falciparum W2 by the PfLDH method showed it disclosed a low antiplasmodial activity and was not cytotoxic to HepG2 cells (CC50 862.6±6.7 μm) by the MTT assay. The unequivocal NMR signals assignments, the X-ray crystallographic structure, the assessment to the bioactivities and the occurrence this diterpene in X. sericea are reported here for the first time.

Spatial structure, thermodynamics and kinetics of formation of hydrazones derived from pyridoxal 5′-phosphate and 2-furoic, thiophene-2-carboxylic hydrazides in solution

The spatial structure of pyridoxal 5′-phosphate hydrazones of 2-furoic hydrazide; thiophene-2-carboxylic hydrazide in aqueous solution was studied by means of quantum chemical calculations and NOE experiment. The hydrazones could exist as a mixture of different conformers; however, the specific ones could be suggested from experimental and calculated data. The stability constants of hydrazones at pH of 1.9; 6.6; 7.0; 7.4 were determined using UV–Vis spectroscopy. Rate constants of the hydrazone formation and hydrolysis reaction within the range of 6.6–7.4 pH were obtained. Isothermal calorimetric titration was performed in order to determine the change in the free Gibbs energy, enthalpy and entropy of hydrazones formation at pH of 6.6. Hydrazones were synthesized and characterized by means of 1H, 13C, 31P NMR, IR, UV–Vis, fluorescent, MS-spectroscopy as well as DSC and elemental analysis.

Isolation of Peribysins O, P, and Q from Periconia macrospinosa KT3863 and Configurational Reinvestigation of Peribysin E Diacetate from Periconia byssoides OUPS-N133.

Peribysins O (1), P (3), and Q (4) were isolated from Periconia macrospinosa KT3863. The relative configuration of the 6,7-epoxide of 1 was elucidated by performing quantitative NOE experiments. The structure of 2, which is a tautomer of 1 present in CDCl3 solutions in 5% abundance, was also fully characterized by NMR analysis. Their absolute configurations were independently determined by the modified Mosher's method (for 1 and 3), the electronic circular dichroism (ECD) exciton coupling theory after conversion into dibenzoate 9 (for 3), and theoretical ECD calculations (for 1, 3, and 4). The obtained relative structures 1, 3, and 4 were verified by calculating their 13C chemical shifts using density functional theory (DFT). Although the established (4 S)-enantiomer for 1-4 is in accordance with that of other peribysins isolated from the related fungus Periconia byssoides OUPS-N133, Danishefsky's total synthesis of peribysin E (5) led to the subsequent revision of the (2 R,4 S,5 R,6 S,7 S,8 R,10 S)-enantiomer to the (2 S,4 R,5 S,6 R,7 R,8 S,10 R)-enantiomer. This discordance led us to reinvestigate the configuration using time-dependent DFT-based ECD spectral calculations, which supported the original (4 S)-enantiomer.

Two New Chalcone Glycoside Compounds from Viburnum lantana (Family Caprifoliaceae) and Antioxidant Activity of its Hydroalcoholic Extract

In the present study, two novel chalcone glycosides, trans-3-ethoxy-4-O-(glucopyranoside) -2', 3', 4', 5', 6' -pentahydroxy chalcone (compound 1) and trans-3-methoxy-4-O-(glucopyranoside) -2', 3', 4', 5', 6' -pentahydroxy chalcone (compound 2) have been isolated from the leaves of Viburnum lantana L. The structures were elucidated by using 1H-NMR, 13C-NMR, 2D-NMR such as HMQC, HMBC and NOE experiments and UV-Vis, MS and IR spectra. The antioxidant property of hydroalcoholic extract was evaluated by DPPH style. The results revealed that the leave extract possesses significant antioxidant activity (IC50 = 52 µg/mL). This study indicates that hydroalcoholic extract of the leaves from this species is an important source of chalcone and flavonoid derivatives, as well as of useful natural antioxidants. These chalcone glycoside compounds were isolated for the first time from V. lantana leaves.

New spiro derivative of dihydro-1,2,3-triazolo[1,5-a]pyrimidine as a product of multicomponent reaction

A new spiro derivative of dihydro-1,2,3-triazolo[1,5-a]pyrimidine – 5'-amino-6'-cyano-4'H-spiro[cyclohexane-1,7'-[1,2,3]triazolo[1,5-a]-pyrimidine]-3'-carboxamide – was prepared by three-component reaction of 5-amino-1,2,3-triazole-4-carboxamide with malononitrile and cyclohexanone; the structure of product was established by X-ray analysis. Microwave activation and conventional heating showed the formation of single product and the same direction of heterocyclization. Available literature data concerning similar reactions using 3-amino-1,2,4-triazole or 2-aminobenzimidazole were reinvestigated experimentally with consideration of alternative structures; structures of products were studied by NMR including NOE experiments.

Photocyclization of Tetra- and Pentapeptides Containing Adamantylphthalimide and Phenylalanines: Reaction Efficiency and Diastereoselectivity

A series of tetrapeptides and pentapeptides was synthesized bearing a phthalimide chromophore at the N-terminus. The C-terminus of the peptides was strategically substituted with an amino acid, Phe, Phe(OMe), or Phe(OMe)2 characterized by different oxidation potentials. The photochemical reactivity of the peptides was investigated by preparative irradiation and isolation of photoproducts, as well as with laser flash photolysis. Upon photoexcitation, the peptides undergo photoinduced electron transfer (PET) and decarboxylation, followed by diastereoselective cyclization with the retention of configuration for tetrapeptides or inversion of configuration for pentapeptides. Molecular dynamics (MD) simulations and NOE experiments enabled assignment of the stereochemistry of the cyclic peptides. MD simulations of the linear peptides disclosed conformational reasons for the observed diastereoselectivity, being due to the peptide backbone spatial orientation imposed by the Phe amino acids. The photochemical efficiency for the decarboxylation and cyclization is not dependent on the peptide length, but it depends on the oxidation potential of the amino acid at the C-terminus. The results described herein are particularly important for the rational design of efficient photochemical reactions for the preparation of cyclic peptides with the desired selectivity.

Heterologous production of a new lasso peptide brevunsin in Sphingomonas subterranea.

A shuttle vector pHSG396Sp was constructed to perform gene expression using Sphingomonas subterranea as a host. A new lasso peptide biosynthetic gene cluster, derived from Brevundimonas diminuta, was amplified by PCR and integrated to afford a expression vector pHSG396Sp-12697L. The new lasso peptide brevunsin was successfully produced by S. subterranea, harboring the expression vector, with a high production yield (10.2mg from 1L culture). The chemical structure of brevunsin was established by NMR and MS/MS experiments. Based on the information obtained from the NOE experiment, the three-dimensional structure of brevunsin was determined, which indicated that brevunsin possessed a typical lasso structure. This expression vector system provides a new heterologous production method for unexplored lasso peptides that are encoded by bacterial genomes.

Synthesis of N-substituted Five and Six-membered Iminocyclitols-bearing Sugar Moiety: Strategy Toward the Synthesis of Pseudodisaccharide

Aim and Objective: The efficient synthesis of disaccharide containing iminosugar moiety has a considerable interest in the field of glycoscience. In the present work, we describe a novel and applicable method for synthesis of five and six-membered N-substituted iminosugars attached with sugar moiety (pseudodisaccharides). Materials and Methods: The method of the glycosylation was based on the coupling of iminosugar thioglycoside (glycosyl donors) with partially protected sugars (glycosyl acceptors) in the presence of DMTST as a promoter. 2D COSY, HMQC, HMBC experiments were carried out to assist in NMR signal assignments. The pseudoanomeric configuration was established through NOE experiments and molecular modeling calculations. Results: Two classes of pseudodisaccharides were successfully obtained, five and six-membered N-substituted iminosugars glycosides. The six-membered pseudodisaccharides compounds were produced selectively with only β anomer. The corresponding five-membered pseudodisaccharides were achieved with moderate stereoselectivity. The yields obtained were good. These derivatives of iminocyclitols are thought to be precedents to develop various pseudodisaccharides, novel biologically active compounds, and new functional molecules. Conclusion: According to the results, utilizing iminosugar thioglycosides (1 and 2) as a glycosyl donor in glycosylation reactions is an efficient and highly stereoselective method to prepare (five- and six-membered) iminocyclitols (iminosugars) that bear a sugar moiety. The results will add to the synthesis of the iminosugars derivatives and contribute to make our approach among the few methods able to synthesize iminosugar glycosides.

A Thiourea Tether in the Second Coordination Sphere as a Binding Site for CO2 and a Proton Donor Promotes the Electrochemical Reduction of CO2 to CO Catalyzed by a Rhenium Bipyridine-Type Complex.

The electrochemical reduction of CO2 has been extensively investigated in recent years, with the expectation that a detailed mechanistic understanding could achieve the goal of finding a stable catalyst with high turnover frequencies and low reduction potentials. In the catalytic cycle of the carbon dioxide hydrogenase enzyme, it has been suggested that the reduced metal center reacts with CO2 to form a carboxylate intermediate that is stabilized by hydrogen bonding using a histidine moiety in the second coordination sphere. Using the well-known fac-Re(I)bipyridine(CO)3Cl complex as a starting point, the bipyridine ligand was modified in the second coordination sphere with a thiourea tether that is known to form hydrogen bonds with carbonyl moieties. The resulting Re(I) catalyst was an excellent electrocatalyst for the selective reduction of CO2 to CO, with a turnover frequency of 3040 s-1. The binding of CO2 to the thiourea tether was observable by 1H NMR, and NOE experiments showed that the hydrogen atoms of the thiourea group were labile. Further experiments indicated that the thiourea moiety is also a local proton source and addition of an external proton source actually inhibits catalysis. The absence of a kinetic isotope effect was explained through DFT calculations that showed that the proton invariably jumps to the nearest CO2 oxygen atom to form a metal-carboxylic acid without going through any minimum or transition state. EPR and NMR spectroscopies were used to identify the various reduced intermediates. Thus, the thiourea tether in the second coordination sphere can bind CO2, stabilize carboxylic acid reaction intermediates, and directly act as a local proton source, leading to a significantly more active catalyst.

Synthesis of dimeric spirostanols linked through a 1,4-dimethylidenebenzene moiety by double BF3·Et2O-catalyzed aldol condensation of steroid sapogenins and terephtalaldehyde

BF3·Et2O-catalyzed double aldol condensation between acetylated steroid sapogenins and terephtalaldehyde led to acetylated dimeric spirostanols linked through a 1,4-dimethylidenebenzene moiety in moderate to good yields. The E configurations of the introduced double bonds were corroborated by NOE experiments. Saponification of the dimeric steroids led to the corresponding dimeric spirostanols.

Isoquinolines from Corydalis tomentella from Tibet, China, possess hepatoprotective activities

The phytochemical study on Corydalis tomentella Franch, a traditional Chinese medicinal plant in Tibet, China, led to the isolation of six previously undescribed isoquinolines, including two rarely reported N-benzyl ones, and twenty-one known ones firstly obtained from this plant. Their planar structures were elucidated by 1D, 2D NMR experiments and high resolution mass spectrometry, and the absolute configurations were determined by NOE experiments, electronic circular dichroism, and specific rotation. Seven isoquinolines exhibited stronger hepatoprotective activities than that of positive control in D-galactosamine induced L02 cells damage model, which could be served as the leading compounds for further investigations. The primary structure-activity relationship was also summarized accordingly.

Identification of Ingol and Rhamnofolane Diterpenoids from Euphorbia resinifera and Their Abilities to Induce Lysosomal Biosynthesis.

The phytochemical study of Euphorbia resinifera afforded 18 structurally diverse diterpenoids, including 14 new ingol-type diterpenoids, euphorblins A-N (1-14), a new rhamnofolane diterpenoid, euphorblin O (15), and three known analogues (16-18). The structures of these compounds were deduced using 2D NMR spectroscopy and NOE experiments. The structure of compound 1 was confirmed by single-crystal X-ray crystallography. The abilities of the compounds to enhance lysosomal biosynthesis were evaluated through LysoTracker Red staining. Among the 10 active compounds, compounds 2, 4, and 18 showed remarkable immunofluorescence strength, and their LysoTracker staining intensities were 155.9%, 143.5%, and 140.7%, respectively, greater than that of the control. A series of lysosomal genes were also found to be upregulated by these compounds, which further confirms their ability to induce lysosome biosynthesis and suggests that these diterpenoids have potential as lead compounds for the development of drugs for the treatment of lysosome-related diseases.

Isolation of Imaqobactin, an Amphiphilic Siderophore from the Arctic Marine Bacterium Variovorax Species RKJM285.

The amphiphilic siderophore imaqobactin was isolated from the Arctic bacterium Variovorax sp. RKJM285, a strain isolated from marine sediment collected from an inlet near Clyde River, Nunavut, Canada. The 2D structure of imaqobactin was determined by a combination of LC-HRMS, MS/MS, and NMR spectroscopic methods. The absolute configuration of the depsipeptide core was determined by Marfey's analysis, and the relative configuration of the 4,7-diamino-3-hydroxy-2-methylheptanoic acid moiety was determined by NOESY and selective NOE experiments. The photoreductive properties of imaqobactin were tested and are discussed. Initial tests for antimicrobial and cytotoxic activity of imaqobactin were also performed, identifying moderate antimicrobial activity.