FAB of peptides study: Deuterated glycerol matrix and selectively deuterated peptides. Part II

Abstract

Two peptides, H-Gly-Lys-Thr-Gly-Pro-Gly-OH (1) and Leu-enkephalin (2) FAB-PI spectra in normal and deuterated glycerol have been studied. Two C-deuterated and D₂O exchanged analogs have been used to compare their fragmentation to unlabelled peptides.

The mass spectrometry of peptides has become a particularly interesting field with the wide spread adoption of the FAB technique. This technique enables one to record the quasi-molecular ion (in both positive and negative modes as M+1 or M?1 respectively) and to extract from the spectrum valuable information on the peptide sequence.     

NMR Studies Of Drugs. Chiral Solvating Agents for Direct Determination of Enantiomeric Excess of the Cardiac Antiarrhythmic,Mexiletine

The 400 MHz ¹H NMR spectra of the cardiac antiarrhythmic, mexiletine, 1, have been studied with different chiral solvating agents (CSA) to obtain a very promising method for direct determination of enantiomeric excess (e.e.) with limited amounts of 1. The methods included the use of β-cyclodextrin (β-CD), γ-cyclodextrin (γ-CD), α-methoxy-α-(trifluoromethyl)phenylacetic acid (MTPA), and 2,2,2-trifluoro-1-(9-anthryl)ethanol (TFAE). Use of TFAE in CDCl₃ with the free base of 1 appeared to give the best results, with enantiomeric shift differences observed for the signals of the sidechain methyl, CH ₃CH, and the aryl methyls.     

Spectrophotometric Determination of Lead with 2-(5-Bromo-2-pyridylazo)-5-diethylaminophenol and Cetyltrimethylammonium Bromide

Abstract

A new spectrophotometric method was employed for the determination of lead (II) based on the ternary complex formation with 2-(5-Bromo-2-Pyridylazo)-5-diethylaminophenol(5-BrPADAP) and cetyltri-methyl-ammonium bromide (CTAB). At pH 7.00 a violet ternary complex, whose molar absorptivity is 5.1×10⁴ 1.mole^?1 cm^?1 at 575 nm, is formed. Beer's law range (0.5 ? 4.9 μg ml^?1 of lead), the apparent stability constant (log β=9.90) and δG° were evaluated. A large number of ions do not interfer at pH 7.00 because they form complexes with 5-Br-PADAP at higher pH's (< 9.40) or at lower pH's (> 4.86). The method offers the advantages of simplicity and requires no extraction.     

Calculation of frequencies of normal vibrations and interpretation of IR spectra for 2,3-dihydro-3-O-(1,4-naphthoquinon-2-yl)-2-oxo-1,4-naphthoquinone derivatives

We have used B3LYP/6-31(d) density functional theory to calculate the frequencies and modes of the normal vibrations of 2-oxo-2,3-dihydro-and 2-methoxy-1,4-naphthoquinones. Based on these calculations within an additive model, we have assigned the carbonyl bands in the IR spectra of 2,3-dihydro-3-O-(1,4-naphthoquinon-2-yl)-2-oxo-1,4-naphthoquinones (diquinones 1–4). We have carried out a direct calculation of the vibrational spectra for diquinones 1–4 using PBE and B3LYP correlation functionals. We have shown that the calculation of the vibrational spectra of the diquinones based on an additive model on the whole is quite consistent with the results of direct calculations and the experimental spectra. __________ Translated from Zhurnal Prikladnoi Spektroskopii, Vol. 73, No. 6, pp. 713–720, November–December, 2006.     

Spectrophotometric Characteristics of New Pyridylindolizine Derivatives Solutions

Three new pyridylindolizine derivatives, 1, 2, 3-tricarbometoxi-7-(4-pyridyl)-pyrrolo[1, 2-a]pyridine (I), 1,2-dicarboethoxy-3-(4-bromobenzoyl)-7-(4-pyridyl)-pyrrolo[1,2-a]pyridine (II) and its isomer 1,2-dicarboethoxy-3- (4-bromobenzoyl) -5- (2-pyridyl) -pyrrolo[1, 2-a]pyridine (III) have been investigated in different solutions by UV-VIS absorption, steady-state, and time-resolved fluorescence methods. The effects of the substituent and solvent on the spectroscopic properties have been demonstrated. The fluorescence decay data could be fitted to a single-exponential function. The lifetime values are higher in protic polar than in aprotic apolar solvents for compound I. In the case of compounds II and III the fluorescence intensities and lifetimes are very low, with the exception of III in aprotic solvents. The absorption and fluorescence properties of the compounds showed a solvent dependence.     

A Double Isotopic Labelling Study of the Infrared Spectra of the Linkage Isomers [Pd(bipy)(SCN)2], [Pd(bipy)(NCS)2] and Related Complexes

Abstract

The IR spectra of the linkage isomers [Pd(bipy)(SCN)₂] and [Pd(bipy)(NCS)₂] have been determined in the C≡N stretching region (2200–2000 cm^?1) and below 500 cm^?1. The band shifts resulting from deuteration of the 2,2′-bipyridine (bipy) ring and ¹⁵NCS-labelling are shown to provide a ready means for distinguishing between the internal ligand modes, the μPd-N(bipy) and μPd-SCN/μPd-NCS vibrations. The assignment technique has been further extended to the complexes [Pt(bipy)(SCN)₂] and [Pd(phen)(SCN)₂] (phen = 1,10-phenanthroline). Finally, a comparison between the IR spectra of [Pd(bipy)(NCO)₂], [Pd(bipy)(NCS)₂] and [Pd(bipy)(SCN)₂] reveals that the frequencies μM-NCO, μM-NCS and μM-SCN decrease in the sequence NCO > NCS > SCN.     

Vibrational Spectroscopic Investigation and Theoretical Calculations of (E)-3-Phenyl-N-[4-(Phenyl-Amino) Quinazoline-7-yl] Acrylamide

ABSTRACT

Optimized geometrical structure and harmonic vibration frequencies of prior synthesized (E)-3-phenyl-N-[4-(phenyl-amino) quinazoline-7-yl] acrylamide were computed by ab initio HF and DFT/B3LYP methods using both 6-31G* and 6-311G** basis sets and the Moller–Plesset second-order perturbation (MP2) method merely at the 6-31G* level. The infrared (IR) spectrum of the title compound has been measured in the range of 400–4000 cm^?1. Complete vibrational assignments of the IR spectra were proposed. Moreover, the calculated wavenumbers of the title compound were compared with the experimental data. The correlation analyses indicate that good linearity relationships exist between the scaled theoretical vibration frequencies and the experimental values. Additionally, the atoms in molecules (AIM) method was applied to explore the possible intramolecular interactions in the title compound.     

Infrared Spectra of Morfolonium (mpH)2Mo2Cl6(H20)2(I),(mpH)2Mo2ClxBr6-x(H2O)2(II)/ (mpH)2Mo2Br6(H2O)2(III) and the Pyridinium (PyH)2Mo2I6(H2O)2(IV)Hexahalo-di(aquo): dimolybdate(II) Complexes,Containing Quadruple Metal-Metal Bounds

Abstract

The electronic (800–400 nm), infrared (4000–200,400–20 cm^?1), ordinary Raman (400–200 cm^?1) spectra of morpholinium and the pyridium hexahalo-di(aquo) dimolybdate(II) complexes, containing quadruple metal-metal bonds were investigated. The electronic spectra of the solid compounds at various temperatures (25,100 and 300K) demonstrate intense and structured bands in the visible region (510–582 nm) attributed to the expected δ→δ? transitions.

From the infrared and Raman spectra, the skeletal stretching modes in these complexes have been localized, and the charectenstic bands of these ions were observed in the expected regions.

Finally, the ionic interections were relatively weak, but the existance of phenomena was perceptible and the result was obtained in agreement with X-ray data.     

1H NMR Spectral Simplification with Chiral Solvating Agents and with Achiral and Chiral Lanthanide Shift Reagents. Cis-4,5-Dihydro-4-Methyl-5-Phenyl-2-Oxazolamine, “Cis-4-Methylaminorex,” a Potent Stimulant and Anorectic

Abstract

The 60 MHz ¹H NMR spectra of racemic (+)-cis-4,5-dihydro-4-methyl-5-phenyl-2-oxazolamine, 1, have been studied at 28° in CDC1₃, solution with the achiral lanthanide shift reagent (LSR), tris(6,6,7,7,8,8,8-heptafluoro-2,2-dimethyl-3,5-octanedionato) europium(III), 2, and the chiral reagent tris[3?(heptafluoropropylhydroxymethy1ene)-d-camphor-ato]europium(III), 3. Additional NMR studies were performed at 400 MHz in CDC1, solution at 24° using the chiral solvating agents (CSA), (E)-(-)-2,2,2-trifluoro-1- (9-anthryl) ethanol, 4, and (R) - (+) -α-methoxy- α-(trifluoromethy1)phenylacetic acid, 5. Substantial enantiomeric shift differences, for the CH₃, signal of 1 using 3 or 5, and for the ortho aryl protons using4, which should make possible direct optical purity determinations of 1. Accurate 400 MHz data f o r chemical shifts and vicinal coupling constants of, of racemic cis-1 are presented, and compared with values for (optically active) (-)-trans-1; some dfferences are seen compared to previously reported data. solution. The LSR and CSA results are compared and Some additional data were obtained in C₆D₆ discussed.     

Proton Nuclear Magnetic Resonance Spectroscopy: Significant Barriers to Rotation About N-N Bonds in 3-Acylaminoquinazolin-4(3H)-One Derivatives

Abstract

The proton NMR spectra of several 3-acylaminoquinazolin-4(3H)-one derivatives have been studied as a function of temperature. The changes, which were found to occur in the spectra at high temperatures, are discussed in terms of hindered rotation about the nitrogen-nitrogen bond. The free energies of activation for the rate-determining stereochemical process were calculated to be as high as (14.7～20.6 Kcal mol^?1) for hydrazine derivatives.     

Reactions of Barbituric and 2-Thiobarbituric Acid Derivatives with Acetone

Barbituric and 2-thiobarbituric acid derivatives carrying a 1-N-aryl substituent were found to react with acetone at the 5-position of the heteroring. Acetone adducts were identified by their ¹³C NMR and mass spectra.     

Polarized Infrared and Raman Spectra and Ab-Initio Calculations of 2-(Methylthio)Benzothiazole

Abstract

The infrared spectra of 2-(methylthio)benzothiazole have been measured from 4000 to 180 cm^?1 for liquid and polycrystalline samples, polarized spectra of oriented films have also been obtained. the Raman spectra of polycrystalline and liquid samples have been investigated. the structural parameters, energies and vibrational frequencies have been calculated from ab-initio RHF calculations using the 6-31G?? basis set for various conformations. a detailed assignment of most of the observed bands has been proposed on the basis of the infrared dichroism, Raman polarization data and frequency calculations.     

Preconcentration and Separation of Gold(III) from Ore Samples by Solid-Phase Extraction Prior to Its Catalytic Fluorescent Determination

ABSTRACT

A new catalytic kinetic fluorescent quenching method for the determination of trace gold(III) was investigated. The method was based on the catalytic effect of gold on oxidation of 3-(3′-methylphenyl)-5- (2′-arsenoxylphenylazo) rhodanine by hydrogen peroxide in potassium hydrogen phthalate–hydrochloric acid (pH = 3.4). Under the optimum conditions, the great decrease of fluorescence intensity has a linear relationship against the concentration of gold in the range of 0 to 12.0 µg·L^?1 with a detection limit of 6.0 × 10^?10g·L^?1. The coexistent metal ions can be separated, and gold can be enriched by TBP resin of solid-phase extraction, which greatly improves the selectivity and sensitivity of the system. The method can be used to determine trace amounts of gold in ore samples successfully with satisfactory results.     

Interaction of a New Fluorescent Probe with DNA and its Use in Determination of DNA

In this paper we reported a metal complex 1-Zn (2,5-di-[2-(3,5-bis(2-pyridylmethyl)amine-4-hydroxy-phenyl)-ethylene]-pyrazine-Zn) as a fluorescent probe sensing DNA. The result of the competitive experiment of the probe with ethidium bromide (EB) to bind DNA, absorption spectral change and polarization change in the presence and absence of DNA revealed that interaction between the probe and DNA was via intercalation. Ionic strength experiment showed the existence of electrostatic interaction as well. Scatchard plots also confirmed the combined binding modes. The fluorescence enhancement of the probe was ascribed to highly hydrophobic environment when it bound the macromolecules such as DNA, RNA or denatured DNA. The binding constant between the probe and DNA was estimated as 3.13 × 10⁷ mol⁻¹ L. The emission intensity increase was proportional to the concentration of DNA. Based on this, the probe was used to determine the concentration of calf thymus DNA (ct-DNA). The corresponding linear response ranged from 2.50 × 10⁻⁷ to 4.75 × 10⁻⁶ mol L⁻¹, and detection limit was 1.93 × 10⁻⁸ mol L⁻¹ for ct-DNA.     

Spectroscopic Studies of Some Organic Compounds: Solvent Effects on 1H NMR Shift of Amine Proton of Morpholine

Abstract

The influence of the aprotic Solvents on the ¹H NMR spectra of the N-H proton has been studied. The chemical shift shows quite good correlation with the solvatochromic parameters, π?, β, and α, while a fair correlation with the Gutmann donor and acceptor numbers were obtained.     

Spectral properties of several fluorene derivatives with potential as two-photon fluorescent dyes

Investigations of the absorption, steady-state fluorescence, excitation and excitation anisotropy properties of several fluorene derivatives, (7-benzothiazol-2-yl-9,9-didecylfluoren-2-yl)-diphenylamine, 9,9-didecyl-2,7-bis-(N,N-diphenylamino)fluorene and {4-[2-(7-diphenylamino-9,9-diethylfluoren-2-yl)vinyl]phenyl}phosphoric acid diethyl ester, in liquid solutions have been conducted. Spectral characteristics of these compounds, including fluorescence quantum yields, were measured in acetonitrile, methylene chloride, tetrahydrofuran and hexane at room temperature. Excitation anisotropy spectra provided a means to determine the nature of the short wavelength absorption bands as an electronic transition into a higher excited singlet state. It was found that excitation spectra in the short wavelength region do not correspond to the absorption bands that are correlated with the wavelength dependence of the fluorescence quantum yields. Major reasons of such spectral behavior are discussed.     

Electronic Spectral Studies and Determination of the First Excited Singlet-State Dipole Moments of New Benzo[a]phenothiazine Derivatives

The room temperature (298 K) electronic absorption, and fluorescence excitation and emission spectra of seven new, pharmacologically-important benzo[a]phenothiazines (12H-benzo[a]phenothiazine ( 1 ), 9-methyl-12H-benzo[a] phenothiazine ( 2 ), 10-methyl-12H-benzo[a] phenothiazine ( 3 ), 11-methyl-12H-benzo[a]phenothiazine ( 4 ), 5-oxo-5H-benzo[a]phenothiazine ( 5 ), 6-hydroxy-5-oxo-5H-benzo[a]phenothiazine ( 6 ) and 6-methyl-5-oxo-5H-benzo[a] phenothiazine ( 7 ):) were measured in several solvents of different polarities and hydrogen bonding abilities. In combination with the ground state dipole moments of these benzo[a]phenothiazines, the spectral data were used to determine their first excited singlet-state dipole moments by means of the solvatochromic shift method. These excited singlet-state dipole moments were found to be significantly higher (1.9 to 2.5 Debye units) than their ground-state counterparts.     

Observation of Excited State Species Due to He2 + and HgBr2 Collisions

Abstract

Emission spectra of HgBr (B-X) band system and atomic mercury lines have been observed during collisions involving HgBr₂ and He₂ ⁺ ions at different laboratory kinetic energies. Emission cross sections of the most intense band of the HgBr (B, v′=O ? X, v″=22) transition have been measured at different energies of the projectile ions.     

Influence of N‐Substitution on Electron Spin Resonance (ESR) Behavior of 2‐(2‐Nitrophenyl)‐1H‐benzimidazole Derivatives

Abstract

The synthesis of 2‐(2‐nitrophenyl)‐1H‐benzimidazole (1), 1‐benzoyl‐2‐(2‐nitrophenyl)‐1H ‐benzimidazole (2), and 1‐acetyl‐2‐(2‐nitrophenyl)‐1H‐benzimidazole (3) is reported. Stable radical anions (1 ^·?, 2 ^·?, and 3 ^·?) were generated by chemical reduction in DMSO and studied by ESR spectroscopy. The interpretation of the ESR spectra was done by means of computational simulation process. Hyperfine coupling constants were assigned by comparison with related compounds, and on the basis of calculation based on SCF INDO MO method in the unrestricted Hartree–Fock scheme.     

Enhanced molecular dynamics simulation of the transformation between α-helix and β-hairpin structures for peptide

ABSTRACT

Here, we investigated the secondary structure transformation for a design peptide, which has both the α-helix (PDB ID code 2DX3) and β-hairpin (PDB ID code 2DX4) structures in aqueous solution. We show that the transformation between α-helix and β-hairpin structures can be sampled efficiently using the enhanced sampling method based on integrated tempering without the definition of reaction coordinates. The reliable and smooth two-dimensional potential of mean force surfaces of the conformation space can be obtained efficiently, which has been used to propose the probable pathways for the transformation of the α-helix and β-hairpin structures. Our simulation results revealed the efficiency, and further suggested the general applicability of integrated tempering sampling method into complex biomolecule processes without prior structure knowledge.