On the mechanism of action of thiamin enzymes, Crystal structure of 2-(α-hydroxyethyl)thiamin pyrophosphate (HETPP). Complexes of HETPP with zinc(II) and cadmium(II)

The crystal structure of the 2-(α-hydroxethyl) thiamin pyrophosphate (LH₂) was solved by X-ray diffraction. Crystallographic data: space group F2dd, a=7.922(4) Å, b=33.11(2) Å, c=36.232(10) Å, V=9503(9) ų, z=16. Metal complexes of the general formula K₂{[M(LH)Cl₂]₂} (M=Zn²⁺, Cd²⁺) were isolated from methanolic solutions and characterized by elemental analysis, IR, Raman, and ¹³C CP MAS NMR spectra. They were also characterized by ¹³C NMR, ³¹P NMR, ¹¹³Cd NMR, ES-MS, and ¹H NMR ROESY spectra in D₂O solutions. The data provide evidence for the bonding of the metals to the N(1′) atom of the pyrimidine ring and to the pyrophosphate group. The free ligand and the metal-coordinated ligand adopt the S conformation. Since thiamin cofactor, substrate, and metal ions are present in our system, the extracted results directly refer to thiamin catalysis and possible functional implications are correlated and discussed.     

Synthesis and conformational analysis of carbasugar bioisosteres of α-l-iduronic acid and its methyl glycoside

The synthesis of two novel carbasugar analogues of α-l-iduronic acid is described in which the ring-oxygen is replaced by a methylene group. In analogy with the conformational equilibrium described for α-l-IdopA, the conformation of the carbasugars was investigated by ¹H and ¹³C NMR spectroscopy. Hadamard transform NMR experiments were utilised for rapid acquisition of ¹H,¹³C-HSQC spectra and efficient measurements of heteronuclear long-range coupling constants. Analysis of ¹H NMR chemical shifts and J_H,H coupling constants extracted by a total-lineshape fitting procedure in conjunction with J_H,C coupling constants obtained by three different 2D NMR experiments, viz., ¹H,¹³C-HSQC-HECADE, J-HMBC and IPAP-HSQC-TOCSY-HT, as well as effective proton-proton distances from 1D ¹H,¹H T-ROE and NOE experiments showed that the conformational equilibrium ⁴C₁?²S_5a?¹C₄ is shifted towards ⁴C₁ as the predominant or exclusive conformation. These carbasugar bioisosteres of α-l-iduronic acid do not as monomers show the inherent flexibility that is anticipated to be necessary for biological activity.     

The naphthylamine palladium(II) template induced E-Z isomerism of exocyclic vinyl group in five-membered P-N chelates: detailed spectroscopic studies

The exocyclic CC bond E-Z isomerism of chelating Ph₂PC(CHPh)-CHNAr in organopalladium complexes containing orthometallated [(S)-1-(dimethylamino)ethyl]naphthalene is reported. In dilute solutions of non-coordinating CH₂Cl₂ or CHCl₃, all the original E-isomers, in which the CHPh phenyl rings are located trans to PPh₂ moieties were partly converted to their Z-isomers. The isomerism was found to be dependent on temperature, concentration and solvent. At higher temperature, the Z-isomers were transformed completely back to their original E-isomers. Removal of the chiral auxiliaries of the E-Z mixtures by concentrated HCl, gave only the dichloro complexes of the E-isomers. The E-Z isomerization processes were well established by detailed spectroscopic studies, including ³¹P NMR, ¹H NMR and 2D ¹H-¹H ROESY NMR studies. It is noteworthy that the dichloro complexes and free P-N ligands did not show such isomerization processes, indicating that the isomerization processes were triggered by the orthopalladated naphthylamine moiety.     

On the interaction of caffeine with nucleic acids: III. 1NMR studies of caffeine-5'-adenosine monophosphate and caffeine-poly(riboadenylate) interactions

1) The self-association of both caffeine (Cf) and 5'-adenosine monophosphate (AMP) in aqueous solution has been reinvestigated by ¹H NMR. The self-association process is characterized by an isodesmic model. The apparent self-association constants of the vertical stacking process are K_Cf= (10.6 ± 1.0) M^?1 and k_amp = (1.67 ± 0.17) M^?1. The arrangement of the monomeric units in the stacked aggregates is discussed in terms of isoshielding curves theoretically calculated by Giessner-Prettre and Pullman. Models are proposed which are consistent with these and further previous NMR data. 2) The interaction of Cf and AMP has been studied by ^?1 H NMR. The apparent association constant of the complex Cf-AMP is K_C-A = (7.3 ± 1.2) M^?1.Two models of the mutual arrangement of AMP and Cf in the complex are proposed on the basis of the calculated isoshielding curves considering both ring current and local atomic diamagnetic anisotropy effects. 3) The interaction of Cf and poly(riboadenylate), (rA)_n is indicated by a downfield shift of the H-8 line but an upfield shift of the H-2 line in the ¹H NMR spectra of (rA)_n. The concentration dependence of the ¹H NMR shifts of both Cf and (rA)_n can be explained by the existence of two binding mechanisms. We suggest (i) partial insertion of Cf between adjacent base residues of ordered single-stranded regions of (rA)_n and (ii) outside binding of Cf in form of monomeric Cf as well as of self-associated aggregates. The complex geometry of insertion proposed on the basis of the calculated isoshielding curves is characterized by a stronger overlapping of the Cf ring and the H-2 proton of (rA)_n as compared to the H-8 proton.     

Multinuclear NMR of cis-dicarbonylbis(dithiocarbamato)iron(II) complexes in chloroform solution

The ¹³C and ¹⁵SN NMR spectra of eleven cis-Fe(S₂CNRR′)₂(CO)₂ complexes, where R and R′ are organic substituents, have been measured at ambient temperature in CDCl₃ (0.08–0.16 M). The ¹³C absorptions for the carbonyl ligands correlate well with the force constants for the CO stretching vibrations in CHCl₃ solution. Each of the parameters (¹³CO absorption and k_cis for CO) correlate well with the aqueous solution pK_a for⁺H₂NRR′, corrected for the phenyl-containing substituents, high pK_a values corresponding to high ¹³CO absorptions and low k_cis CO force constants. [p ]Evidence was found in the ¹³C NMR spectra for hindered rotation about the CN bond in S₂CNC₂ in complexes with higher pK_a(corr) values and in the ¹³C spectra of the corresponding thiuram disulfides. [p ]The ¹⁵N (natural abundance) NMR spectra for each of the complexes was determined. Each revealed a single sharp absorption in a region of the ¹⁵N NMR spectrum which indicates substantial CN double bond character, as one would expect for coordinated dithiocarbamate ligands.     

Gibberellin A58 and ent-6α,7α,12α-trihydroxykaur-16-en-19-oic acid from seeds of cucurbita maxima

The isolation of gibberellin A₅₈ and ent-6α,7α,12α-trihydroxykaurenoic acid from a cellulase-hydrolysed extract of endosperm ofCucurbita maxima is described. The two compounds are characterized by their MS,¹H NMR and ¹³C NMR.     

Protein Rotational Dynamics in Aligned Lipid Membranes Probed by Anisotropic T1ρ NMR Relaxation

A membrane-bound form of Pf1 coat protein reconstituted in magnetically aligned DMPC/DHPC bicelles was used as a molecular probe to quantify for the viscosity of the lipid membrane interior by measuring the uniaxial rotational diffusion coefficient of the protein. Orientationally dependent ¹⁵N NMR relaxation times in the rotating frame, or T_1ρ, were determined by fitting individually the decay of the resolved NMR peaks corresponding to the transmembrane helix of Pf1 coat protein as a function of the spin-lock time incorporated into the 2D SAMPI4 pulse sequence. The T_1ρ relaxation mechanism was modeled by uniaxial rotational diffusion on a cone, which yields a linear correlation with respect to the bond factor sin⁴θ_B, where θ_B is the angle that the NH bond forms with respect to the axis of rotation. Importantly, the bond factors can be independently measured from the dipolar couplings in the separated local-field SAMPI4 spectra. From this dependence, the value of the diffusion coefficient D_|| = 8.0 × 10⁵ s^?1 was inferred from linear regression of the experimental T_1ρ data even without any spectroscopic assignment. Alternatively, a close value of D_|| = 7.7 × 10⁵ s^?1 was obtained by fitting the T_1ρ relaxation data for the assigned NMR peaks of the transmembrane domain of Pf1 to a wavelike pattern as a function of residue number. The method illustrates the use of single-helix transmembrane peptides as molecular probes to assess the dynamic parameters of biological membranes by NMR relaxation in oriented lipid bilayers.     

Reactions of dichloroaluminium acetylacetonate with lewis bases. 1. Ionic complex of Cl2alacac with tetrahydrofurane

The reaction of dichloroaluminium acetylacetonate with THF has been studied. The ionic complex [(acac)₂Al·2THF]⁺[AlCl₄]⁻ was found to result from the reaction. The structure of the complex has been investigated by the variable temperature ¹H NMR technique, as well as by ¹³C and ²⁷Al NMR spectroscopy. The cation complex [(acac)₂Al·2THF]⁺ is predominantly trans in dichloromethane solution (75% trans and 25% cis). In the presence of an excess of THF a fast exchange proceeds at room temperature in the cation complex between the free THF molecules and those present in the complex, which is accompanied by a stereo-chemical rearrangement of the cation complex.     

Metal complexes with 2-(α-hydroxy-benzyl) thiamin pyrophosphate (HBTPP). Models for metal binding of thiamin enzymes

The reactions of MCl₂ (M = Zn²⁺, Cd²⁺, Hg²⁺) with 2-(α-hydroxy-benzyl)thiamin pyrophosphate (HBTPP) at various pH values (different protonation states) were studied in methanolic solutions. Solid complexes of formulae K[Zn(HBTPP) ⁻Cl₂ · H₂O_n, K₂[Cd(HBTPP)²⁻Cl₂ · 3H₂O_n, K₂[Hg(HBTPP)₂⁻Cl₂ · 3H₂O and Zn(HBTPP)₂⁰Cl₂ were isolated and characterized by elemental analysis and various NMR techniques, namely ¹³C NMR, ³¹P NMR, ¹¹³Cd NMR, ¹⁹⁹Hg NMR and ¹H NMR ROESY spectra in D₂O. The data provide evidence that Zn(II) in K[Zn(HBTPP) ⁻Cl2 · H₂O_n, and Cd(II) in K₂[Cd(HBTPP)²⁻Cl₂ · 3H₂O_n, are coordinated both to the pyrimidine N(1′) and to the pyrophosphate group. In contrast, Hg(II) in K₂[Hg(HBTPP)₂⁻Cl₂ · 3H₂O and Zn(II) in Zn(HBTPP)₂⁰Cl₂ are bound only to the N(1′) atom or to the pyrophosphate group, respectively.     

Two new 11-noriridoids from the aerial parts of Morinda umbellata

This work was done as a part of our ongoing projects to catalog the chemical constituents and biological activities of the Morinda species growing in Vietnam. Phytochemical investigations of the methanol extract of Morinda umbellata aerial parts resulted in the isolation of two new 11-noriridoids, umbellatolides A (1) and B (2). Their structures were elucidated by NMR (¹H NMR, ¹³C NMR, HSQC, HMBC, ¹H–¹H COSY, and NOESY) and FTICRMS data. This is the first report of 11-noriridoids from M. umbellata. The cytotoxic activity and protective effect on oxidative stress injury stimulated by H₂O₂ in murine hepatocyte of 1 and 2 were also evaluated.     

Synthesis, characterization, spectroscopic and electrochemical properties of trans,trans,trans-bis(triphenyl phosphine) bis(aroyl hydrazonato)ruthenium(II) complexes

Four ruthenium (II) complexes of general formula Ru(PPh₃)₂(L)₂ have been synthesized and characterized. The spectroscopic and cyclic voltammetric studies of these complexes are also reported. X-ray crystal structure determination of two of the complexes reveal that Ru(II) occupies trans,trans,trans-(t,t,t) N₂O₂P₂ centrosymmetric octahedral environments, with the ligand pair occupying the equatorial plane. ³¹P NMR confirms the presence of two trans-PPh₃ groups in all the complexes. The transformation of the complexes in dichloromethane solution is studied by spectrophotometry and ³¹P NMR spectroscopy.     

NMR methods for characterizing the state of the surfaces of complex mammalian cells

It is shown that narrow ¹H NMR resonances may be observed in cancer cells, and that these belong to fatty acyl chains of membrane lipids. A variety of NMR techniques such as Gaussian-Lorentzian deconvolution, and T₁ and T₂ measurements, may be used to subdivide these resonances further. The results of these various methods require that in the membrane structures the observed lipids tumble isotropically and sufficiently rapidly to give motionally narrowed ¹H NMR lines.     

Multinuclear NMR study and crystal structures of complexes of the types cis- and trans-Pt(amine)2I2

Complexes of the types cis- and trans-Pt(amine)₂I₂ were studied by spectroscopic methods, especially by multinuclear NMR spectroscopy. In ¹⁹⁵Pt NMR, the cis diiodo compounds with primary amines were observed between −3342 and −3357 ppm in acetone, while the trans compounds were found between −3336 and −3372 ppm. For the secondary amines, the chemical shifts were observed at lower fields. In ¹H NMR, the trans complexes were observed at higher fields than the cis compounds, while in ¹³C NMR, the reverse was observed. The ²J(¹⁹⁵Pt-¹H) and ³J(¹⁹⁵Pt-¹H) coupling constants are larger for the cis compounds (ave. 67 and 45 Hz, respectively) than for the trans isomers (ave. 59 and 38 Hz). In ¹³C NMR, the values of ²J(¹⁹⁵Pt-¹³C) and ³J(¹⁹⁵Pt-¹³C) were also found to be larger for the cis complexes (ave. 17 and 39 Hz versus 11 and 28 Hz). There seems to be a slight dependence of the pK_a values of the protonated amines or the proton affinity in the gas phase with the δ(Pt) chemical shifts. The crystal structures of eight diiodo complexes were determined. These compounds are cis-Pt(CH₃NH₂)₂I₂, cis-Pt(n-C₄H₉NH₂)₂I₂, cis-Pt(Et₂NH)₂I₂, trans-Pt(n-C₃H₇NH₂)₂I₂, trans-Pt(iso-C₃H₇NH₂)₂I₂, trans-Pt(n-C₄H₉NH₂)₂I₂, trans-Pt(t-C₄H₉NH₂)₂I₂ and trans-Pt(Me₂NH)₂I₂. The Pt-N bond distances located in trans position to the iodo ligands were compared to those located in trans position to the amines. The Pt-N bond in cis-Pt(Et₂NH)₂I₂ are much longer than the others, probably caused by the steric hindrance of the two very bulky ligands located in cis positions.     

Study of Pt(II)-aromatic amines complexes of the types cis- and trans-Pt(amine)2I2, [Pt(amine)4]I2 and I(amine)Pt(μ-I)2Pt(amine)I

Pt(II) complexes of the types cis- and trans-Pt(amine)₂I₂ with amines containing a phenyl group were synthesized and studied mainly by IR and multinuclear (¹⁹⁵Pt, ¹H and ¹³C) magnetic resonance spectroscopies. The compounds are not very soluble. In ¹⁹⁵Pt NMR spectroscopy, the cis isomers were observed at slightly lower fields than the trans analogues (average Δδ = 11 ppm) in acetone. In ¹H NMR, the NH groups were also found at slightly lower fields in the cis isomers. The coupling constants ²J(¹⁹⁵Pt-¹HN) varied from 53 to 85 Hz and seem slightly smaller in the trans configuration. The ¹³C NMR spectra of most of the complexes were measured. No coupling constants J(¹⁹⁵Pt-¹³C) were detected due to the low solubility of the compounds. The cis isomers containing a phenyl group on the N atom could not be isolated except for Ph-NH₂ which was shown to be a mixture of isomers in acetone. The tetrasubstituted ionic compounds [Pt(amine)₄]I₂ for the less crowded ligands were also studied mainly by NMR spectroscopy in aqueous solution. The ¹⁹⁵Pt chemical shifts vary between −2855 and −2909 ppm. The coupling constants ³J(¹⁹⁵Pt-¹H) are about 40 Hz. The iodo-bridged dinuclear species I(amine)Pt(μ-I)₂Pt(amine)I were also synthesized and characterized. Two isomers are present in acetone solution for most of the compounds. Their δ(Pt) signals were observed at about −4000 ppm and their coupling constants ²J(¹⁹⁵Pt-¹HN) are around 69 Hz.     

[Benzilato(2−)-O,O]bis[1,3-diphenylpropane-1,3-dionato(1−)-O,O]silicon(IV): a neutral heteroleptic hexacoordinate silicon(IV) complex with an SiO6 skeleton

Reaction of tetramethoxysilane with 1,3-diphenylpropane-1,3-dione and benzilic acid (molar ratio 1:2:1) in tetrahydrofuran/n-pentane yielded the neutral heteroleptic hexacoordinate silicon(IV) complex [benzilato(2−)-O¹,O²]bis[1,3-diphenylpropane-1,3-dionato(1−)-O,O]silicon(IV) (5). Compound 5 was structurally characterized by single-crystal X-ray diffraction, solid-state VACP/MAS NMR spectroscopy (²⁹Si), and solution NMR spectroscopy (¹H, ¹³C, ²⁹Si). The chiral silicon(IV) complex, with its octahedral SiO₆ coordination polyhedron, is configurationally stable in solution on the NMR time scale (solvent: CDCl₃; maximum temperature studied: 58 °C).     

Synthesis and multinuclear magnetic resonance spectroscopy of the novel ionic Pt(II) mixed-ligands complexes cis- and trans-[Pt(pyrazine)2(Ypy)2](NO3)2 where Ypy = pyridine derivative

Novel ionic mixed-ligands complexes of the types cis- and trans-[Pt(pz)₂(Ypy)₂](NO₃)₂ (where Ypy is a pyridine derivative and pz = pyrazine) were synthesized and studied mainly in the solid state by IR spectroscopy and in aqueous solution by multinuclear (¹⁹⁵Pt, ¹H and ¹³C) magnetic resonance spectroscopy. The trans isomers with ligands containing a methyl group in ortho position on the pyridine ring could not be synthesized. The results of the solution NMR characterization have shown that the isolated compounds are pure. In ¹⁹⁵Pt NMR, the cis complexes containing a methyl group in ortho positions were observed at lower field (average −2337 ppm) than the other cis compounds (average −2427 ppm), which is explained by the solvent effect. The trans isomers were observed at very slightly lower fields (average −2422 ppm) than the equivalent cis complexes (average −2427 ppm). In ¹H NMR, the coupling constants ³J(¹⁹⁵Pt-¹H_Ypy) and ³J(¹⁹⁵Pt-¹H_pz) are larger in the cis compounds (∼40 Hz) than in the trans complexes (∼31 Hz). A few ⁴J(¹⁹⁵Pt-¹H_pz) were observed (∼16 Hz). In ¹³C NMR spectroscopy, the coupling constants ³J(¹⁹⁵Pt-¹³C_pz) and ³J(¹⁹⁵Pt-¹³C_Ypy) are also larger in the cis configuration (∼30 and ∼38 Hz, respectively) than in the trans isomers (∼20 Hz). One ⁴J(¹⁹⁵Pt-¹³C_pz) could be calculated (17 Hz). The presence of the syn and anti rotamers were observed in all the cis complexes containing a pyridine derivative with a -CH₃ group in ortho position. They were observed in ¹⁹⁵Pt, ¹H and ¹³C NMR spectroscopy. The proportion of the two rotamers is about 55% and 45%.     

Transformations of the Vaska-type complex trans-[RhCl(CO)(PTA)2] (PTA = 1,3,5-triaza-7-phosphaadamantane) during stepwise addition of HCl: Synthesis, characterization and crystal structure of trans-[RhCl2(PTA)(PTAH)]

The new aqua-soluble rhodium(I) complex trans-[RhCl₂(PTA)(PTAH)] (1) {PTAH = N-protonated form of 1,3,5-triaza-7-phosphaadamantane (PTA)} has been synthesized via the reaction of trans-[RhCl(CO)(PTA)₂] with aqueous HCl or N-chlorosuccinimide, or by the treatment of RhCl₃ with PTA. Compound 1 has been characterized by IR, ¹H and ³¹P{H} NMR spectroscopies, ESI-MS(+), elemental and single crystal X-ray diffraction analyses, the latter showing a square planar {RhCl₂P₂} geometry. Besides, the stepwise addition of diluted HCl to an aqueous solution of trans-[RhCl(CO)(PTA)₂] has been monitored by ³¹P{¹H} NMR and ESI-MS(+) techniques, allowing to detect a number of intermediate Rh(I) species.     

Novel bis(diethylenetriamine)thallium(III) complex. Synthesis and characterization in pyridine solution and in solid

A new complex of thallium(III) with the nitrogen donor ligand diethylenetriamine (dien) has been prepared and characterized by multinuclear NMR (¹H, ¹³C, ²⁰⁵Tl), infrared and Raman spectroscopy, and X-ray diffraction. In solution, the symmetric s-facial isomer of [Tl(dien)₂]³⁺ is formed. This is a fluxional molecule even at low temperature (235 K); therefore, the different rotamers cannot be observed separately. A complete characterization of the complex is given from its non-trivial NMR spectra. The crystal structure of [Tl(dien)₂](ClO₄)₃·H₂O shows u-facial geometry, where the coordination environment around thallium can be described as a distorted trigonal prism.     

Accuracy and precision of protein–ligand interaction kinetics determined from chemical shift titrations

NMR-monitored chemical shift titrations for the study of weak protein?Cligand interactions represent a rich source of information regarding thermodynamic parameters such as dissociation constants (K _D ) in the micro- to millimolar range, populations for the free and ligand-bound states, and the kinetics of interconversion between states, which are typically within the fast exchange regime on the NMR timescale. We recently developed two chemical shift titration methods wherein co-variation of the total protein and ligand concentrations gives increased precision for the K _D value of a 1:1 protein?Cligand interaction (Markin and Spyracopoulos in J Biomol NMR 53: 125?C138, 2012). In this study, we demonstrate that classical line shape analysis applied to a single set of ¹H?C¹⁵N 2D HSQC NMR spectra acquired using precise protein?Cligand chemical shift titration methods we developed, produces accurate and precise kinetic parameters such as the off-rate (k _off ). For experimentally determined kinetics in the fast exchange regime on the NMR timescale, k _off ?~?3,000?s^?1 in this work, the accuracy of classical line shape analysis was determined to be better than 5?% by conducting quantum mechanical NMR simulations of the chemical shift titration methods with the magnetic resonance toolkit GAMMA. Using Monte Carlo simulations, the experimental precision for k _off from line shape analysis of NMR spectra was determined to be 13?%, in agreement with the theoretical precision of 12?% from line shape analysis of the GAMMA simulations in the presence of noise and protein concentration errors. In addition, GAMMA simulations were employed to demonstrate that line shape analysis has the potential to provide reasonably accurate and precise k _off values over a wide range, from 100 to 15,000?s^?1. The validity of line shape analysis for k _off values approaching intermediate exchange (~100?s^?1), may be facilitated by more accurate K _D measurements from NMR-monitored chemical shift titrations, for which the dependence of K _D on the chemical shift difference (????) between free and bound states is extrapolated to ?????=?0. The demonstrated accuracy and precision for k _off will be valuable for the interpretation of biological kinetics in weakly interacting protein?Cprotein networks, where a small change in the magnitude of the underlying kinetics of a given pathway may lead to large changes in the associated downstream signaling cascade.     

Tin-119 NMR Studies on adduct formation and stereochemistry of organoyltin(IV)trihalides

qazTin-119 and phosphorus-31 NMR spectra have been recorded for a series of adducts of RSnX₃ (R  Me, Ph; X  Cl, Br) with halide, tributylphosphine (P) and tributylphosphine oxide (L). The adducts were either 1:1 five coordinate or 1:2 six coordinate complexes. The tin-ll9 NMR spectra of mixtures of corresponding chloro and bromo complexes reveal, in most cases, all possible mixed halide species but much additional structural information is obtained from these spectra which could not be extracted from the spectra of individual compounds themselves. Thus in some cases, in the five coordinate species the Berry pseudorotation between isomers within a particular stoichiometry could be slowed on the NMR timescale which allowed a determination of the molecular structure. An equimolar mixture of [PhSnCl₅]²⁻ and [PhSnBr₅]²⁻ shows eleven of the twelve geometries possible for [PhSnCl_xBr_5−x]²⁻. In the six coordinate series [RSnX₄P]⁻ the tin-119 NMR spectra of the mixtures of [RSnCl₄P]⁻ and [RSnBr₄P]⁻ allow the geometry to be determined as trans. Application of the pairwise additivity model for calculation of the tin-119 chemical shift positions for the mixed halide systems are discussed.