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At least 415 records · Page 23Linked to original sources
PubMed2003

Molecular structures of fructans from Agave tequilana Weber var. azul.

Agave plants utilize crassulacean acid metabolism (CAM) for CO(2) fixation. Fructans are the principal photosynthetic products generated by agave plants. These carbohydrates are fructose-bound polymers frequently with a single glucose moiety. Agave tequilana Weber var. azul is an economically important CAM species not only because it is the sole plant allowed for tequila production but because it is a potential source of prebiotics. Because of the large amounts of carbohydrates in A. tequilana, in this study the molecular structures of its fructans were determined by fructan derivatization for linkage analysis coupled with gas chromatography-mass spectrometry (GC-MS), nuclear magnetic resonance (NMR), and matrix-assisted laser desorption time-of-flight mass spectrometry (MALDI-TOF-MS). Fructans were extracted from 8-year-old A. tequilana plants. The linkage types present in fructans from A. tequilana were determined by permethylation followed by reductive cleavage, acetylation, and finally GC-MS analysis. Analysis of the degree of polymerization (DP) estimated by (1)H NMR integration and (13)C NMR and confirmed by MALDI-TOF-MS showed a wide DP ranging from 3 to 29 units. All of the analyses performed demonstrated that fructans from A. tequilana consist of a complex mixture of fructooligosaccharides containing principally beta(2 --> 1) linkages, but also beta(2 --> 6) and branch moieties were observed. Finally, it can be stated that fructans from A. tequilana Weber var. azul are not an inulin type as previously thought.

Agave↗
PubMed2003

Molecular structural and functional characterization of tumor suppressive anti-ErbB-2 monoclonal antibody by phage display system.

To investigate the molecular structural and functional characteristics of tumor-suppressive anti-ErbB-2 monoclonal antibody (mAb) SER4, we performed mAb-gene cloning and epitope mapping by a phage display system. Structural analysis demonstrated that both the heavy chain (HC) and light chain variable regions are highly homologous with the derived germline sequences, while the HC complementarity determining region (HCDR) 3 has a relatively short length and biased amino acid usage. A cloned gene-derived recombinant Fab (rFab) fragment showed antigen binding activity and specificity comparable to the parent mAb. Cross-linking of the rFab fragment with the anti-Fab antibody elicited cell growth inhibition in vitro. These results imply that the cloned genes actually encode the Fab part of SER4. The epitope mimetic peptide (mimotope) isolated by panning a phage-displayed random peptide library against SER4 showed no cross-reactivity with mAbs other than SER4. The mimotope was found to be homologous with (87)AHNQVRQVPLQR(98) in the extracellular domain of ErbB-2 by means of a clustalw search. Since SER4 causes the growth inhibition of ErbB-2 positive cells, the predicted epitope sequence may constitute the putative functional domain of ErbB-2.

Amino Acid Sequence↗
PubMed2003

Synthesis and molecular structure of new acyclic analogues of nucleotides with a 1,2-alkadienic skeleton.

Reaction of 1-chloro-4-(diethoxyphosphonyl)alka-2,3-dienes 14,15 with purine and pyrimidine heterocyclic bases in the presence of cesium carbonate afforded new acyclic analogues of nucleotides containing a 1,2-alkadienic skeleton 18-23. Dealkylation of 18-23 furnished phosphonic acids 2a-f. In contrast, alkylation reaction with 1-chloro-4-(diethoxyphosphonyl)octa-2,3-diene 16 led to Z- and E-1,3-alkadienic phosphonates 25a,b and 26a,b. A similar reaction with 1-chloro-4-(diethoxyphosphonyl)-2-methylbuta-2,3-diene 17 led to the elimination of hydrochloride and formation of 4-(diethylphosphonyl)-2-methylbut-1-en-3-yne 24. Molecular structures of new acyclic nucleotides 18 and 2f are determined by X-ray crystallographic analysis.

Alkadienes↗
PubMedDate not supplied

Dependence of hydrogen peroxide formation in rat liver microsomes on the molecular structure of cytochrome P-450 substrates: a study with barbiturates and beta-adrenoceptor antagonists.

In the present study, the molecular structure of xenobiotics has been successfully linked to their effect on the oxidase activity of cytochrome P-450, determined as microsomal hydrogen peroxide formation. A homologous series of 5-alkyl-5-ethyl barbiturates and a heterologous series of beta-adrenoceptor antagonists was used. The logarithm of the rate of microsomal hydrogen peroxide formation could be correlated with the logarithm of the apparent partition (n-octanol/buffer) coefficient for the barbiturate derivatives according to a parabolic function. The statistics of the correlation improved considerably by applying a bilinear model in order to fit the data. This probably indicates that both transport of the substrate to cytochrome P-450 and interaction with hydrophobic substrate binding sites of cytochrome P-450 are involved in the modulating effect of substrates on the oxidase function of cytochrome P-450. With the series of beta-adrenoceptor antagonists no clear-cut structure activity relationship with regard to the oxidase activity was apparent at first sight. However, when the inhibitory effect of the beta-antagonists on the 'cytochrome P-450 metabolic intermediate (MI) complex' formation that occurs during the microsomal biotransformation of 33 microM tofenacine was studied a relationship with the lipophilicity could be demonstrated. It is known that MI complex formation occurs with specific subforms of cytochrome P-450. By using this inhibitory activity of the beta-adrenoceptor antagonists, the interaction of the compounds becomes restricted to these specific subforms of cytochrome P-450. In both the oxidase activity as well as the MI complex formation phenobarbital induced cytochrome P-450 is involved.(ABSTRACT TRUNCATED AT 250 WORDS)

Adrenergic beta-Antagonists↗
PubMed2004

The molecular structures of pentaborane(9) with halogen substituents in apical and basal positions, determined by electron diffraction and theoretical calculations.

The molecular structures of 1-bromo-pentaborane(9) and 2-bromo-pentaborane(9) in the gas phase have been determined by electron diffraction and ab initio and DFT computational methods. Computational methods have also been applied to the fluoro and chloro analogues, to 1,2-dibromo-pentaborane(9), and to the parent unsubstituted borane. The electronic effects of halogen substitution on the borane cage are remarkably small, particularly for chlorine and bromine substituents, and steric effects are also minimal, even in the compound with two bromine atoms. The largest effects are (a) lengthening of B((base))-B((apex)) bonds adjacent to the halogen in the 2-isomers, with an associated shortening of the opposite base-apex bond, (b) shortening of the B((base))-B((apex)) bond in the 1-fluoro compound, and (c) increase of the B((base))-B((apex))-F angle in 1-F-B(5)H(8), but a decrease in this angle in the 2-bromo compounds.

Journal Article↗
PubMed1980

Microwave spectrum and molecular structure of the carbon monoxide-hydrogen bromide molecular complex.

Rotational spectra have been assigned for five isotopic species of the OC...HBr hydrogen-bonded molecular complex by using pulsed microwave Fourier transform spectroscopy in a Fabry-Perot cavity and a pulsed supersonic nozzle as the molecular source. The rotational constants, centrifugal distortion constants, Br nuclear-quadrupole-coupling constants, and Br spin-rotation constants were determined and from them, the vibrationally averaged structure of OCHBr was derived. This structure is consistent with a linear geometry at equilibrium and an atomic arrangement as written above. The intermolecular potential binding CO to HBr is discussed.

Journal Article↗
PubMed2006

Molecular structures of tris(dipivaloylmethanato) complexes of the lanthanide metals, Ln(dpm)3, studied by gas electron diffraction and density functional theory calculations: a comparison of the Ln-O Bond distances and enthalpies in Ln(dpm)3 complexes and the cubic sesquioxides, Ln2O3.

The molecular structures of tris(dipivaloylmethanato)neodymium(III), Nd(dpm)3, and tris(dipivaloylmethanato)ytterbium(III), Yb(dpm)3, have been determined by gas electron diffraction (GED) and structure optimizations through density functional theory (DFT) calculations. Both molecules were found to have D3 molecular symmetry. The most important structure parameters (r(a) structure) are as follows (GED/DFT): Nd-O = 2.322(5)/2.383 A, Yb-O = 2.208(5)/2.243 A, O-Nb-O = 72.1(3)/71.3 degrees , and O-Yb-O = 75.3(2)/75.8 degrees . The twist angles of the LnO6 coordination polyhedron, defined as zero for prismatic and 30 degrees for antiprismatic coordination, were theta = 19.1(3)/14.2 degrees for Nd and 20.4(2)/19.2 degrees for Yb. Structure optimizations of La(dpm)3, Gd(dpm)3 Er(dpm)3, and Lu(dpm)3 by DFT also yielded equilibrium structures of D3 symmetry with bond distances of La-O = 2.438 A, Gd-O = 2.322 A, Er-O = 2.267 A, and Lu-O = 2.232 A. The Ln-O bond distances in 12 Ln(dpm)3 complexes studied by GED decrease in a nearly linear manner with the increasing atomic number (Z) of the metal atom, as do the Ln-O bond distances in the cubic modifications of 14 sesquioxides, Ln2O3. The bond distances in the dpm complexes are, however, about 2% shorter. The mean Ln-O bond rupture enthalpies of the cubic sesquioxides calculated from thermodynamic data in the literature vary in an irregular manner with the atomic number; the La-O, Gd-O, Tb-O, and Lu-O bonds are nearly equally strong, and the remaining bonds are significantly weaker. The Ln-O bond rupture enthalpies previously reported for 11 Ln(dpm)3 complexes are on the average 13 kJ mol(-1) or about 5% smaller than in the sesquioxides, but they vary in a similar manner along the series: it is suggested that the pattern reflects variations in the absolute enthalpies of the gaseous Ln atoms.

Journal Article↗
PubMed1987

Crystal and molecular structures of the isomeric dipeptides alpha-L-aspartyl-L-alanine and beta-L-aspartyl-L-alanine.

The crystal and molecular structures of the alpha- and beta-L-Asp isomers of L-aspartyl-L-alanine have been determined at 120 K using 1226 and 1609 reflections (I greater than 2.5 sigma I), respectively. The space group for the alpha-isomer is P2(1), with cell parameters a = 4.788(1), b = 16.943(4), c = 5.807(1) A and beta = 107.55(2) degrees; final R factor 0.042. The space group for the beta-isomer is P2(1)2(1)2(1) with a = 4.845(1), b = 9.409(2) and c = 19.170(3) A; final R-factor 0.047. The two peptides crystallize as zwitterions with the side-chain acidic groups ionized. Each molecule adopts a trans configuration at the peptide bond with both carboxyl groups situated on the same side of the peptide plane. The geometries of the aspartyl moieties do, however, differ in the two structures. The peptide bond is significantly longer in the beta-isomer than in the alpha-isomer, with C-N 1.344(3) and 1.328(4) A, respectively. A very short intermolecular carboxyl...carboxyl hydrogen bond (O...O = 2.502(4) A) is observed in the crystals of the alpha-isomer.

Crystallization↗
PubMed2004

Synthesis and solid-state molecular structures of nitrosoalkane complexes of iron porphyrins containing methanol, pyridine, and 1-methylimidazole ligands.

Nitrosoalkanes belong to the family of C-nitroso compounds and are known to bind to the iron center in heme proteins. We have prepared and characterized a series of new nitrosoalkane heme model complexes of the form (por)Fe(RNO)(L) (por=porphyrinato dianion; R=isopropyl; L=MeOH, pyridine, 1-methylimidazole) by infrared and 1H NMR spectroscopy and X-ray crystallography. Within the set of octaethylporphyrinato (OEP) compounds, the infrared stretching frequencies of the NO groups decrease in the order (OEP)Fe(iPrNO)(MeOH).MeOH (1433 cm-1) > (OEP)Fe(iPrNO)(py) (1429 cm-1) > (OEP)Fe(iPrNO)(1-MeIm) (1423 cm-1), reflecting the increased backdonation of electron density in the 1-methylimidazole derivative. The molecular structures of the compounds as determined by crystallography reveal N-binding of the nitrosoalkane ligands to the formally ferrous metal centers.

Heme↗
PubMed1981

The molecular structure of (+/-)- 7 alpha, 8 beta-dihydroxy-7,8-dihydrobenzo[a]pyrene, an early metabolite of benzo[a]pyrene.

The molecular structure of (+/-)-7 alpha, 8 beta-dihydroxy-7,8-dihydrobenzo[a]pyrene has been determined by X-ray crystallographic methods. The analysis has shown that the two hydroxyl groups are trans to each other and di-equatorial to the ring. The dihydrobenzene group adopts a distorted half-chair pucker. Trends in several bond distances indicate reactive points in the molecule.

Benzopyrenes↗
PubMed1999

[The relationship between thin-layer chromatographic retention values and molecular structures of phenol and aniline derivatives].

The Rf values of 24 phenol and aniline derivatives were determined on silica gel layer with three solvent mixtures of hexane-ethyl acetate in different proportions as the mobile phases. The compounds were divided into two species having different features by using the oblique factor analysis. It was found that in the first species there is no methyl group on their benzene rings and in the second all have methyl group in their benzene rings, which results in higher Rf values of the latter than those of the former. It was also found that the sequence of the groups on the benzene rings which make the Rf values of the compounds higher was --CH3 >--OH >--NH2 and the compounds having the ortho-substituted groups give the higher Rf values than para- and meta-substituted ones due to the formation of hydrogen bond within their molecules. The multi-parameter regression analyses of Rf values with the topological indexes degree B and M for the two species showed rather good correlation between the TLC retention values and the molecular structure of the compounds. The findings are of great practical significance.

Aniline Compounds↗
PubMed1978

Cardioselectivity as a function of molecular structure in beta-adrenoceptor blocking agents of the 1-(para-substituted aryloxy)-3-(isopropylamino)propan-2-ol type.

The relationship between molecular structure and cardioselectivity is described in the 1-(para-substituted aryl-oxy)-3-(isoprophylamino)propan-2-ol type of beta-adrenoceptor blocking agents. Cardioselectivity in the aforementioned series requires that the aromatic substitution in the position para to the amino alcohol side chain will have a minimal linear length of 5.0 A. Highest cardioselectivity is obtained when this para substituent is a rigid group coplanar with the aromatic ring. This may result from steric hindrance for binding at the beta2-adrenoceptor subtype which does not occur in the beta1 subtype. Evidence in favor of this suggestion was obtained by the finding that the trans isomer of 1-[4-(1-propenyl)-2-methoxyphenoxy]-3-(isopropylamino)propan-2-ol is cardioselective (beta1/beta2 = 25), whereas the cis isomer is beta2 selective (beta1/beta2 = 0.1).

Adrenergic beta-Antagonists↗
PubMed2001

Synthesis and antitumour activity of platinum(II) and platinum(IV) complexes containing ethylenediamine-derived ligands having alcohol, carboxylic acid and acetate substituents. Crystal and molecular structure of [PtL4CL2].H20 where L4 is ethylenediamine-N,N'-diacetate.

Several cisplatin analogues of ethylenediamine-derived ligands containing alcohol, carboxylic acid and acetate substituents have been prepared and characterised. Oxidation of some of these square planar platinum(II) complexes using aqueous hydrogen peroxide gave octahedral platinum(IV) complexes, containing trans hydroxo ligands. Acetylation of the hydroxo ligands was achieved by reaction with acetic anhydride, giving complexes which are analogues of the antitumour drug, JM-216. Oxidation of the complex [Pt(H2L4)Cl2], where H2L4 is ethylenediamine-N,N'-diacetic acid, with H2O2 gave the platinum(IV) complex [PtL4Cl2].H2O in which L4 is tetradentate as shown by a crystal and molecular structure. This complex was previously reported to be [Pt(HL4)(OH)Cl2] in which HL4 is tridentate. Several of the complexes were tested for antitumour activity against five human ovarian carcinoma cell lines. IC50 values range from 4.0 microM for cis,trans-PtCl2(OH)2(NH2CH2CH2NHCH2CH2OH) against the CH1 cell line to >25 microM indicating moderate to low activity relative to other platinum complexes.

Antineoplastic Agents↗
PubMed1982

The molecular structure of (20R)-20-phenyl-5-pregnene-3 beta, 20-diol, an inhibitor of cholesterol conversion to pregnenolone.

The crystal and molecular structure of (20R)-20-phenyl-5-pregnene-3 beta, 20-diol hemihydrate has been determined by X-ray analysis in order to establish the configuration and conformation at C(20). Interest in this compound was stimulated by its high affinity inhibitory binding to cytochrome P-450SCC, the enzyme which catalyzes the biosynthesis of pregnenolone (3 beta-hydroxy-5-pregnen-20-one) from cholesterol. The results of the analysis suggest a possible conformation for the cholesterol side chain in the enzyme complex.

Cholesterol↗
PubMed1982

Molecular structure of (+/-)-7,8,9,10-tetrahydroxy-7,8,9,10-tetrahydrobenzo(a)pyrene determined by x-ray crystallography.

The molecular structure of a tetrahydrotetrol that is formed by hydrolysis of (+/-)-7 alpha, 8 beta-dihydroxy-9 beta, 10 beta-epoxy-7,8,9,10-tetrahydrobenzo(a)pyrene, has been determined by X-ray crystallographic methods. The relative orientations of the four hydroxyl groups of the racemic tetrahydrotetrol (7 alpha, 8 beta, 9 beta, 10 alpha) indicate that the tetrahydrotetrol was formed by the trans opening of the epoxide ring of the diol-oxide. The hydroxyl groups at positions 7 and 8 adopt a diequatorial conformation, while those at positions 9 and 10 adopt a diaxial conformation. Several other geometric features are discussed.

Benzopyrenes↗
PubMed2006

Crystalline polymorphism and molecular structure of sodium pravastatin.

In this work different crystallization processes of sodium pravastatin are explored and a new polymorph is obtained. The analytical results of powder X-ray diffraction (PXRD) and thermal analysis for this new polymorph indicate that it is different from the polymorphs previously reported. This new crystal form shows different physical-chemical properties than the previous forms, such as crystallographic structure, thermal behavior, and melting point, 181.5 degrees C. Besides, all crystallization processes previously reported use an aprotic solvent as antisolvent. However, we propose a new crystallization process for sodium pravastatin that uses only protic solvents, overcoming industrial scaling and environmental problems. Variable-temperature PXRD experiments show a transformation between different crystal forms in the range of 80-120 degrees C. Solid-state 13C NMR, reported in this work for the first time, and Fourier transform infrared (FT-IR) studies of some polymorphs show some differences in intermolecular interactions, especially with carboxylate and hydroxyl groups. Quantum mechanical calculations of the pravastatin molecule are also presented for the first time, obtaining a molecular structure similar to the experimental structure existing within the crystal lattice of the tert-octylamonium salt of pravastatin.

Calorimetry, Differential Scanning↗
PubMed1974

Conservation of the molecular structure of yeast phenylalanine transfer RNA in two crystal forms.

A comparison is made between the electron density maps of the monoclinic and orthorhombic crystal forms of yeast tRNA(Phe) which have been obtained respectively by ourselves and by another group. It is concluded that the molecular structures are essentially the same in both crystals, although the models derived from the maps are not the same. The relation between the two molecular packings is discussed, and it is suggested that the intermolecular contact in the orthorhombic form which is not present in the monoclinic form, may arise through base pairing of the anticodons of neighboring molecules.

Models, Molecular↗
PubMed2002

Quantitative relationships between molecular structures, environmental temperatures and octanol-air partition coefficients of PCDD/Fs.

A concise quantitative model that incorporates information on both environmental temperature (T) and molecular structures, for logarithm of octanol-air partition coefficient (K(OA)) to base 10 (logK(OA)) of PCDDs, was developed. Partial least squares (PLS) analysis together with 14 quantum chemical descriptors were used to develop the quantitative relationships between structures, environmental temperatures and properties (QRSETP) model. It has been validated that the obtained QRSETP model can be used to predict logK(OA) of other PCDDs. Molecular size, environmental temperature (T), q+ (the most positive net atomic charge on hydrogen or chlorine atoms in PCDD molecules) and E(LUMO) (the energy of the lowest unoccupied molecular orbital) are main factors governing logK(OA) of PCDD/Fs under study. The intermolecular dispersive interactions and thus the size of the molecules play a leading role in governing logK(OA). The more chlorines in PCDD molecules, the greater the logK(OA) values. Increasing E(LUMO) values of the molecules leads to decreasing logK(OA) values, implying possible intermolecular interactions between the molecules under study and octanol molecules. Greater q+ values results in greater intermolecular electrostatic repulsive interactions between PCDD and octanol molecules and smaller logK(OA) values.

Journal Article↗