Identifying aspirin polymorphs from combined DFT-based crystal structure prediction and solid-state NMR

A combined experimental and computational approach was used to distinguish between different polymorphs of the pharmaceutical drug aspirin. This method involves the use of ab initio random structure searching (AIRSS), a density functional theory (DFT)-based crystal structure prediction method for the high-accuracy prediction of polymorphic structures, with DFT calculations of nuclear magnetic resonance (NMR) parameters and solid-state NMR experiments at natural abundance. AIRSS was used to predict the crystal structures of form-I and form-II of aspirin. The root-mean-square deviation between experimental and calculated ¹H chemical shifts was used to identify form-I as the polymorph present in the experimental sample, the selection being successful despite the large similarities between the molecular environments in the crystals of the two polymorphs.     

Fluoroquinolone Antimicrobials: Singlet Oxygen, Superoxide and Phototoxicity

The fluoroquinolone antibacterial agents possess photo-sensitizing properties that lead to phototoxic responses in both human and animal subjects. The phototoxicity order reported in humans is: fleroxacin > lomefloxacin, pefloxacin > ciprofloxacin ? enoxacin, norfloxacin and ofloxacin. Studies both in vivo and in vitro have related this phototoxicity to the generation of reactive oxygen species including hydrogen peroxide and the hydroxyl radical. We determined the quantum yields of singlet oxygen generation (φ_Δ,) by detection of the singlet oxygen (¹O₂) luminescence at 1270 tun for several fluoroquinolones, naphthyridines and other structurally related compounds. All the fluoroquinolones examined have low φ_Δ values ranging from 0.06 to 0.09 in phosphate buffer at pD 7.5. We also determined the ¹O₂ quenching constants for these compounds and their values were on the order of 10⁶M^?1 s¹, except for lomefloxacin whose rate constant was 1.8 × 10⁷M^?1 s^?1. The φ_Δ values were significantly decreased in a solvent of lower polarity such as methanol (0.007 ≤φ_Δ≤ 0.02). The production of ¹O₂ by these antibiotics did not correlate with the order reported for their phototoxicity. We also measured the photogeneration (λ > 300 nm) of superoxide by these antibacterials in dimethylsulfoxide using electron paramagnetic resonance and the spin trap 5,5-dimethyl-l-pyrroiine N-oxide. Although there is not a one-to-one correspondence between the relative rates of superoxide generation and the phototoxicity ranking of the fluoroquinolones, the more phototoxic compounds tended to produce superoxide at a faster rate. Nevertheless, the magnitudes of the observed differences do not appear sufficient to explain the range of fluoroquinolone phototoxicity potencies in human and animal subjects in general and the high activity of fleroxacin and lomefloxacin in particular. For these latter drugs the photoinduced loss of the F₈ atom as fluoride and the concomitant generation of a highly reactive carbene at C-8 provide a more plausible mechanism for their potent phototoxic and photocarcinogenic properties.     

PHOTOINACTIVATION OF CATALASE

Abstract— Inactivation of catalase with visible light (>400nm) has been studied in purified bovine liver catalase and in peroxisomal catalase in the mitochondrial fraction of rat liver. Light corresponding to that of maximal absorbance of the heme site (405 nm) was most effective in inactivation. Although photoinactivation is O₂ dependent, scavengers of OH radical, ¹O₂ and O⁻₂ did not protect against loss of activity in either system. Superoxide dismutase partially protected purified catalase added into the mitochondrial fraction system. However, complete protection of catalase was afforded by low concentrations of substrates such as formic acid or methanol which rapidly convert Compound I to Ferricatalase.     

Versuche mit markierten Atomen über den Mechanismus der Vermehrung von Tabakmosaikvirus in Nicotiana tabacum

Zusammenfassung Tabakmosaikvirus hoher spezifischer Aktivität, das am Phosphor und/oder Kohlenstoff markiert war, wurde biosynthetisch hergestellt. Damit wurde jeweils ein Blatt einer Pflanze von Nicotiana tabacum infiziert und der etwaige Transport von intaktem Virus durch das Leitungssystem der Pflanzen dadurch weitgehend unterbunden, daß die Leitgefäße des behandelten Blattes durchtrennt wurden.Das aus den unbehandelten Blättern der Pflanze nach 17 1/2, 48 und 72 Stdn. isolierte Virus wies im Vergleich zum eingesetzten TMV einen viel geringeren Anteil an Gesamtradiokohlenstoff im Protein auf. Dies deutet darauf hin, daß das Virus der unbehandelten Blätter höchstens zu einem sehr geringen Teil aus intakt transportiertem TMV bestehen könnte.Die nicht im TMV enthaltenen Polynukleotide der unbehandelten Blätter enthalten 7 Stdn. nach der Infektion verhältnismäßig viel³²P, doch tritt derselbe innerhalb 70 Stdn. zum allergrößten Teil in niedermolekulare Verbindungen über.Die in Puffer unlöslichen Polynukleotide der unbehandelten Blätter (Blattnukleinsäure) weisen ein mit der Zeit abnehmendes Verhältnis von³²P/¹⁴C auf. Auch innerhalb der Nukleinsäure (NS) des TMV dieser Blätter nimmt dieses Verhältnis zunächst ab, steigt aber später wieder an.Die angeführten Ergebnisse stehen mit der Vorstellung im Einklang, daß das Virus NS abspaltet und sowohl die systemische Infektion der Pflanze wie auch die Virusvermehrung mindestens zum Teil durch diese freie NS bewirkt wird. Die aus dem Virus stammende freie NS unterliegt zum großen Teil lebhaftem Abbau, wobei ihre Komponenten wahrscheinlich dem Aufbau normaler Blattbestandteile dienen.Mit 3 Abbildungen     

Examination of complex oligosaccharides by matrix-assisted laser desorption/ionization mass spectrometry on time-of-flight and magnetic sector instruments

Matrix-assisted laser desorption/ionization (MALDI) spectra of underivatized oligosaccharides of the type attached to asparagine in glycoproteins (N-linked oligosaccharides) were examined with linear time-of-flight (TOF) and magnetic sector instruments using 2,5-dihydroxybenzoic acid (2,5-DHB), α-cyano-4-hydroxycinnamic acid, sinapinic acid, 1,4-dihydroxynaphthalene-2-carboxylic acid or 2-(4-hydroxyphenylazo)benzoic acid (HABA) as the matrices. All compounds formed abundant [M + Na]⁺ ions with the strongest signals being obtained from 2,5-DHB after recrystallization of the initially dried sample spot from ethanol. Only traces of fragmentation were detected from neutral oligosaccharides on the TOF system but more abundant fragment ions (about 5% relative abundance) were present in the spectra from the magnetic sector instrument. Fragmentation was dominated by Y-type glycosidic cleavages (Domon and Costello nomenclature) between all sugar residues yielding sequence and branching information. Sialic acid-containing oligosaccharides generally produced the sodium adduct of the sodium salt and gave much weaker signals than the neutral sugars in the positive-ion mode. There was also considerable loss of the sialic acid moleties as the result of fragmentation on the magnetic sector instrument. The least fragmentation of both neutral and acidic sugars was caused by 2.5 DHB, which proved to be the most appropriate matrix for examination of oligosaccharide mixtures. Much better resolution of the oligosaccharides was obtained than by traditional methods such as the use of Bio-Gel P-4 gel filtration column chromatography. It is worth noting also that the measurements were considerably faster (a few minutes as opposed to about 16 h). In addition, no radiolabelling was necessary as required for detection on the P-4 columns. Mixtures of oligosaccharides from several glycoproteins (ribonuclease B, human immunoglobulin G (IgG) transferrin, bovine fetuin and chicken ovalbumin) were examined and the patterns of the identified oligosaccharides were found to agree closely with the known compositions of the sugar mixtures. The mass spectrometric resolution on the magnetic sector instrument was very much better (up to 3000, FWHM) than could be obtained with the linear TOF systems (200–400). The technique was used as a detection system for the products of exoglycosidase digestion in experiments to determine the detailed structure of the oligosaccharide chains from human IgG.     

Determination by X-ray absorption spectroscopy of the Fe-Fe separation in the oxidized form of the hydroxylase of methane monooxygenase alone and in the presence of MMOD

The diiron active site in the hydroxylase of Methylococcus capsulatus (Bath) methane monooxygenase (MMOH) has been studied in the oxidized form by X-ray absorption spectroscopy (XAS). Previous investigations by XAS and X-ray crystallography have identified two different distances (3.0 and 3.4 angstroms) between the two Fe atoms in the dinuclear site. The present study has employed a systematic extended X-ray absorption fine structure (EXAFS) fitting methodology, utilizing known and simulated active site and relevant model structures, to determine unambiguously the Fe-Fe separation in the oxidized form of MMOH. Consistent and unique fits were only possible for an Fe-Fe distance of 3.0 angstroms. This methodology was then applied to study potential changes in the active site local structure in the presence of MMOD, a protein of unknown function in multicomponent MMO. Fe K-edge and EXAFS analyses revealed negligible changes in the diiron site electronic and geometric structure upon addition of MMOD to oxidized MMOH.     

Oxidation chemistry of uranium(III) complexes of Tpa: synthesis and structural studies of oxo,hydroxo, and alkoxo complexes of uranium(IV)

The crystal structure of the complex [U(tpa)(2)]I(3), 1 (tpa = tris[(2-pyridyl)methyl]amine), has been elucidated. The complex exists as only one enantiomer in the crystal leading to the chiral space group P2(1)2(1)2(1). The coordination geometry of the metal can be described as a distorted cube. Accidental oxidation of [U(tpa)(2)]I(3) led to the isolation of the unusual mononuclear bishydroxo complex of uranium(IV) [U(tpa)(2)(OH)(2)]I(2).3CH(3)CN, 2, which was structurally characterized. The controlled reaction of [U(tpa)(2)]I(3) with water resulted in the oxidation of the metal center and led to the formation of protonated tpa and of the trinuclear U(IV) oxo complex ([U(tpa)(mu-O)I](3)(mu(3)-I))I(2), 3. The solid state and solution structures of this trimer are reported. The pathway suggested for the formation of this complex is the oxidation of the [U(tpa)(2)]I(3) complex by H(2)O to form a U(IV) hydroxo complex which then decomposes, eliminating mono-protonated tpa. The comparison with the reported reaction with water of cyclopentadienyl derivatives points to a higher reactivity toward water reduction of the bis(tpa) complex with respect to the cyclopentadienyl derivatives. The reaction of U(III) with methanol in the presence of the supporting ligand tpa leads to formation of alkoxo complexes similarly to what is found for amide or cyclopentadienyl derivatives. The monomethoxide complex [U(tpa)I(3)(OMe)], 4, has been prepared in good yield by alcoholysis of the U(III) mono(tpa) complex. The crystal structure of this complex has been determined. The reaction of [U(tpa)(2)]I(3) with 2 equiv of methanol in acetonitrile allows the isolation of the bismethoxo complex of U(IV) [U(tpa)I(2)(OMe)(2)], 5, in 35-47% yield, which has been fully characterized. To account for the oxidation of U(III) to U(IV) the suggested mechanism assumes that hydrogen is evolved in both reactions.     

On Not Counting the Cost: Ad Hocness and Disconfirmation

I offer an account of ad hocness that explains why the adoption of an ad hoc auxiliary is accompanied by the disconfirmation of a hypothesis H. H must be conjoined with an auxiliary (or set of auxiliaries) a′, which is improbable antecedently given H, while ~H does not have this disability. This account renders it unnecessary to require, for identifying (bad) ad hocness, that either a′ or H have a posterior probability less than or equal to 0.5; there are also other reasons for abandoning that condition. I distinguish between formal ad hocness, which is bad in the probabilistic sense that it results in disconfirmation of H, and argumentative ad hocness, which actually involves bad reasoning on the part of a subject. The latter is what I call “not counting the cost.” This distinction allows us to see why the 0.5 condition appeared attractive in the first place. The concept of not counting the cost also has implications for other areas of research, including both a Bayesian concept of unfalsifiability and the classic epistemological question of the problem of the external world.     

Gold internal standard correction for elemental imaging of soft tissue sections by LA-ICP-MS: element distribution in eye microstructures

Laser ablation coupled to inductively coupled plasma mass spectrometry has been developed for the elemental imaging of Mg, Fe and Cu distribution in histological tissue sections of fixed eyes, embedded in paraffin, from human donors (cadavers). This work presents the development of a novel internal standard correction methodology based on the deposition of a homogeneous thin gold film on the tissue surface and the use of the ¹⁹⁷Au⁺ signal as internal standard. Sample preparation (tissue section thickness) and laser conditions were carefully optimized, and internal normalisation using ¹⁹⁷Au⁺ was compared with ¹³C⁺ correction for imaging applications. ²⁴Mg⁺, ⁵⁶Fe⁺ and ⁶³Cu⁺ distributions were investigated in histological sections of the anterior segment of the eye (including the iris, ciliary body, cornea and trabecular meshwork) and were shown to be heterogeneously distributed along those tissue structures. Reproducibility was assessed by imaging different human eye sections from the same donor and from ten different eyes from adult normal donors, which showed that similar spatial maps were obtained and therefore demonstrate the analytical potential of using ¹⁹⁷Au⁺ as internal standard. The proposed analytical approach could offer a robust tool with great practical interest for clinical studies, e.g. to investigate trace element distribution of metals and their alterations in ocular diseases.