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.     

Fluorescent signaling based on control of excited state dynamics. Biarylacetylene fluorescent chemosensors

We have previously reported that metal ion binding could restrict the excited state rotation of a biaryl chromophore, suppressing intersystem crossing and leading to increased emission. We have now applied the restriction of excited state dynamics to suppression of the other fundamental nonradiative decay pathway, internal conversion, in biarylacetylenes. This indicates that both nonradiative decay pathways are subject to conformational control, and that this signaling pathway should be generally accessible in simple flexible fluorophores.     

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     

Synthesis of fluorescently labeled UDP-GlcNAc analogues and their evaluation as chitin synthase substrates

[structure: see text] Chitin synthase (CS) polymerizes UDP-GlcNAc to form chitin (poly-beta(1,4)-GlcNAc), a key component of fungal cell wall biosynthesis. Little is known about the substrate specificity of chitin synthase or the scope of substrate modification the enzyme will tolerate. Following a previous report suggesting that 6-O-dansyl GlcNAc is biosynthetically incorporated into chitin, we became interested in developing an assay for CS activity based on incorporation of a fluorescent substrate. We describe the synthesis of two fluorescent UDP-GlcNAc analogues and their evaluation as chitin synthase substrates.     

Ion Association in Lanthanide Chloride Solutions

A better understanding of the solution chemistry of the lanthanide (Ln) salts in water would have wide ranging implications in materials processing, waste management, element tracing, medicine and many more fields. This is particularly true for minerals processing, given governmental concerns about lanthanide security of supply and the drive to identify environmentally sustainable processing routes. Despite much effort, even in simple systems, the mechanisms and thermodynamics of Ln^III association with small anions remain unclear. In the present study, molecular dynamics (MD), using a newly developed force field, provide new insights into LnCl₃(aq) solutions. The force field accurately reproduces the structure and dynamics of Nd³⁺, Gd³⁺ and Er³⁺ in water when compared to calculations using density functional theory (DFT). Adaptive-bias MD simulations show that the mechanisms for ion pairing change from dissociative to associative exchange depending upon cation size. Thermodynamics of association reveal that whereas ion pairing is favourable, the equilibrium distribution of species at low concentration is dominated by weakly bound solvent-shared and solvent-separated ion pairs, rather than contact ion pairs, reconciling a number of contrasting observations of Ln^III–Cl association in the literature. In addition, we show that the thermodynamic stabilities of a range of inner sphere and outer sphere coordination complexes are comparable and that the kinetics of anion binding to cations may control solution speciation distributions beyond ion pairs. The techniques adopted in this work provide a framework with which to investigate more complex solution chemistries of cations in water.     

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.