Solution structure, mutagenesis, and NH exchange studies of the MutT enzyme–Mg-8-oxo-dGMP complex

The MutT pyrophosphohydrolase from E. coli (129 residues) catalyzes the hydrolysis of nucleoside triphosphates (NTP), including 8-oxo-dGTP, by substitution at Pβ, to yield NMP and pyrophosphate. The product, 8-oxo-dGMP is an unusually tight binding, slowly exchanging inhibitor with a K_D=52 nM, (ΔG°=−9.8 kcal/mol) which is 6.1 kcal/mol tighter than the binding of dGMP (ΔG°=−3.7 kcal/mol). The higher affinity for 8-oxo-dGMP results from a more favorable ΔH_binding (−32 kcal/mol) despite an unfavorable −TΔS°_binding (+22 kcal/mol). The solution structure of the MutT–Mg²⁺-8-oxo-dGMP complex shows a narrowed, hydrophobic nucleotide-binding cleft with Asn-119 and Arg-78 among the few polar residues. The N119A, N119D, R78K and R78A single mutations, and the R78K+N119A double mutant all showed largely intact active sites, on the basis of small changes in the kinetic parameters of dGTP hydrolysis and in ¹H–¹⁵N HSQC spectra. However, the N119A mutation profoundly weakened the active site binding of 8-oxo-dGMP by 4.3 kcal/mol (1650-fold). The N119D mutation also weakened 8-oxo-dGMP binding but only by 2.1 kcal/mol (37-fold), suggesting that Asn-119 functioned both as a hydrogen bond donor to C8=O, and a hydrogen bond acceptor from N7H of 8-oxo-dGMP, while aspartate at position −119 functioned as an acceptor of a single hydrogen bond. Much smaller weakening effects (0.3–0.4 kcal/mol) on the binding of dGMP and dAMP were found, indicating specific hydrogen bonding of Asn-119 to 8-oxo-dGMP. While formation of the wild type MutT–Mg²⁺-8-oxo-dGMP complex slowed the backbone NH exchange rates of 45 residues distributed throughout the protein, the same complex of the N119A mutant slowed the exchange rates of only 11 residues at or near the active site, indicating an increase in conformational flexibility of the N119A mutant. The R78K and R78A mutations weakened the binding of 8-oxo-dGMP by 1.7 and 1.1 kcal/mol, respectively, indicating a lesser role of Arg-78 than of Asn-119 in the selective binding of 8-oxo-dGMP, likely donating a single hydrogen bond to its C6=O. The R78K+N119A double mutant weakened the binding of 8-oxo-dGMP (K_I^slope=3.1 mM) by 6.5±0.2 kcal/mol which overlaps, within error with the sum of the effects of the two single mutants (6.0±0.3 kcal/mol). Such additive effects of the two single mutants in the double mutant are most simply explained by the independent functioning of Asn-119 and Arg-78 in the binding of 8-oxo-dGMP. Independent functioning of these two residues in nucleotide binding is consistent with their locations in the MutT–Mg²⁺-8-oxo-dGMP complex, on opposite sides of the active site cleft, with a distance of 8.4±0.5 Å between their side chain nitrogens.     

Differential scanning calorimetry studies on aged iron(III)-chromium(III)-hydroxide coprecipitates

DSC measurements in air from 20 to 800° are reported on aged iron(III)-chromium(III) coprecipitated hydroxides (with Fe³⁺Cr³⁺ wt% ratios of 91, 73, 11, 37 and 19). A comparison of the DSC profiles of aged coprecipitates with the thermal behaviour of freshly precipitated and well characterized samples provided information on the modification occurring in the structure and reactivity of the coprecipitates on prolonged aging.

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Zusammenfassung Es werden DSC-Messungen an gealterten kogefällten Eisen(III)Chrom(III)-hydroxiden (mit Fe³⁺Cr³⁺ Gewichtsanteilen von 91, 73, 11, 37 und 19) im Temperaturbereich von 20 bis 800° beschrieben. Ein Vergleich der DSC-Profile von gealterten Kofällungen mit dem thermischen Verhalten frisch gefällter und gut definierbarer Proben lieferte Informationen über die Veränderungen in Struktur und Reaktivität der Koniederschläge bei längerem Altern.

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Dedicated to Professor Wahid U. Malik, Founder-President, Indian Council of Chemists, India, with profound regards and fond memories of his youthful enthusiasm and ceaseless and pioneering efforts towards the development of chemical education and research activities at the University of Roorkee, Roorkee, India, on the occasion of his 70th birthday.

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Paper presented at the World Conference on Thermal Analysis, Capri (Italy), 1989.

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We thank Professor J. Pescia, Dr.G. Ablart and N. Favillier of Laboratoire de Magnétisme et d'Electronique Quantique for their interest in this work. A. C. Vajpei expresses his gratefulness to C.N.R.S. and C.N.O.U.S., Paris, for financial support of this work.     

Controlling the lifetime of cucurbit[8]uril based self-abolishing nanozymes

Nature has evolved a unique mechanism of self-regulatory feedback loops that help in maintaining an internal cellular environment conducive to growth, healing and metabolism. In biology, enzymes display feedback controlled switchable behaviour to upregulate/downregulate the generation of metabolites as per the need of the cells. To mimic the self-inhibitory nature of certain biological enzymes under laboratory settings, herein, we present a cucurbit[8]uril based pH responsive supramolecular peptide amphiphile (SPA) that assembles into hydrolase mimetic vesicular nanozymes upon addition of alkaline TRIS buffer (activator) but disintegrates gradually owing to the catalytic generation of acidic byproducts (deactivator). The lifetime of these nanozymes could be manipulated in multiple ways, either by varying the amount of catalytic groups on the surface of the vesicles, by changing the acid generating substrate, or by changing the ratio between the activator and the substrate. The self-inhibitory nanozymes displayed highly tunable lifetimes ranging from minutes to hours, controlled and in situ generation of deactivating agents and efficient reproducibility across multiple pH cycles.

Self-inhibitory feedback regulated transient assembly of a CB[8] based nanozyme is reported whose lifetime can be manipulated in multiple ways, ranging from minutes to hours.     

Atomic Layer Deposited Ti2O3 Thin Films

Ti₂O₃ thin films have been prepared through atomic layer deposition and subjected to electrical resistivity measurements as a function of temperature. The as-prepared films were stable for up to three weeks. In Ti₂O₃ thin films, the insulator-metal transition is observed at ∼80 K, with nearly 3–4 orders of magnitude change in resistivity. The anomalous increase in electrical resistivity in the films is in accordance with the two-band model. However, the energy interval between the bands depending on the crystallographic c/a ratio leads to a change in electrical resistivity as a function of temperature.     

Diorganotin(IV) bis(O,O-alkylenedithiophosphates)

O,O-Alkylenedithiophosphates of diorganotin(IV) of the type R₂Sn[SP(S)O₂G]₂ (R = Me, Et, n-Bu, Ph; G = CH₂CMe₂CH₂, CMe₂CMe₂, CMe₂CH₂CHMe) have been synthesized by the reactions of diorganotin(IV) dichlorides with ammonium O,O-alkylenedithiophosphates or that of diorganotin(IV) oxides with O,O-alkylenedithiophosphoric acids in 1:2 molar ratio in benzene. These new complexes are white solids which are soluble in common organic solvents and are monomeric in refluxing benzene; and they have been characterized by elemental analysis and by different spectroscopic (IR, ¹H, ¹³C, ³¹P and ¹¹⁹Sn NMR) studies, on the basis of which a six coordinated octahedral structure has been suggested in solution.     

Structural interpretation of specific heat measurements on glassy Se100− x Sb x alloys

Differential scanning calorimetry was used to study glassy Se_{100- x} Sb _x (x = 2, 4, 6, 8 and 10) alloys at a heating rate of 10°C min^?1 under non-isothermal conditions. An extremely large increase in the specific heat, C_p , was observed at the glass-transition temperature. It was also found that the values of C_p below and above the glass-transition temperature, C_pg and C_pe , respectively, are highly composition dependent. This indicates that the Sb additive used in the present study influences the structure of the a-Se. The variation of C_p reveals local extrema in the Se–Sb glassy system at x = 4 and x = 8. The composition dependence of both C_pe and C_pg is explained in terms of the atomic structure.     

Synthesis,characterization, molecular docking and biological activity of 5,6-bis-(4-fluoro-phenyl)-3,4,7,8-tetraaza-bicyclo[8.3.1]tetradeca-1(13),4,6,10(14),11-pentaene-2,9-dione and its transition metal complexes

Macrocyclic Schiff base ligand through the condensation of 1,3-dicarbonyl-phenyl-dihydrazide with 4,4′-difluorobenzil and its Co(II), Ni(II), Cu(II) and Zn(II) metal complexes have been synthesized. The ligand and metal complexes were characterized by analytical and physicochemical methods. An octahedral geometry arising from coordination of N2O2 donor atoms from the macrocyclic framework has been proposed for all metal complexes. Synthesized ligand and metal complexes were investigated for in vitro antibacterial and antioxidant activity. Complex [Ni(C₂₂H₁₄N₄F₂O₂)(OCOCH₃)₂] has shown remarkable antibacterial activity (Minimum inhibitory concentration 8–16?μg/ml) comparable to commercial antibiotic Ciprofloxacin. Anticancer activity of synthesized compounds against Squamous Cell Carcinoma (SCC4), head and neck cancer cell line has also been studied at different concentrations and at different time points. Complexes [Co(C₂₂H₁₄N₄F₂O₂)(NO₃)₂] and [Cu(C₂₂H₁₄N₄F₂O₂)(OCOCH₃)₂] have shown remarkable anticancer results (IC₅₀ 31.1 and 43.1?μM) against the tested cell line in concentration dependent manner. Molecular docking studies were carried out to find the binding mode of the synthesized macrocyclic Schiff base ligand to Epidermal Growth Factor Receptor (EGFR) Kinase (PDB ID: 1M17).     

Size tunable synthesis of cysteine-capped CdS nanoparticles by gamma-irradiation

Highly water soluble and biocompatible L-cysteine-capped CdS nanoparticles having narrow size distribution were synthesized for the first time by gamma-irradiation technique without using any additional stabilizer. FTIR study shows that CdS nanoparticles are capped through mercapto-group of cysteine amino acid while its free amino and carboxylate groups make it amenable to bio-conjugation. Size and luminescence of the nanoparticles can be well controlled by varying the parameters like radiation dose, pH and concentration of cysteine. The observed results suggest that pH 7 can be optimum for the synthesis of L-cysteine-capped CdS nanoparticles. CdS nanoparticles synthesized with molar ratio of Cd(2+):cysteine, 1:60 at pH 7 were found to be most luminescent. All nanoparticles formed lie in the size quantization regime and exhibit good crystallinity. Remarkable improvement in stability and luminescence was achieved on changing pH of as-prepared nanoparticles from 7 to 11.     

C-shaped nanoaperture-enhanced germanium photodetector

We present a C-shaped nanoaperture-enhanced Ge photodetector that shows 2-5 times the photocurrent enhancement over that from a square aperture of the same area at 1310 nm wavelength. We demonstrate the polarization dependence of the C-aperture photodetector over a wide wavelength range. Our experimental observation agrees well with finite-difference time-domain simulation results.