Calculation of relative binding affinities of fructose 1,6-bisphosphatase mutants with adenosine monophosphate using free energy perturbation method

The free energy perturbation (FEP) methodology is the most accurate means of estimating relative binding affinities between inhibitors and protein variants. In this article, the importance of hydrophobic and hydrophilic residues to the binding of adenosine monophosphate (AMP) to the fructose 1,6-bisphosphatase (FBPase), a target enzyme for type-II diabetes, was examined by FEP method. Five mutations were made to the FBPase enzyme with AMP inhibitor bound: 113Tyr --> 113Phe, 31Thr --> 31Ala, 31Thr --> 31Ser, 177Met --> 177Ala, and 30Leu --> 30Phe. These mutations test the strength of hydrogen bonds and van der Waals interactions between the ligand and enzyme. The calculated relative free energies indicated that: 113Tyr and 31Thr play an important role, each via two hydrogen bonds affecting the binding affinity of inhibitor AMP to FBPase, and any changes in these hydrogen bonds due to mutations on the protein will have significant effect on the binding affinity of AMP to FBPase, consistent to experimental results. Also, the free energy calculations clearly show that the hydrophilic interactions are more important than the hydrophobic interactions of the binding pocket of FBPase.     

Tertiary amine effect: synthesis of some novel spirosubstituted pyrido[2,3-d]pyrimidines

5-Formyl-6-tertiaryamino uracils 3 prepared from 6-chloro-5-formyl uracil derivative 1 react with barbituric acids 4 in the presence of base catalyst to afford a novel class of spirosubstituted pyrido[2,3-d]pyrimidines 5 via 1,6-electro-cyclisation in excellent yields.     

Determination of enzyme activity inhibition by FTIR spectroscopy on the example of fructose bisphosphatase

A mid-infrared enzymatic assay for label-free monitoring of the enzymatic reaction of fructose-1,6-bisphosphatase with fructose 1,6-bisphosphate has been proposed. The whole procedure was done in an automated way operating in the stopped flow mode by incorporating a temperature-controlled flow cell in a sequential injection manifold. Fourier transform infrared difference spectra were evaluated for kinetic parameters, like the Michaelis–Menten constant (K _M) of the enzyme and V _max of the reaction. The obtained K _M of the reaction was 14 ± 3 g L⁻¹ (41 μM). Furthermore, inhibition by adenosine 5′-monophosphate (AMP) was evaluated, and the K _M^App value was determined to be 12 ± 2 g L⁻¹ (35 μM) for 7.5 and 15 μM AMP, respectively, with V _max decreasing from 0.1 ± 0.03 to 0.05 ± 0.01 g L⁻¹ min⁻¹. Therefore, AMP exerted a non-competitive inhibition.     

Phosphorus-nitrogen compounds: Reinvestigation of the reactions of hexachlorocyclotriphosphazene with 1,4-butane- and 1,6-hexane-diols—NMR studies of the products

Reactions of hexachlorocyclotriphosphazene N₃P₃Cl₆ (1) with 1,4-butane-(2) and 1,6-hexane-diols (3) in (1:1:2, 1:2:4, and 1:3:6) stoichiometries in THF solution at room temperature (r.t.) and under refluxing conditions yield a total of 15 products: two open chain, N₃P₃Cl₅[O(CH₂)_nOH] (n = 4, 6) (4, 5), two mono-spiro, N₃P₃Cl₄[O(CH₂)_nO] (n = 4, 6) (6, 7), two mono-ansa, N₃P₃Cl₄[O(CH₂)_nO] (n = 4,6) (8, 9), two dispiro, N₃P₃Cl₂[O(CH₂)_nO]₂ (n = 4, 6) (10, 11), two spiro-ansa, N₃P₃Cl₂[O(CH₂)_nO]₂ (n = 4, 6) (12, 13), one tri-spiro, N₃P₃[O(CH₂)₄O]₃ (14), two single-bridged, N₃P₃Cl₅[O(CH₂)_nO]N₃P₃Cl₅ (n = 4, 6) (15, 16), one double-bridged, N₃P₃Cl₄[O(CH₂)₆O]₂N₃P₃Cl₄ (17), and one tri-bridged, N₃P₃Cl₃[O(CH₂)₆O]₃N₃P₃Cl₃ (18) derivatives. Their structures have been elucidated by MS, ³¹P, and ¹H NMR spectroscopy. The results obtained, based on the synthesis, characterization, product types, and the relative yields, are compared with those of previous studies on the reactions of 1 with 1,2-ethane-, 1,3-propane-, 1,4-butane-, 1,5-pentane-, and 1,6-hexane-diols.     

Study of the factors determining the outcome of cycloaddition of isocyanurato-substituted azides to [60]fullerene

The final outcome of cycloaddition of isocyanuratoalkyl azides to C₆₀ depends on the temperature, the thermal stability of azides, the substituents in the isocyanurate ring, and the number of methylene groups in the alkyl radical. The thermal transformations of the monoadducts obtained were studied.     

Efficient Synthesis of 1,2,3,4,6‐Penta‐O‐acetyl‐L‐idopyranose

An efficient synthesis of 1,2,3,4,6‐penta‐O‐acetyl‐L ‐idopyranose 2 from 3,5‐O‐benzylidene‐1,2‐O‐isopropylidene‐α‐D ‐glucofuranose in five steps in 45% overall yield via hydroboration of enol ether, hydrolysis of L ‐idofuranosyl sugar and acetolysis of 1,6‐anhydro‐β‐L ‐idopyranose as key steps is described here.     

Stereoselective Cyclopolymerization of Polar 1,6‐Heptadiynes by Novel,Tailor‐Made Ruthenium‐Based Metathesis Catalysts

Summary: The cyclopolymerization of 4,4‐bis(hydroxymethyl)‐1,6‐heptadiyne ( M1 ), 4‐(carboxyethyl)‐1,6‐heptadiyne ( M2 ), 4‐(hydroxymethyl)‐1,6‐heptadiyne ( M3 ), and 4‐carboxy‐1,6‐heptadiyne ( M4 ) using five different well‐defined metathesis initiators was investigated. Control of molar mass was achieved with catalysts bearing trifluoroacetate ligands. ¹³C NMR experiments showed that poly‐ M2 , prepared by the action of any catalyst consisted solely of five‐membered ring structures, i.e., 1,2‐(cyclopent‐1‐enylene)vinylene units. Effective conjugation lengths of all polymers were calculated from the corresponding UV‐Vis absorption maxima, which varied reversibly with temperature.

     

Metallocenic copolymers of ethylene and 5,7‐dimethylocta‐1,6‐diene: Structural characterization and mechanical behavior

The relationship between the structure and mechanical properties has been established for several copolymers of ethylene and 5,7‐dimethylocta‐1,6‐diene synthesized with a metallocene catalyst. A dependence on the composition and polymerization temperature has been found. The branches cannot be incorporated into the orthorhombic crystal lattice, and consequently, structural parameters such as the crystallinity and crystal size are considerably affected as the 5,7‐dimethylocta‐1,6‐diene content increases in the copolymers. The viscoelastic relaxations have been analyzed and compared with those exhibited by high‐density polyethylene (HDPE). The β relaxation does not appear in HDPE and is exclusively seen in the copolymers. As the 5,7‐dimethylocta‐1,6‐diene content rises, the intensity of this process is increased, and its location is shifted to a lower temperature up to comonomer contents of approximately 6–8 mol % in the copolymers. On the other hand, the α mechanism associated with motion within the crystalline regions is also moved to a lower temperature and its intensity is diminished as the 5,7‐dimethylocta‐1,6‐diene molar fraction increases in the copolymers. © 2004 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 42: 3797–3808, 2004     

Transformation of 1,5- and 1,6-dienes to carbocycles by hydrozirconation and oxidation with cerium(IV) compounds

Cyclopentane and cyclohexane derivatives are prepared from 1,5- and 1,6-dienes in a one pot procedure by hydrozirconation, then oxidation of the generated 5- and 6-alkenylzirconocene chlorides with ammonium hexanitratocerate.     

Construction of highly enantiopure β,β-diaryl substituted glycine containing two contiguous stereocenters via asymmetric 1,6-conjugate addition

Asymmetric construction of β,β-diaryl substituted glycine bearing two contiguous chiral centers remains a significant challenge. Herein, the application of the para-quinone methides (p-QMs) and Ni(II)- complex of glycine via 1,6-conjugate addition to achieve asymmetric synthesis of β,β-diaryl substituted glycine has been explored successfully. This protocol features operational simplicity, high diastereoselectivity, and recyclable chiral ligand, which provides a versatile approach to the synthesis of highly enantiopure β,β-diaryl substituted glycine.