Molecular modeling of cytochrome P450 3A4

The three-dimensional structure of human cytochrome P450 3A4 was modeled based on crystallographic coordinates of four bacterial P450s: P450 BM-3, P450cam, P450terp, and P450eryF. The P450 3A4 sequence was aligned to those of the known proteins using a structure-based alignment of P450 BM-3, P450cam, P450terp, and P450eryF. The coordinates of the model were then calculated using a consensus strategy, and the final structure was optimized in the presence of water. The P450 3A4 model resembles P450 BM-3 the most, but the B helix is similar to that of P450eryF, which leads to an enlarged active site when compared with P450 BM-3, P450cam, and P450terp. The 3A4 residues equivalent to known substrate contact residues of the bacterial proteins and key residues of rat P450 2B1 are located in the active site or the substrate access channel. Docking of progesterone into the P450 3A4 model demonstrated that the substrate bound in a 6-orientation can interact with a number of active site residues, such as 114, 119, 301, 304, 305, 309, 370, 373, and 479, through hydrophobic interactions. The active site of the enzyme can also accommodate erythromycin, which, in addition to the residues listed for progesterone, also contacts residues 101, 104, 105, 214, 215, 217, 218, 374, and 478. The majority of 3A4 residues which interact with progesterone and/or erythromycin possess their equivalents in key residues of P450 2B enzymes, except for residues 297, 480 and 482, which do not contact either substrate in P450 3A4. The results from docking of progesterone and erythromycin into the enzyme model make it possible to pinpoint residues which may be important for 3A4 function and to target them for site-directed mutagenesis.     

An in vitro Study on Transition from NO-Hemoglobin to Methemoglobin： Oxygen Effect

The nitrosyl-hemoglobin (HbNO) is the carrier of nitric oxide (NO) which is the important messenger molecule displaying multiple physiologic and pathophysiologic roles. However it is still not clear for the fate of HbNO molecules during the venous-arterial transit. In this letter, the HbNO transition in vitro was studied by using the electron paramagnetic resonance (EPR) spectra. It was found that HbNO molecules were stable when oxygen did not exist in the system but not stable in aerobic conditions. The absorption spectra further revealed that the methemoglobin (metHb) was the product of HbNO in aerobic environment, showing that the HbNO changed to metHb when there were enough oxygen molecules in the system.     

Stereochemicai study of 7-aryl-1,7,8,8a-tetrahydro-3(2H)indolizinones by1H and13C NMR

Stereochemistry of 7-aryl-1,7,8,8a-tetrahydro-3(2H)-indolizinones was studied by¹H and¹³C NMR. Complete assignment of¹H NMR signals and analysis of¹H-¹H coupling constants were performed using the iterative PANIC program. Values of³ J _6,7,³ J _7,8endo, and⁴ J _5,7 allow one to unambiguously identify the correspondingexo- andendo-stereoisomers. For stereoisomers with exo-orientation of H(7), complete assignment of¹³C NMR signals was performed on the basis of analysis of the¹³C-¹H coupling constants using two dimensional heteronuclear shift-correlating spectroscopy.Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 591–593, March, 1996.     

Strukturen aus AIB2− und BaAl4−analogen Einheiten. I Die Verbindungen Sr4Pd5P5 und Sr2Pd3P3

Structures with AIB₂? and BaAl₄?type Units. I The Compounds Sr₄Pd₅P₅ and Sr₂Pd₃P₃ Sr₄Pd₅P₅ (Cmcm, a = 4.177(1) Å, b = 31.377(5) Å, c = 8.581(2) Å, Z = 4) und Sr₂ Pd₃P₃(Pmmm, a = 4.199(1) Å, b = 4.212(1) Å, c = 34.227(4) Å, Z = 4) have been prepared by heating the elements. Both structures contain exclusively units characteristic for the AIB_2? and BaAl₄?type. The ratio between isolated P-atoms and P₂?pairs is interpreted with an ionic splitting of the formulas.     

2-[6-Alkyl-3-hetaryl-4-oxo-9,10-dihydro-4H,8H-chromeno-[8,7-<Emphasis Type="Italic">e</Emphasis>][1,3]oxazin-9-yl]acetic acids

The interaction has been studied of a series of substituted 3-hetaryl-7-hydroxychromones with amino acids and formaldehyde (reactants ratio 1: 1: 2 respectively). In the case of glycine and Het = 3-isoxazolyl the product of aminomethylation at position 8 of the chromone was obtained, and with other Het (including Het = 4-phenyl-1,2,4-triazol-3-yl) 2-[6-alkyl-3-hetaryl-4-oxo-9,10-dihydro-4H,8H-chromeno[8,7-e][1,3]-oxazin-9-yl]acetic acids were formed. With β-alanine and Het = 4-phenyl-1,2,4-triazol-3-yl the corresponding β-substituted propionic acid was synthesized, but proline did not participate in the reaction, leading to bis(6-ethyl-3-hetaryl-7-hydroxychromon-8-yl)methane. __________ Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 5, pp. 683–689, May, 2007.     

The electronic structure of molecules by a many-body approach

The vertical valence ionization potentials of cyclopropane, ethylene oxide and ethylene imine are calculated by a many-body Green's function method. For C₃H₆ the ordering of the ionization potentials is 2e(), 1e(), 2a₁(), 1a₂(), 1e(). The assignment of the 2a₁ and the 1a₂ ionization potentials which has been controversial is thus clarified. The ordering is in agreement with the result obtained via Koopmans' theorem. For ethylene oxide and ethylene imine Koopmans' theorem fails in predicting the correct order of ionic states. For C₂H₄O the ordering of the ionization potentials is 2b ₁(), 4a ₁, 1a ₂(), 2b ₂,3a ₁, 1b ₁(), 1b ₂, 2a ₁ and for C₂H₅N 6a, 5a, 3a, 2a, 4a, 3a, 1a, 2a. The agreement of the computed ionization potentials with the experimental values is very satisfactory.     

Disproportionation of 6,8-Dialkyl-3-thia-2,4,6,8-tetraazabicyclo[3,3,0]octan-7-one 3,3-Dioxides under Conditions of Acid Hydrolysis and Acetylation

Acid hydrolysis and acetylation of 6,8-dialkyl-3-thia-2,4,6,8-tetraazabicyclo[3,3,0]octan-7-one 3,3-dioxides have been studied. 6,8-Dialkyl-3-thia-2,4,6,8-tetraazabicyclo[3,3,0]octan-7-one 3,3-dioxides disproportionate to 4,4'-sulfonyldiiminobis(1,3-dialkylimidazolidin-2-ones) and sulfamide when treated with acid at pH 1 or with acetyl chloride. The kinetics of the disproportionation have been studied.     

Stereocontrolled synthesis of (+)- and (−)-iridomyrmecin from citronellene enantiomers

Natural (+)-iridomyrmecin and its unnatural enantiomer (−)-iridomyrmecin were synthesized by intramolecular [3+2] dipolar cycloaddition of silyl nitronates that had been generated from the nitro derivatives of (+)- and (−)-citronellenes, respectively. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 9, pp. 1683–1687, September, 1997.     

N- and O-Alkylation of 3-indolylcyclopropylacetic acid derivatives

2,2-Dimethyl-3-(2-methyl-3-indolyl)cyclopropylacetic acid, its amide and esters, and the corresponding alcohol, viz., the product of ester reduction by LiAlH₄, were synthesized. The chemoselectivity of N- and O-alkylation of these compounds was studied. Selective monoalkylation at the nitrogen atom of the heterocycle, O-alkylation to the side chain, or dialkylation at both nucleophilic sites can be carried out under conditions of phase-transfer catalysis. The N-acylation at the indole fragment of nitrile of this acid occurs only under the Vilsmeier—Haak formylation conditions.     

Study on the Tautomer Interconversion of 3-Oxo Pentanoate During Gas Chromatography

Enol and keto tautomers of methyl 3-oxo pentanoate could be separated on a HP-5 capillary column. The chromatographic peaks were identified by examining characteristic mass ions arose from the corresponding enol and keto molecular ions. The study showed that the area percentage of enol tautomer is a function of temperature of the column. Treating the column as a reactor, the energy of activation for the on-column tautomerization could be extracted (35.1 kJ mol⁻¹) by monitoring the loss of the enol tautomer, because the reaction is found to obey pseudo first-order kinetics. The enthalpy and the entropy changes (ΔH = −3.98 kJ mol⁻¹, ΔS = −7.89 J K⁻¹mol⁻¹) for the enol-to-keto reaction in the stationary phase were also obtained.