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Каталог книг и продолжающихся изданий библиотеки Института биофизики СО РАН

Иностранные журналы библиотеки Института биофизики СО РАН

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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Lisitsa A. E., Sukovatyi L. A., Kratasyuk V. A., Nemtseva E. V.
Заглавие : Viscous Media Slow Down the Decay of the Key Intermediate in Bacterial Bioluminescent Reaction
Колич.характеристики :4 с
Коллективы : Ministry of Science and Higher Education of the Russian Federation [6.7734.2017, 01201351504]
Место публикации : Dokl. Biochem. Biophys.: MAIK NAUKA/INTERPERIODICA/SPRINGER, 2020. - Vol. 492, Is. 1. - С. 162-165. - ISSN 1607-6729, DOI 10.1134/S1607672920020106. - ISSN 1608-3091(eISSN)
Примечания : Cited References:15. - This work was supported by the Ministry of Science and Higher Education of the Russian Federation (project nos. 6.7734.2017 and 01201351504).
Предметные рубрики: LUCIFERASE
Аннотация: The effects of medium viscosity on the decay rate of the 4a-hydroperoxyflavin intermediate of the bioluminescent reaction was investigated. It was found that at low concentrations of glycerol or sucrose (viscosity 1.1-1.3 cP) the decay rate rises, whereas a further increase in viscosity to 6.2 cP leads to a decrease in the decay rate following a power function with an exponent of 0.82-0.84. Using molecular dynamics methods, it was shown that the presence of glycerol and sucrose molecules causes a change in the mobility of the amino acid residues in the active center of luciferase, particularly those responsible for binding of flavin. The results obtained are indicative of two opposite effects of viscous media with glycerol and sucrose: (1) destabilization of 4a-hydroperoxyflavin due to a change in the structural and dynamic properties of the protein and (2) stabilization of this intermediate by the decrease in the diffusion rate of its decay products.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Boyandin A. N., Dvoinina L. M., Sukovatyi A. G., Sukhanova A. A.
Заглавие : Production of porous films based on biodegradable polyesters by the casting solution technique using a co-soluble porogen (Camphor)
Место публикации : Polym.: MDPI AG, 2020. - Vol. 12, Is. 9. - Ст.1950. - С. 1-12. - ISSN 20734360 (ISSN), DOI 10.3390/polym12091950
Аннотация: Porous films have been prepared from degradable polymers—poly-3-hydroxybutyrate (PHB), poly-?-caprolactone (PCL) and a blend of these polymers (1:3)—by adding porogen (camphor) to the polymer solution at 10%, 30% or 50% of the total mass of the polymer and porogen, and leaching it out afterwards. After the rinse, camphor content in films decreased to about 0.025%. The structure, physical/mechanical and biological properties of the films were investigated as dependent on their composition and porosity, which varied depending on the amount of camphor added. The surface of PHB films was porous, the PCL films were relatively smooth, and the PHB/PCL films had an intermediate structure. The addition of camphor increased the thickness (from 35 to 45 µm, from 40 to 80 µm and from 20 to 65 µm for PHB, PCL and PHB/PCL, respectively) and porosity (from 4.2(±3.6)% to 50.0(±12.8)%, from 6.4(±5.5)% to 54.5(±6.0)% and from 4.9(±4.8)% to 51.5(±5.8)%, respectively) of the films. The introduction (and removal) of 10% camphor into the PHB and PHB/PCL films led to an approximately twofold increase in the polar component of the free surface energy (from 5.4 ± 0.38 to 11.8 ± 1.33 and from 2.7 ± 0.13 to 5.2 ± 0.09 mN/m, respectively) but in other cases, on the contrary, a decrease in this indicator was registered. The increase of camphor addition from 0% to 50% gradually impaired mechanical properties of the films: so, Young’s modulus decreased from 3.6 to 1.8 GPa, from 0.30 to 0.12 GPa and from 0.50 to 0.20 GPa for PHB, PCL and PHB/PCL, respectively. At the same time, the water vapor transmission rate considerably increased from 197.37 ± 23.62 to 934.03 ± 114.34 g/m2 /d for PHB films; from 1027.99 ± 154.10 to 7014.62 ± 280.81 g/m2 /d for PCL films; and from 715.47 ± 50.08 to 4239.09 ± 275.54 g/m2 /d for PHB/PCL films. Results of biocompatibility testing in the culture of NIH 3T3 mouse fibroblast cells showed that for the most of experimental samples cell adhesion and proliferation were comparable or superior to the corresponding parameters on the initial nonporous films. The best results were obtained for PHB films where at Day 3 of the experiment the registered cell density for experimental samples arrived at 2.66(±0.26) ? 105 cells/cm2 versus 1.29(±0.33) ? 105 cells/cm2 in the control. So, the proposed method can be used to construct highly porous cell scaffolds for cellular engineering. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Boyandin, Anatoly Nikolayevich, Dvoinina, Ljublyana Mikhailovna, Sukovatyi, Aleksey Grigorievich, Sukhanova, Anna Alekseevna
Заглавие : Production of Porous Films Based on Biodegradable Polyesters by the Casting Solution Technique Using a Co-Soluble Porogen (Camphor)
Колич.характеристики :12 с
Коллективы : Ministry of Science and Higher Education of the Russian Federation [FEFE-2020-0015]
Место публикации : Polymers: MDPI, 2020. - Vol. 12, Is. 9. - Ст.1950. - ISSN 2073-4360(eISSN), DOI 10.3390/polym12091950
Примечания : Cited References:42. - This work was carried out by the team of the scientific laboratory "Smart Materials and Structures" within the state assignment of the Ministry of Science and Higher Education of the Russian Federation for the implementation of the project "Development of multifunctional smart materials and structures based on modified polymer composite materials capable to function in extreme conditions" (Project No. FEFE-2020-0015).
Предметные рубрики: TISSUE ENGINEERING APPLICATIONS
SCAFFOLDS
FABRICATION
POLYMERS
Аннотация: Porous films have been prepared from degradable polymers-poly-3-hydroxybutyrate (PHB), poly-epsilon-caprolactone (PCL) and a blend of these polymers (1:3)-by adding porogen (camphor) to the polymer solution at 10%, 30% or 50% of the total mass of the polymer and porogen, and leaching it out afterwards. After the rinse, camphor content in films decreased to about 0.025%. The structure, physical/mechanical and biological properties of the films were investigated as dependent on their composition and porosity, which varied depending on the amount of camphor added. The surface of PHB films was porous, the PCL films were relatively smooth, and the PHB/PCL films had an intermediate structure. The addition of camphor increased the thickness (from 35 to 45 mu m, from 40 to 80 mu m and from 20 to 65 mu m for PHB, PCL and PHB/PCL, respectively) and porosity (from 4.2(+/- 3.6)% to 50.0(+/- 12.8)%, from 6.4(+/- 5.5)% to 54.5(+/- 6.0)% and from 4.9(+/- 4.8)% to 51.5(+/- 5.8)%, respectively) of the films. The introduction (and removal) of 10% camphor into the PHB and PHB/PCL films led to an approximately twofold increase in the polar component of the free surface energy (from 5.4 +/- 0.38 to 11.8 +/- 1.33 and from 2.7 +/- 0.13 to 5.2 +/- 0.09 mN/m, respectively) but in other cases, on the contrary, a decrease in this indicator was registered. The increase of camphor addition from 0% to 50% gradually impaired mechanical properties of the films: so, Young's modulus decreased from 3.6 to 1.8 GPa, from 0.30 to 0.12 GPa and from 0.50 to 0.20 GPa for PHB, PCL and PHB/PCL, respectively. At the same time, the water vapor transmission rate considerably increased from 197.37 +/- 23.62 to 934.03 +/- 114.34 g/m(2)/d for PHB films; from 1027.99 +/- 154.10 to 7014.62 +/- 280.81 g/m(2)/d for PCL films; and from 715.47 +/- 50.08 to 4239.09 +/- 275.54 g/m(2)/d for PHB/PCL films. Results of biocompatibility testing in the culture of NIH 3T3 mouse fibroblast cells showed that for the most of experimental samples cell adhesion and proliferation were comparable or superior to the corresponding parameters on the initial nonporous films. The best results were obtained for PHB films where at Day 3 of the experiment the registered cell density for experimental samples arrived at 2.66(+/- 0.26) x 10(5) cells/cm(2) versus 1.29(+/- 0.33) x 10(5) cells/cm(2) in the control. So, the proposed method can be used to construct highly porous cell scaffolds for cellular engineering.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Lisitsa A. E., Sukovatyi L. A., Kratasyuk V. A., Nemtseva E. V.
Заглавие : Viscous Media Slow Down the Decay of the Key Intermediate in Bacterial Bioluminescent Reaction
Место публикации : Doklad. Biochem. Biophys.: Pleiades Publishing, 2020. - Vol. 492, Is. 1. - С. 162-165. - ISSN 16076729 (ISSN), DOI 10.1134/S1607672920020106
Аннотация: Abstract: The effects of medium viscosity on the decay rate of the 4a-hydroperoxyflavin intermediate of the bioluminescent reaction was investigated. It was found that at low concentrations of glycerol or sucrose (viscosity 1.1–1.3 cP) the decay rate rises, whereas a further increase in viscosity to 6.2 cP leads to a decrease in the decay rate following a power function with an exponent of 0.82–0.84. Using molecular dynamics methods, it was shown that the presence of glycerol and sucrose molecules causes a change in the mobility of the amino acid residues in the active center of luciferase, particularly those responsible for binding of flavin. The results obtained are indicative of two opposite effects of viscous media with glycerol and sucrose: (1) destabilization of 4a-hydroperoxyflavin due to a change in the structural and dynamic properties of the protein and (2) stabilization of this intermediate by the decrease in the diffusion rate of its decay products. © 2020, Pleiades Publishing, Ltd.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Menzyanova N. G., Pyatina S. А., Nikolaeva E. D., Shabanov A. V., Nemtsev I. V., Stolyarov D. P., Dryganov D. B., Sakhnov E. V., Shishatskaya E. I.
Заглавие : Screening of biopolymeric materials for cardiovascular surgery toxicity—Evaluation of their surface relief with assessment of morphological aspects of monocyte/macrophage polarization in atherosclerosis patients
Место публикации : Toxicol. Rep.: Elsevier Inc., 2019. - Vol. 6. - С. 74-90. - ISSN 22147500 (ISSN) , DOI 10.1016/j.toxrep.2018.11.009
Ключевые слова (''Своб.индексиров.''): atherosclerosis--cell morphology--intravascular stenting--macrophages--monocytes--polyhydroxyalkanoates
Аннотация: The morphotypes of human macrophages (MPh) were studied in the culture on nano-structured biopolymer substrates, made from polyhydroxyalcanoates (PHAs) of five various monomer compositions, followed by the solvent evaporation. Its surface relief, which was further in direct contact with human cells in vitro, was analyzed by atomic force microscopy (AFM) and scanning electron microscopy (SEM). It was shown, that the features of the micro/nano relief depend on the monomeric composition of the polymer substrates. Monocytes (MN) of patients with atherosclerosis and cardiac ischemia, undergoing stenting and conventional anti-atherosclerotic therapy, were harvested prior and after stenting. MN were isolated and cultured, with the transformation into MPh in direct contact with biopolymer culture substrates with different monomer composition and nano-reliefs, and transformed into MPh, in comparison with the same process on standard culture plastic. Sub-populations of cells with characteristic morphology in each phenotypic class were described, and their quantitative ratios for each sample of polymers were counted as an intermediate result in the development of “smart” material for cardiovascular devices. The results obtained allow us to assume, that the processes of MPh differentiation and polarization in vitro depend not only on the features of the micro/nano relief of biopolymer substrates, but also on the initial state of MN in vivo and general response of patients. © 2018 The Authors
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Gulnov D. V., Nemtseva E. V., Gerasimova M. A., Kratasyuk V. A.
Заглавие : Structural transitions of photobacterium leiognathi luciferase determined by various optical techniques under urea-induced equilibrium denaturation
Место публикации : Tsitologiya: Sankt Peterburg, 2018. - Vol. 60, Is. 10. - С. 847-850. - ISSN 00413771 (ISSN) , DOI 10.7868/S0041377118100181
Ключевые слова (''Своб.индексиров.''): bacterial luciferase--circular dichroism--denaturation--protein fluorescence lifetime--protein intermediate states
Аннотация: The study was aimed to identification of conformational transitions of Photobacterium leiognathi luciferase during equilibrium denaturation with urea using several optical techniques, including circular dichroism, stationary and time-resolved fluorescence. Gravity center and intensity ratio I 325 /I 390 for the fluorescence spectra, molar ellipticity at 222 nm and fluorescence lifetimes of the protein were analyzed. Investigated parameters revealed two possible transitions for P. leiognathi luciferase with the midpoints at 0.5—1.1 and 3.5—4.2 M of urea. Changes in the values of two lifetime components, characterizing the luciferase fluorescence reflect both transitions, while steady-state fluorescence parameters (gravity center of spectrum and I 325 /I 390 ratio) reveal only the second one. Far-UV circular dichroism spectra displayed transitions at 4.2 M of urea for P. leiognathi luciferase. Conformational transitions characteristics of P. leiognathi luciferase and previously studied Vibrio harveyi luciferase (Inlow et al., 2002) were compared. Since, according to the published data for V. harveyi, midpoint of the second conformational transition is at about 2.5 M of urea, the results indicate more stable secondary structure for the P. leiognathi luciferase under study. The possible reasons for observed differences in fluorescent characteristics of two types of luciferases during denaturation can be connected to the microenvironment variation of the tryptophan residues in their tertiary structure, namely in position 131 and 277 in a-subunit. © 2018 Sankt Peterburg. All rights reserved.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Bolsunovsky A., Melgunov M.
Заглавие : Radioactive particles in the Yenisei River floodplain (Russia): Characterization, leaching and potential effects in the environment
Место публикации : J. Environ. Radioact.: Elsevier Ltd, 2019. - Vol. 208-209. - ISSN 0265931X (ISSN) , DOI 10.1016/j.jenvrad.2019.105991
Аннотация: The operation of the Mining-and-Chemical Combine (MCC), the largest producer of weapons-grade plutonium in Russia, has resulted in radioactive contamination of the Yenisei River floodplain. Investigations carried out in Novosibirsk and Krasnoyarsk institutes have shown that the floodplain of the Yenisei downstream of the MCC is contaminated by radioactive particles (RP) of various types and activities. Analytical characterization of the RP showed that most of them were fuel particles, which were carried into the Yenisei after incidents at the MCC reactors. The plutonium and caesium isotope ratios (238Pu/239,240Pu; 137Cs/134Cs) vary substantially between the particles, indicating different source terms and time intervals when the RP were formed. In addition to fuel RP, there were particles that contained activation radionuclides. The experiment on dissolution of RP using the model solution (the simulated stomach fluid) showed different cumulative extractions of radionuclides from the particles: 60Co and 137Cs extractions were the lowest, the extracted fractions of europium and americium isotopes were the largest, and plutonium occupied an intermediate position. High concentrations of radionuclides in RP are sources of exposure of organisms in aquatic and terrestrial ecosystems to low radiation doses. The plant bioassays of the effects of ?-radiation from RP showed the effect of low doses of ?-radiation on growth parameters of aquatic plant Elodea canadensis growing in the Yenisei River floodplain. The presence of RP from different sources in the Yenisei River floodplain makes this region a unique site for studying environmental effects of the particles. © 2019 Elsevier Ltd
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Lisitsa A. E., Sukovatyi L. A., Bartsev S. I., Deeva A. A., Kratasyuk V. A., Nemtseva E. V.
Заглавие : Mechanisms of viscous media effects on elementary steps of bacterial bioluminescent reaction
Место публикации : Int. J. Mol. Sci.: MDPI AG, 2021. - Vol. 22, Is. 16. - Ст.8827. - ISSN 16616596 (ISSN), DOI 10.3390/ijms22168827
Аннотация: Enzymes activity in a cell is determined by many factors, among which viscosity of the microenvironment plays a significant role. Various cosolvents can imitate intracellular conditions in vitro, allowing to reduce a combination of different regulatory effects. The aim of the study was to analyze the media viscosity effects on the rate constants of the separate stages of the bacterial biolumi-nescent reaction. Non-steady-state reaction kinetics in glycerol and sucrose solutions was measured by stopped-flow technique and analyzed with a mathematical model developed in accordance with the sequence of reaction stages. Molecular dynamics methods were applied to reveal the effects of cosolvents on luciferase structure. We observed both in glycerol and in sucrose media that the stages of luciferase binding with flavin and aldehyde, in contrast to oxygen, are diffusion-limited. More-over, unlike glycerol, sucrose solutions enhanced the rate of an electronically excited intermediate formation. The MD simulations showed that, in comparison with sucrose, glycerol molecules could penetrate the active-site gorge, but sucrose solutions caused a conformational change of functionally important ?Glu175 of luciferase. Therefore, both cosolvents induce diffusion limitation of substrates binding. However, in sucrose media, increasing enzyme catalytic constant neutralizes viscosity effects. The activating effect of sucrose can be attributed to its exclusion from the catalytic gorge of luciferase and promotion of the formation of the active site structure favorable for the catalysis. © 2021 by the authors. Licensee MDPI, Basel, Switzerland.
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Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Lisitsa, Albert E., Sukovatyi, Lev A., Bartsev, Sergey, I, Deeva, Anna A., Kratasyuk, Valentina A., Nemtseva, Elena, V
Заглавие : Mechanisms of Viscous Media Effects on Elementary Steps of Bacterial Bioluminescent Reaction
Колич.характеристики :19 с
Коллективы : Ministry of Science and Higher Education of the Russian Federation [FSRZ-2020-0006]; RFBR, Krasnoyarsk Territory and Krasnoyarsk Regional Fund of Science [20-44-243002]; RFBRRussian Foundation for Basic Research (RFBR) [20-34-90118]
Место публикации : Int. J. Mol. Sci.: MDPI, 2021. - Vol. 22, Is. 16. - Ст.8827. - ISSN 1422-0067(eISSN), DOI 10.3390/ijms22168827
Примечания : Cited References:59. - The research was funded by the Ministry of Science and Higher Education of the Russian Federation (projects No. FSRZ-2020-0006); by RFBR, Krasnoyarsk Territory and Krasnoyarsk Regional Fund of Science (project No. 20-44-243002); by RFBR according to the research project No. 20-34-90118.
Предметные рубрики: FLAVIN INTERMEDIATE
REDUCED FLAVIN
RATE CONSTANTS
LUCIFERASE
Аннотация: Enzymes activity in a cell is determined by many factors, among which viscosity of the microenvironment plays a significant role. Various cosolvents can imitate intracellular conditions in vitro, allowing to reduce a combination of different regulatory effects. The aim of the study was to analyze the media viscosity effects on the rate constants of the separate stages of the bacterial bioluminescent reaction. Non-steady-state reaction kinetics in glycerol and sucrose solutions was measured by stopped-flow technique and analyzed with a mathematical model developed in accordance with the sequence of reaction stages. Molecular dynamics methods were applied to reveal the effects of cosolvents on luciferase structure. We observed both in glycerol and in sucrose media that the stages of luciferase binding with flavin and aldehyde, in contrast to oxygen, are diffusion-limited. Moreover, unlike glycerol, sucrose solutions enhanced the rate of an electronically excited intermediate formation. The MD simulations showed that, in comparison with sucrose, glycerol molecules could penetrate the active-site gorge, but sucrose solutions caused a conformational change of functionally important alpha Glu175 of luciferase. Therefore, both cosolvents induce diffusion limitation of substrates binding. However, in sucrose media, increasing enzyme catalytic constant neutralizes viscosity effects. The activating effect of sucrose can be attributed to its exclusion from the catalytic gorge of luciferase and promotion of the formation of the active site structure favorable for the catalysis.
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10.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Burakova, Ludmila P., Lyakhovich, Maria S., Mineev, Konstantin S., Petushkov, Valentin N., Zagitova, Renata, I, Tsarkova, Aleksandra S., Kovalchuk, Sergey, I, Yampolsky, Ilia, V, Vysotski, Eugene S., Kaskova, Zinaida M.
Заглавие : Unexpected Coelenterazine Degradation Products of Beroe abyssicola Photoprotein Photoinactivation
Колич.характеристики :4 с
Коллективы : Russian Foundation for Basic ResearchRussian Foundation for Basic Research (RFBR) [20-04-00085]; Russian Foundation for Basic Research, Krasnoyarsk Territory [20-44-242003]; Krasnoyarsk Regional Fund of Science in part of purification and spectral characterization of native compounds; Russian Science FoundationRussian Science Foundation (RSF) [17-1401169p]; Russian FederationRussian Federation [LS-2605.2020.4]
Место публикации : Org. Lett.: AMER CHEMICAL SOC, 2021. - Vol. 23, Is. 17. - С. 6846-6849. - ISSN 1523-7060, DOI 10.1021/acs.orglett.1c02410. - ISSN 1523-7052(eISSN)
Примечания : Cited References:20. - This work was supported by grant 20-04-00085 of the Russian Foundation for Basic Research, grant 20-44-242003 of the Russian Foundation for Basic Research, Krasnoyarsk Territory, and Krasnoyarsk Regional Fund of Science in part of purification and spectral characterization of native compounds, grant 17-1401169p of the Russian Science Foundation, and the President of Russian Federation grant for Leading Scientific Schools LS-2605.2020.4 in part of structural elucidation of native products and organic synthesis. We thank Konstantin Antonov (IBCh RAS) and Igor Ivanov (IBCh RAS) for the registration of HRMS spectra.
Предметные рубрики: CRYSTAL-STRUCTURE
BIOLUMINESCENCE
OBELIN
RESIDUES
BINDING
Аннотация: Ca2+-regulated photoproteins of ctenophores lose bioluminescence activity when exposed to visible light. Little is known about the chemical nature of chromophore photo-inactivation. Using a total synthesis strategy, we have established the structures of two unusual coelenterazine products, isolated from recombinant berovin of the ctenophore Beroe abyssicola, which are Z/E isomers. We propose that during light irradiation, these derivatives are formed from 2-hydroperoxycoelenterazine via the intermediate 8a-peroxide by a mechanism reminiscent of that previously described for the auto-oxidation of green-fluorescent-protein-like chromophores.
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11.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Makhutova, Olesia N., Stoyanov, Kirill N.
Заглавие : Fatty acid content and composition in tissues of Baikal grayling (Thymallus baicalensis), with a special focus on DHA synthesis
Колич.характеристики :19 с
Коллективы : Russian Foundation for Basic Research (RFBR)Russian Foundation for Basic Research (RFBR) [20-04-00594]; Russian FederationRussian Federation [51.1.1]; Ministry of Science and Higher Education of the Russian Federation [FSRZ-2020-0006]
Место публикации : Aquac. Int.: SPRINGER, 2021. - Article in press. - ISSN 0967-6120, DOI 10.1007/s10499-021-00755-w. - ISSN 1573-143X(eISSN)
Примечания : Cited References:75. - The research was funded by a grant from the Russian Foundation for Basic Research (RFBR) N 20-04-00594, by the state assignment within the framework of the Basic Research Program of the Russian Federation (topic no. 51.1.1) and the state assignment of the Ministry of Science and Higher Education of the Russian Federation to Siberian Federal University in 2020 (Project no. FSRZ-2020-0006 "Biologically active substances in environmental, biotechnological and medical systems").
Предметные рубрики: COD GADUS-MORHUA
DOCOSAHEXAENOIC ACID
SEASONAL DYNAMICS
FISH
Аннотация: Long-chain polyunsaturated fatty acids of n-3 family (n-3 LC PUFAs) are physiologically essential compounds required for normal growth and development of animals, including humans. The ability of fish species to synthesize n-3 LC PUFAs varies significantly across different trophic levels. We have studied fatty acid (FA) content (mg/g of wet weight) and level (% of total FAs) in the brain, liver, heart, intestine, female and male gonads, muscle, and adipose tissues of commercially important wild freshwater Baikal grayling. Additionally, FA content and level of Baikal grayling juveniles have been studied. In all tissues of Baikal grayling, some LC PUFAs, namely, 24:5n-3 and 24:6n-3 (C24 PUFAs), have been found. These FAs are the intermediate products in the synthesis of docosahexaenoic acid (DHA, 22:6n-3) by the Sprecher pathway. The levels of C24 PUFAs in tissues differed significantly: the highest levels of C24 PUFAs were found in adipose tissue and the lowest values in the gonads of females, liver, brain, and head of juveniles. According to the dynamics of DHA and C24 PUFAs, the maximum rate of DHA synthesis is achieved in brain of Baikal grayling, while the lowest rate of DHA synthesis probably occurs in adipose tissue. Although all studied tissues had differences in the number of FAs and their levels, 16:0, 18:1n-9, 16:1n-7, 20:5n-3, and DHA dominated. Male gonads contained an extremely high level of furan FAs - presumably beneficial substances for human health. Additionally, the nutritional value of the tissues of Baikal grayling as a source of n-3 LC PUFAs for humans has been estimated.
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12.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Tomilin, Felix N., Rogova, Anastasia V., Burakova, Ludmila P., Tchaikovskaya, Olga N., Avramov, Pavel V., Fedorov, Dmitri G., Vysotski, Eugene S.
Заглавие : Unusual shift in the visible absorption spectrum of an active ctenophore photoprotein elucidated by time-dependent density functional theory
Колич.характеристики :12 с
Коллективы : RFBRRussian Foundation for Basic Research (RFBR) [20-04-00085]; NSFCNational Natural Science Foundation of China (NSFC) [19-54-53004]; Russian Ministry of Science and EducationMinistry of Education and Science, Russian Federation [0721-2020-0033]
Место публикации : Photochem. Photobiol. Sci.: SPRINGERNATURE, 2021. - Vol. 20, Is. 4. - С. 559-570. - ISSN 1474-905X, DOI 10.1007/s43630-021-00039-5. - ISSN 1474-9092(eISSN)
Примечания : Cited References:61. - The ab initio quantum chemical calculations were funded by RFBR and NSFC as the research project No. 19-54-53004 and RFBR research project No. 20-04-00085. The development of structural atomistic model of berovin without calcium ions generated by the I-TASSER server was funded by project 0721-2020-0033 of the Russian Ministry of Science and Education.
Аннотация: Active hydromedusan and ctenophore Ca2+-regulated photoproteins form complexes consisting of apoprotein and strongly non-covalently bound 2-hydroperoxycoelenterazine (an oxygenated intermediate of coelenterazine). Whereas the absorption maximum of hydromedusan photoproteins is at 460-470 nm, ctenophore photoproteins absorb at 437 nm. Finding out a physical reason for this blue shift is the main objective of this work, and, to achieve it, the whole structure of the protein-substrate complex was optimized using a linear scaling quantum-mechanical method. Electronic excitations pertinent to the spectra of the 2-hydroperoxy adduct of coelenterazine were simulated with time-dependent density functional theory. The dihedral angle of 60 degrees of the 6-(p-hydroxy)-phenyl group relative to the imidazopyrazinone core of 2-hydroperoxycoelenterazine molecule was found to be the key factor determining the absorption of ctenophore photoproteins at 437 nm. The residues relevant to binding of the substrate and its adopting the particular rotation were also identified.
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13.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Tomilin F. N., Rogova A. V., Burakova L. P., Tchaikovskaya O. N., Avramov P. V., Fedorov D. G., Vysotski E. S.
Заглавие : Unusual shift in the visible absorption spectrum of an active ctenophore photoprotein elucidated by time-dependent density functional theory
Место публикации : Photochem. Photobiol. Sci.: Springer Nature, 2021. - Vol. 20, Is. 4. - С. 559-570. - ISSN 1474905X (ISSN), DOI 10.1007/s43630-021-00039-5
Аннотация: Active hydromedusan and ctenophore Ca2+-regulated photoproteins form complexes consisting of apoprotein and strongly non-covalently bound 2-hydroperoxycoelenterazine (an oxygenated intermediate of coelenterazine). Whereas the absorption maximum of hydromedusan photoproteins is at 460–470 nm, ctenophore photoproteins absorb at 437 nm. Finding out a physical reason for this blue shift is the main objective of this work, and, to achieve it, the whole structure of the protein–substrate complex was optimized using a linear scaling quantum–mechanical method. Electronic excitations pertinent to the spectra of the 2-hydroperoxy adduct of coelenterazine were simulated with time-dependent density functional theory. The dihedral angle of 60° of the 6-(p-hydroxy)-phenyl group relative to the imidazopyrazinone core of 2-hydroperoxycoelenterazine molecule was found to be the key factor determining the absorption of ctenophore photoproteins at 437 nm. The residues relevant to binding of the substrate and its adopting the particular rotation were also identified. © 2021, The Author(s), under exclusive licence to European Photochemistry Association,European Society for Photobiology.
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14.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Makhutova O. N., Stoyanov K. N.
Заглавие : Fatty acid content and composition in tissues of Baikal grayling (Thymallus baicalensis), with a special focus on DHA synthesis
Место публикации : Aquac. Int.: Springer Science and Business Media Deutschland GmbH, 2021. - Article in press. - ISSN 09676120 (ISSN), DOI 10.1007/s10499-021-00755-w
Аннотация: Long-chain polyunsaturated fatty acids of n-3 family (n-3 LC PUFAs) are physiologically essential compounds required for normal growth and development of animals, including humans. The ability of fish species to synthesize n-3 LC PUFAs varies significantly across different trophic levels. We have studied fatty acid (FA) content (mg/g of wet weight) and level (% of total FAs) in the brain, liver, heart, intestine, female and male gonads, muscle, and adipose tissues of commercially important wild freshwater Baikal grayling. Additionally, FA content and level of Baikal grayling juveniles have been studied. In all tissues of Baikal grayling, some LC PUFAs, namely, 24:5n-3 and 24:6n-3 (C24 PUFAs), have been found. These FAs are the intermediate products in the synthesis of docosahexaenoic acid (DHA, 22:6n-3) by the Sprecher pathway. The levels of C24 PUFAs in tissues differed significantly: the highest levels of C24 PUFAs were found in adipose tissue and the lowest values in the gonads of females, liver, brain, and head of juveniles. According to the dynamics of DHA and C24 PUFAs, the maximum rate of DHA synthesis is achieved in brain of Baikal grayling, while the lowest rate of DHA synthesis probably occurs in adipose tissue. Although all studied tissues had differences in the number of FAs and their levels, 16:0, 18:1n-9, 16:1n-7, 20:5n-3, and DHA dominated. Male gonads contained an extremely high level of furan FAs — presumably beneficial substances for human health. Additionally, the nutritional value of the tissues of Baikal grayling as a source of n-3 LC PUFAs for humans has been estimated. © 2021, The Author(s), under exclusive licence to Springer Nature Switzerland AG.
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15.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Nemtseva, Elena V., Lashchuk, Olesya O., Gerasimova, Marina A., Melnik, Tatiana N., Nagibina, Galina S., Melnik, Bogdan S.
Заглавие : Fluorescence lifetime components reveal kinetic intermediate states upon equilibrium denaturation of carbonic anhydrase II
Колич.характеристики :9 с
Коллективы : Ministry for Science and Education of the Russian Federation [6.7734.2017/BCH]; Russian Science Foundation [N14-24-00157]
Место публикации : Methods Appl. Fluoresc.: IOP PUBLISHING LTD, 2018. - Vol. 6, Is. 1. - Ст.015006. - ISSN 2050-6120, DOI 10.1088/2050-6120/aa994a
Примечания : Cited References:28. - The study of time-resolved protein fluorescence was supported by the Ministry for Science and Education of the Russian Federation (project 6.7734.2017/BCH). Kinetic and genetic engineering studies of carbonic anhydrase II were supported by grant N14-24-00157 from the Russian Science Foundation.
Предметные рубрики: PROTEIN FLUORESCENCE
TRYPTOPHAN PROTEINS
RESIDUES
STABILITY
Ключевые слова (''Своб.индексиров.''): time-resolved fluorescence spectroscopy--carbonic anhydrase ii--protein--intermediate states--comparison of kinetic and equilibrium experiments--protein fluorescence lifetime
Аннотация: In most cases, intermediate states of multistage folding proteins are not 'visible' under equilibrium conditions but are revealed in kinetic experiments. Time-resolved fluorescence spectroscopy was used in equilibrium denaturation studies. The technique allows for detecting changes in the conformation and environment of tryptophan residues in different structural elements of carbonic anhydrase II which in its turn has made it possible to study the intermediate states of carbonic anhydrase II under equilibrium conditions. The results of equilibrium and kinetic experiments using wild-type bovine carbonic anhydrase II and its mutant form with the substitution of leucine for alanine at position 139 (L139A) were compared. The obtained lifetime components of intrinsic tryptophan fluorescence allowed for revealing that, the same as in kinetic experiments, under equilibrium conditions the unfolding of carbonic anhydrase II ensues through formation of intermediate states.
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16.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Stepanyuk G.A., Liu Z.J., Markova S.S., Frank L.A., Lee J..., Vysotski E.S., Wang B.C.
Заглавие : Crystal structure of coelenterazine-binding protein from Renilla muelleri at 1.7 angstrom: Why it is not a calcium-regulated photoprotein
Колич.характеристики :6 с
Место публикации : Photochem. Photobiol. Sci.: ROYAL SOC CHEMISTRY, 2008. - Vol. 7, Is. 4. - С. 442-447. - ISSN 1474-905X, DOI 10.1039/b716535h
Примечания : Cited References: 49
Предметные рубрики: HYDROID OBELIA-GENICULATA
AMINO-ACID-SEQUENCE
CA2+-REGULATED PHOTOPROTEINS
RENIFORMIS LUCIFERASE
ENERGY-TRANSFER
CDNA CLONING
BIOLUMINESCENCE
AEQUORIN
PURIFICATION
EXPRESSION
Аннотация: Bioluminescence in the sea pansy Renilla involves two distinct proteins, a Ca2+-triggered coelenterazine-binding protein (CBP), and Renilla luciferase. CBP contains one tightly bound coelenterazine molecule, which becomes available for reaction with luciferase and O-2 only subsequent to Ca2+ binding. CBP belongs to the EF-hand superfamily of Ca2+-binding proteins and contains three "EF-hand" Ca2+-binding sites. The overall spatial structure of recombinant selenomethionine-labeled CBP determined at 1.7 angstrom, is found to approximate the protein scaffold characteristic of the class of Ca2+-regulated photoproteins. Photoproteins however, catalyze molecular oxygen addition to coelenterazine producing a 2-hydroperoxycoelenterazine intermediate, which is stabilized within the binding cavity in the absence of Ca2+. Addition of Ca2+ triggers the bioluminescence reaction. However in CBP this first step of oxygen addition is not allowed. The different amino acid environments and hydrogen bond interactions within the binding cavity are proposed to account for the different properties of the two classes of proteins.
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17.

Вид документа : Статья из сборника (однотомник)
Шифр издания :
Автор(ы) : Eremeeva E.V., Markova S.V., Frank L.A., Vysotski E.S.
Заглавие : THE MAIN FUNCTION OF HIS175, TRP179, AND TYR190 RESIDUES OF THE OBELIN BINDING SITE IS TO STABILIZE THE HYDROPEROXYCOELENTERAZINE INTERMEDIATE
Колич.характеристики :4 с
Место публикации : BIOLUMINESCENCE AND CHEMILUMINESCENCE: CHEMISTRY, BIOLOGY AND APPLICATIONS: WORLD SCIENTIFIC PUBL CO PTE LTD, 2007. - 14th International Symposium on Bioluminescence and Chemiluminescence (OCT 15-19, 2006, San Diego, CA). - С. 7-10. - ISBN 978-981-270-816-8, DOI 10.1142/9789812770196_0002
Примечания : Cited References: 7
Предметные рубрики: PHOTOPROTEIN OBELIN
BIOLUMINESCENCE
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18.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Eremeeva E.V., Markova S.V., Frank L.A., Lee J..., Vysotski E.S.
Заглавие : The main function of His175, Trp179, and Tyr190 residues of the obelin-binding site is to stabilize the hydroperoxycoelenterazine intermediate
Колич.характеристики :2 с
Место публикации : Luminescence: WILEY-BLACKWELL, 2006. - Vol. 21, Is. 5. - С. 275-276. - ISSN 1522-7235
Примечания : Cited References: 0
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19.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Malikova N.P., Visser N.V., van Hoek A..., Skakun V.V., Vysotski E.S., Lee J..., Visser AJWG
Заглавие : Green-Fluorescent Protein from the Bioluminescent Jellyfish Clytia gregaria Is an Obligate Dimer and Does Not Form a Stable Complex with the Ca2+-Discharged Photoprotein Clytin
Колич.характеристики :10 с
Место публикации : Biochemistry: AMER CHEMICAL SOC, 2011. - Vol. 50, Is. 20. - С. 4232-4241. - ISSN 0006-2960, DOI 10.1021/bi101671p
Примечания : Cited References: 50. - This work was supported by NATO Collaborative Linkage Grant 979229, Grants SB RAS No. 2 and RFBR 08-04-92209, 09-04-12022, and 09-04-00172, the MCB program of the Russian Academy of Sciences, and Bayer AG.
Предметные рубрики: VIBRIO-FISCHERI Y1
ENERGY-TRANSFER
CORRELATION SPECTROSCOPY
BACTERIAL LUCIFERASE
REFRACTIVE-INDEX
PHOTOBACTERIUM-LEIOGNATHI
POLARIZED FLUORESCENCE
EXCITATION TRANSFER
RECOMBINANT OBELIN
LUMAZINE PROTEIN
Аннотация: Green-fluorescent protein (GFP) is the origin of the green bioluminescence color exhibited by several marine hydrozoans and anthozoans. The mechanism is believed to be Forster resonance energy transfer (FRET) within a luciferase GFP or photoprotein-GFP complex. As the effect is found in vitro at micromolar concentrations, for FRET to occur this complex must have an affinity in the micromolar range. We present here a fluorescence dynamics investigation of the recombinant bioluminescence proteins from the jellyfish Clytia gregaria, the photoprotein clytin in its Ca2+-discharged form that is highly fluorescent (lambda(max) = 506 nm) and its GFP (cgreGFP; lambda(max) = 500 nm). Ca2+-discharged clytin shows a predominant fluorescence lifetime of 5.7 ns, which is assigned to the final emitting state of the bioluminescence reaction product, coelenteramide anion, and a fluorescence anisotropy decay or rotational correlation time of 12 ns (20 degrees C), consistent with tight binding and rotation with the whole protein. A 34 ns correlation time combined with a translational diffusion constant and molecular brightness from fluorescence fluctuation spectroscopy all confirm that cgreGFP is an obligate dimer down to nanomolar concentrations. Within the dimer, the two chromophores have a coupled excited-state transition yielding fluorescence depolarization via FRET with a transfer correlation time of 0.5 ns. The 34 ns time of cgreGFP showed no change upon addition of a 1000-fold excess of Ca2+-discharged clytin, indicating no stable complexation below 0.2 mM. It is proposed that any bioluminescence FRET complex with micromolar affinity must be one formed transiently by the cgreGFP dimer with a short-lived (millisecond) intermediate in the clytin reaction pathway.
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20.

Вид документа : Статья из журнала
Шифр издания :
Автор(ы) : Volova T.G., Barashkov V.A.
Заглавие : Characteristics of proteins synthesized by hydrogen-oxidizing microorganisms
Место публикации : Applied Biochemistry and Microbiology. - 2010. - Vol. 46, Is. 6. - С. 574-579. - ISSN 00036838 (ISSN) , DOI 10.1134/S0003683810060037
Ключевые слова (''Своб.индексиров.''): animalia--bacteria (microorganisms)--cupriavidus necator--pseudomonas carboxydohydrogena
Аннотация: The study was conducted to determine the biological value of proteins synthesized by hydrogen-oxidizing microorganisms-the hydrogen bacteria Alcaligenes eutrophus Z1 and Ralstonia eutropha B5786 and the CO-resistant strain of carboxydobacterium Seliberia carboxydohydrogena Z1062. Based on a number of significant parameters characterizing the biological value of a product, the proteins of hydrogen-oxidizing microorganisms have been found to occupy an intermediate position between traditional animal and plant proteins. The high total protein in biomass of these microorganisms, their complete amino acid content, and availability to proteolytic enzymes allow for us to consider these microorganisms as potential protein producers. В© 2010 Pleiades Publishing, Ltd.
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