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N-extended photoprotein obelin to competitively detect small protein tumor markers / E. E. Bashmakova, N. S. Panamarev, A. N. Kudryavtsev, L. A. Frank // Biochem. Biophys. Res. Commun. - 2022. - Vol. 598. - P69-73, DOI 10.1016/j.bbrc.2022.02.011. - Cited References:15. - The work was partially supported by a grant of the President of the Russian Federation for young scientists, the candidates of sciences (project MK-772.2020.4, study of a hybrid protein with melanoma-inhibiting activity) and Government of Krasnoyarsk Territory, Krasnoyarsk Regional Science Foundation (project No 2021012006966, study of a hybrid with protein survivin). . - ISSN 0006-291X. - ISSN 1090-2104

РУБ Biochemistry & Molecular Biology + Biophysics
Рубрики:
MELANOMA INHIBITORY-ACTIVITY
SURVIVIN
Кл.слова (ненормированные):
Photoprotein obelin -- Genetic fusion -- Tumor marker -- Competitive assay
Аннотация: Two variants of Ca2+-regulated photoprotein obelin, extended from the N-terminus with small tumor markers-melanoma inhibitory activity protein (MIA) and survivin, one of the protein inhibitors of apoptosis, were designed, obtained and studied. Both domains in the obtained hybrid proteins exhibit the properties of the initial molecules: the main features of Ca2+-triggered bioluminescence are close to those of obelin, and the tumor markers' domains are recognized and bound by the corresponding antibodies. The obtained hybrids compete with the corresponding tumor markers for binding with antibodies, immobilized on the surface and their use has been shown to be promising as bioluminescent labels in a one-stage solid-phase competitive immunoassay. (c) 2022 Published by Elsevier Inc.

WOS
Держатели документа:
Fed Res Ctr Krasnoyarsk Sci Ctr SB RAS, Inst Biophys SB RAS, Krasnoyarsk 660036, Russia.
Siberian Fed Univ, Krasnoyarsk 660041, Russia.

Доп.точки доступа:
Bashmakova, Eugenia E.; Panamarev, Nikita S.; Kudryavtsev, Alexander N.; Frank, Ludmila A.; Kudryavtsev, Alexander; Russian Federation for young scientists [MK-772.2020.4]; Government of Krasnoyarsk Territory, Krasnoyarsk Regional Science Foundation [2021012006966]

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Unexpected Coelenterazine Degradation Products of Beroe abyssicola Photoprotein Photoinactivation / L. P. Burakova, M. S. Lyakhovich, K. S. Mineev [et al.] // Org. Lett. - 2021. - Vol. 23, Is. 17. - P6846-6849, DOI 10.1021/acs.orglett.1c02410. - 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. . - ISSN 1523-7060. - ISSN 1523-7052

РУБ Chemistry, Organic
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.

WOS
Держатели документа:
Fed Res Ctr Krasnoyarsk Sci Ctr SB RAS, Inst Biophys SB RAS, Photo Biol Lab, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Shemyakin Ovchinnikov Inst Bioorgan Chem, Moscow 117997, Russia.
Moscow Inst Phys & Technol, Dolgoprudnyi 141701, Russia.
Pirogov Russian Natl Res Med Univ, Moscow 117997, Russia.

Доп.точки доступа:
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.; Mineev, Konstantin; Tsarkova, Aleksandra; Vysotski, Eugene; Kaskova, Zinaida; Burakova, Lyudmila; 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]

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Bioluminescent enzyme inhibition-based assay for the prediction of toxicity of pollutants in urban soils / E. M. Kolosova, O. S. Sutormin, L. V. Stepanova [et al.] // Environ. Technol. Innov. - 2021. - Vol. 24. - Ст. 101842, DOI 10.1016/j.eti.2021.101842 . - ISSN 2352-1864
Кл.слова (ненормированные):
Bioassay -- Bioluminescence -- Industrial contamination -- Soil pollution -- Urbostratozems -- Arsenic -- Chemical analysis -- Enzyme activity -- Enzyme inhibition -- Fluorine compounds -- Soil surveys -- Soil testing -- Soils -- Toxicity -- Arsenic concentration -- Chemical and biologicals -- Comprehensive information -- Contaminated soils -- Environmental assessment methods -- Enzymatic bioassays -- Luminescent bacteria -- Sample preparation -- Soil pollution
Аннотация: There is a need for rapid simple and informative environmental assessment methods. The present investigation is aimed at assessing the possibility of using the combined enzyme system of luminescent bacteria: NAD(P)H:FMN-oxidoreductase + luciferase (Red + Luc) for predicting the potential toxicity of industrial urbostratozems sampled in the city of Krasnoyarsk. Three groups of urbostratozems polluted with fluorine, arsenic and lead, were tested by the methods of chemical analysis and enzymatic bioassay. Only the assessment of the arsenic-contaminated soil samples showed the dependence between the reduced activity of the enzyme system and the arsenic concentration variations. The results reveal that the sensitivity of the Red + Luc enzyme system to the soil pollutants depends on the properties of the studied soil samples. Moreover, the solubility of lead in the soil samples affects the accuracy of the enzymatic bioassays for soil toxicity testing. The results of the enzymatic bioassay of the fluoride-contaminated soil samples are ambiguous. The obtained data show the relevance of the sample preparation during integral bioassays. In addition, soil properties should be taken into account as well. The current study emphasizes the importance of conducting chemical and biological testing as a combined set to obtain comprehensive information about the anthropogenic load. © 2021 Elsevier B.V.

Scopus
Держатели документа:
Department of Biophysics, Siberian Federal University, Krasnoyarsk, 660041, Russian Federation
Krasnoyarsk Agricultural Research Institute, Federal Research Center ‘Krasnoyarsk Science Center Siberian Branch of the Russian Academy of Sciences’, Krasnoyarsk, 660036, Russian Federation
Department of Aquatic and Terrestrial Ecosystems, Siberian Federal University, Krasnoyarsk, 660041, Russian Federation
Photobiology Laboratory, Institute of Biophysics, Federal Research Center ‘Krasnoyarsk Science Center Siberian Branch of the Russian Academy of Sciences’, Krasnoyarsk, 660036, Russian Federation

Доп.точки доступа:
Kolosova, E. M.; Sutormin, O. S.; Stepanova, L. V.; Shpedt, A. A.; Rimatskaya, N. V.; Sukovataya, I. E.; Kratasyuk, V. A.

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H2O-Bridged Proton-Transfer Channel in Emitter Species Formation in Obelin Bioluminescence / S. -F. Chen, E. S. Vysotski, Y. -J. Liu // J Phys Chem B. - 2021, DOI 10.1021/acs.jpcb.1c03985 . - Article in press. - ISSN 1520-6106
Кл.слова (ненормированные):
Amino acids -- Excited states -- Hydrogen bonds -- Molecular dynamics -- Molecular modeling -- Molecules -- Phosphorescence -- Proton transfer -- Quantum theory -- Fast protons -- Marine organisms -- Photoproteins -- Primary products -- Proton transfer process -- Quantum mechanics/molecular mechanics -- Reaction substrates -- Singlet excited state -- Theoretical calculations -- Transfer channel -- Bioluminescence
Аннотация: Bioluminescence of a number of marine organisms is conditioned by Ca2+-regulated photoprotein (CaRP) with coelenterazine as the reaction substrate. The reaction product, coelenteramide, at the first singlet excited state (S1) is the emitter of CaRP. The S1-state coelenteramide is produced via the decomposition of coelenterazine dioxetanone. Experiments suggested that the neutral S1-coelenteramide is the primary emitter species. This supposition contradicts with theoretical calculations showing that the anionic S1-coelenteramide is a primary product of the decomposition of coelenterazine dioxetanone. In this study, applying molecular dynamic (MD) simulations and the hybrid quantum mechanics/molecular mechanics (QM/MM) method, we investigated a proton-transfer (PT) process taking place in CaRP obelin from Obelia longissima for emitter formation. Our calculations demonstrate a concerted PT process with a water molecule as a bridge between anionic S1-coelenteramide and the nearest histidine residue. The low activation barrier as well as the strong hydrogen-bond network between the proton donor and the proton acceptor suggests a fast PT process comparable with that of the lifetime of excited anionic S1-coelenteramide. The existence of the PT process eliminates the discrepancy between experimental and theoretical studies. The fast PT process at emitter formation can also take place in other CaRPs. © 2021 American Chemical Society.

Scopus
Держатели документа:
School of Chemical and Environmental Engineering, Shanghai Institute of Technology, Shanghai, 201418, China
Photobiology Laboratory, Institute of Biophysics SB RAS, Federal Research Center, Krasnoyarsk Science Center SB RAS, Krasnoyarsk, 660036, Russian Federation
Center for Advanced Materials Research, Advanced Institute of Natural Sciences, Beijing Normal University at Zhuhai, Zhuhai, 519087, China
Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing, 100875, China

Доп.точки доступа:
Chen, S. -F.; Vysotski, E. S.; Liu, Y. -J.

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Enzymatic Biotesting: Scientific Basis and Application / E. N. Esimbekova, I. G. Torgashina, V. P. Kalyabina, V. A. Kratasyuk // Contemp. Probl. Ecol. - 2021. - Vol. 14, Is. 3. - P290-304, DOI 10.1134/S1995425521030069. - Cited By :1 . - ISSN 1995-4255
Кл.слова (ненормированные):
bioluminescence -- biotesting -- environmental monitoring -- enzymatic bioassays -- heavy metals -- pesticides
Аннотация: Abstract: The paper provides a review of the current state of research in the field of biotesting, and the problems of environmental studies and ways to solve them are discussed. The basic principles and examples of using enzymes for detecting toxicants in various environmental samples are considered. Based on an analysis of numerous published data, the advantages and limitations, as well as the prospects for using enzymes for performing biotesting tasks, are assessed. A separate section of the review is devoted to bioluminescent enzymatic bioassays developed by the authors and successfully used for environmental monitoring of water, soil, and air. The necessity of developing a battery of enzymatic bioassays is substantiated. It allows one to have the most complete and accurate information about the degree of pollution of environmental objects. © 2021, Pleiades Publishing, Ltd.

Scopus
Держатели документа:
Siberian Federal University, Krasnoyarsk, 660041, Russian Federation
Institute of Biophysics, Siberian Branch, Russian Academy of Sciences, Krasnoyarsk, 660036, Russian Federation

Доп.точки доступа:
Esimbekova, E. N.; Torgashina, I. G.; Kalyabina, V. P.; Kratasyuk, V. A.

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The Recombinant Luciferase of the Fungus Neonothopanus nambi: Obtaining and Properties / A. Y. Gorokhovatsky, T. V. Chepurnykh, A. S. Shcheglov [et al.] // Doklad. Biochem. Biophys. - 2021. - Vol. 496, Is. 1. - P52-55, DOI 10.1134/S1607672921010051 . - ISSN 1607-6729
Кл.слова (ненормированные):
bioluminescence -- heterologous expression -- luciferase -- Neonothopanus nambi -- nnLuz -- Pichia pastoris
Аннотация: Abstract: A key component of the recently described bioluminescent system of higher fungi is luciferase, a new class of proteins. The properties of fungal luciferase and their relationship with its structure are interesting both for improving autoluminescent systems already created on its basis and for creating new ones. Therefore, it is extremely important to understand the spatial structure of this protein. We have performed heterologous expression and purification of Neonothopanus nambi luciferase, obtained a protein suitable for subsequent crystallization, and also determined some biochemical properties of the recombinant luciferase. © 2021, The Author(s),.

Scopus
Держатели документа:
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, Russian Federation
Institute of Biophysics, Federal Research Center “Krasnoyarsk Scientific Center of the Siberian Branch of the Russian Academy of Sciences”, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Gorokhovatsky, A. Y.; Chepurnykh, T. V.; Shcheglov, A. S.; Mokrushina, Y. A.; Baranova, M. N.; Goncharuk, S. A.; Purtov, K. V.; Petushkov, V. N.; Rodionova, N. S.; Yampolsky, I. V.

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Enzymatic Biotesting: Scientific Basis and Application / E. N. Esimbekova, I. G. Torgashina, V. P. Kalyabina, V. A. Kratasyuk // Contemp. Probl. Ecol. - 2021. - Vol. 14, Is. 3. - P290-304, DOI 10.1134/S1995425521030069. - Cited References:128. - This study was carried out with financial support from the Russian Foundation for Basic Research, project no. 19-14-50238\19. . - ISSN 1995-4255. - ISSN 1995-4263

РУБ Ecology
Рубрики:
ORGANOPHOSPHORUS PESTICIDES
CHRONIC EXPOSURE
BIOSENSOR
Кл.слова (ненормированные):
biotesting -- enzymatic bioassays -- bioluminescence -- environmental -- monitoring -- pesticides -- heavy metals
Аннотация: The paper provides a review of the current state of research in the field of biotesting, and the problems of environmental studies and ways to solve them are discussed. The basic principles and examples of using enzymes for detecting toxicants in various environmental samples are considered. Based on an analysis of numerous published data, the advantages and limitations, as well as the prospects for using enzymes for performing biotesting tasks, are assessed. A separate section of the review is devoted to bioluminescent enzymatic bioassays developed by the authors and successfully used for environmental monitoring of water, soil, and air. The necessity of developing a battery of enzymatic bioassays is substantiated. It allows one to have the most complete and accurate information about the degree of pollution of environmental objects.

WOS
Держатели документа:
Siberian Fed Univ, Krasnoyarsk 660041, Russia.
Russian Acad Sci, Inst Biophys, Siberian Branch, Krasnoyarsk 660036, Russia.

Доп.точки доступа:
Esimbekova, E. N.; Torgashina, I. G.; Kalyabina, V. P.; Kratasyuk, V. A.; Russian Foundation for Basic ResearchRussian Foundation for Basic Research (RFBR) [19-14-50238\19]

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Rational Design and Mutagenesis of Fungal Luciferase from Neonothopanus nambi / K. A. Beregovaya, N. M. Myshkina, T. V. Chepurnykh [et al.] // Doklad. Biochem. Biophys. - 2021. - Vol. 496, Is. 1. - P14-17, DOI 10.1134/S1607672921010026 . - ISSN 1607-6729
Кл.слова (ненормированные):
bioluminescence -- luciferase -- Neonothopanus nambi -- rational design
Аннотация: Abstract: The recently described bioluminescent system from fungi has great potential for developing highly efficient tools for biomedical research. Luciferase enzyme is one of the most crucial components of this system. The luciferase from Neonothopanus nambi fungus belongs to the novel still undescribed protein family. The structure data for this protein is almost absent. A detailed study of the N. nambi luciferase properties is necessary for the improvement of analytical methods based on the fungal bioluminescent system. Here we present the positions of key amino acid residues and their effect on enzyme function described using bioinformatic and experimental approaches. These results are useful for further fungal luciferase structure determination. © 2021, Pleiades Publishing, Ltd.

Scopus
Держатели документа:
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences, Moscow, Russian Federation
Institute of Biophysics SB RAS, Federal Research Center “Krasnoyarsk Science Center SB RAS”, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Beregovaya, K. A.; Myshkina, N. M.; Chepurnykh, T. V.; Kotlobay, A. A.; Purtov, K. V.; Petushkov, V. N.; Rodionova, N. S.; Yampolsky, I. V.

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Toxicity and Antioxidant Activity of Fullerenol C-60,C-70 with Low Number of Oxygen Substituents / E. S. Kovel, A. G. Kicheeva, N. G. Vnukova [et al.] // Int. J. Mol. Sci. - 2021. - Vol. 22, Is. 12. - Ст. 6382, DOI 10.3390/ijms22126382. - Cited References:93. - This research was funded by RFBR, N18-29-19003; RFBR, Krasnoyarsk Territory and Krasnoyarsk Regional Fund of Science, N20-44-243001; and partly supported by the Program of the Federal Service for Surveillance on Consumer Rights Protection and HumanWellbeing, Fundamental Study 2020-2025 (Russian Federation). . - ISSN 1422-0067

РУБ Biochemistry & Molecular Biology + Chemistry, Multidisciplinary
Рубрики:
HUMIC SUBSTANCES
DETOXIFICATION PROCESSES
BIOLOGICAL-ACTIVITY
Кл.слова (ненормированные):
fullerenol -- toxicity -- antioxidant activity -- reactive oxygen species -- bioluminescent assay -- hormesis
Аннотация: Fullerene is a nanosized carbon structure with potential drug delivery applications. We studied the bioeffects of a water-soluble fullerene derivative, fullerenol, with 10-12 oxygen groups (F10-12); its structure was characterized by IR and XPS spectroscopy. A bioluminescent enzyme system was used to study toxic and antioxidant effects of F10-12 at the enzymatic level. Antioxidant characteristics of F10-12 were revealed in model solutions of organic and inorganic oxidizers. Low-concentration activation of bioluminescence was validated statistically in oxidizer solutions. Toxic and antioxidant characteristics of F10-12 were compared to those of homologous fullerenols with a higher number of oxygen groups:F24-28 and F40-42. No simple dependency was found between the toxic/antioxidant characteristics and the number of oxygen groups on the fullerene's carbon cage. Lower toxicity and higher antioxidant activity of F24-28 were identified and presumptively attributed to its higher solubility. An active role of reactive oxygen species (ROS) in the bioeffects of F10-12 was demonstrated. Correlations between toxic/antioxidant characteristics of F10-12 and ROS content were evaluated. Toxic and antioxidant effects were related to the decrease in ROS content in the enzyme solutions. Our results reveal a complexity of ROS effects in the enzymatic assay system.

WOS
Держатели документа:
FRC KSC SB RAS, Inst Biophys SB RAS, Krasnoyarsk 660036, Russia.
FRC KSC SB RAS, Inst Phys SB RAS, Krasnoyarsk 660036, Russia.
FRC KSC SB RAS, Krasnoyarsk 660036, Russia.
Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Krasnoyarsk 660041, Russia.

Доп.точки доступа:
Kovel, Ekaterina S.; Kicheeva, Arina G.; Vnukova, Natalia G.; Churilov, Grigory N.; Stepin, Evsei A.; Kudryasheva, Nadezhda S.; Kovel, Ekaterina; RFBRRussian Foundation for Basic Research (RFBR) [N18-29-19003]; RFBR, Krasnoyarsk Territory; Krasnoyarsk Regional Fund of Science [N20-44-243001]; Program of the Federal Service for Surveillance on Consumer Rights Protection and Human Wellbeing, Fundamental Study 2020-2025 (Russian Federation)

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10.

SIMILARITIES AND DIFFERENCES BETWEEN THE CHAETOPTERUS VARIOPEDATUS POLYCHAETE LUCIFERASES DEPENDING ON THE TYPE OF HABITAT / K. V. Purtov, V. N. Petushkov, N. S. Rodionova [et al.] // Bull. Russ. State Med. Univ. - 2021. - Is. 5. - P41-46, DOI 10.24075/vrgmu.2021.049. - Cited References:20 . - ISSN 2500-1094. - ISSN 2542-1204

РУБ Medicine, General & Internal
Рубрики:
BIOLUMINESCENCE
ANNELIDA
SYSTEM
Кл.слова (ненормированные):
bioluminescence -- luciferase -- polychaetes -- Chaetopterus variopedatus -- marine worms
Аннотация: The marine polychaete Chaetopterus variopedatus (Renier) (family Chaetopteridae) is a cosmopolitan species complex, consisting of distinct populations/subspecies. The worms release glowing (460 nm) clouds of mucus when disturbed, and their parapodia often glow brightly. Currently, it is still unclear how exactly the bioluminescence system of these polychaetes functions. It has been previously assumed that the C. variopedatus luciferase may be used for detection of ferroptosis, the recently explored pathway of programmed cell death, resulting from accumulation of the ferrous ions. This study was aimed to extract and characterize the C. variopedatus luciferases, as well as to compare luciferases obtained from C. variopedatus of different populations. When extracting the enzyme responsible for bioluminescence from the frozen samples of Brazilian C. variopedatus using the improved method, two active luciferases, L1 and L2, were obtained. We assumed that one of the listed above luciferases was responsible for luminescence of the mucus and the other luciferase was responsible for luminescence in parapodia, and used the method for the distinct samples of mucus and parapodia of the living Far Eastern C. variopedatus. However, mucus of the latter turned out to be non-glowing. It is shown that luciferase L2 is responsible for luminescence in the parapodia of the C. variopedatus polychaete, since this luciferase has been found in the total biomass of Brazilian polychaetes and parapodia of Far Eastern polychaetes. Luminescence of the Brazilian C. variopedatus mucus is attributed to the functioning of luciferase L1, which is lacking in the mucus of the Far Eastern subspecies. The range of luciferase isoforms in polychaetes C. variopedatus depends on the place of origin.

WOS
Держатели документа:
Russian Acad Sci, Inst Biophys, Krasnoyarsk Sci Ctr, Siberian Branch, Moscow, Russia.
Shemyakin Ovchinnikov Inst Bioorgan Chem, Moscow, Russia.
Pacific State Med Univ, Vladivostok, Russia.
Pirogov Russian Natl Res Med Univ, Moscow, Russia.

Доп.точки доступа:
Purtov, K., V; Petushkov, V. N.; Rodionova, N. S.; Chepurnykh, T., V; Kozhemyako, V. B.; Zagitova, R., I; Shcheglov, A. S.; Ziganshin, R. H.; Tsarkova, A. S.

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11.

Crystal structure of semisynthetic obelin-v / M. D. Larionova, L. J. Wu, E. V. Eremeeva [et al.] // Protein Sci. - 2021, DOI 10.1002/pro.4244. - Cited References:69. - National Natural Science Foundation of China, Grant/Award Number: 32011530076; Russian Foundation for Basic Research, Grant/Award Numbers: 20-04-00085, 20-44-240006, 20-54-53011 . - Article in press. - ISSN 0961-8368. - ISSN 1469-896X

РУБ Biochemistry & Molecular Biology
Рубрики:
CA2+-REGULATED PHOTOPROTEIN OBELIN
PHOTOLUMINESCENCE QUANTUM YIELD
Кл.слова (ненормированные):
analog -- bioluminescence -- coelenterazine -- coelenterazine-v -- obelin -- photoprotein -- protein structure
Аннотация: Coelenterazine-v (CTZ-v), a synthetic derivative with an additional benzyl ring, yields a bright bioluminescence of Renilla luciferase and its "yellow" mutant with a significant shift in the emission spectrum toward longer wavelengths, which makes it the substrate of choice for deep tissue imaging. Although Ca2+-regulated photoproteins activated with CTZ-v also display red-shifted light emission, in contrast to Renilla luciferase their bioluminescence activities are very low, which makes photoproteins activated by CTZ-v unusable for calcium imaging. Here, we report the crystal structure of Ca2+-regulated photoprotein obelin with 2-hydroperoxycoelenterazine-v (obelin-v) at 1.80 angstrom resolution. The structures of obelin-v and obelin bound with native CTZ revealed almost no difference; only the minor rearrangement in hydrogen-bond pattern and slightly increased distances between key active site residues and some atoms of 2-hydroperoxycoelenterazine-v were found. The fluorescence quantum yield (phi(FL)) of obelin bound with coelenteramide-v (0.24) turned out to be even higher than that of obelin with native coelenteramide (0.19). Since both obelins are in effect the enzyme-substrate complexes containing the 2-hydroperoxy adduct of CTZ-v or CTZ, we reasonably assume the chemical reaction mechanisms and the yields of the reaction products (phi(R)) to be similar for both obelins. Based on these findings we suggest that low bioluminescence activity of obelin-v is caused by the low efficiency of generating an electronic excited state (phi(S)). In turn, the low phi(S) value as compared to that of native CTZ might be the result of small changes in the substrate microenvironment in the obelin-v active site.

WOS
Держатели документа:
SB RAS, Fed Res Ctr Krasnoyarsk Sci Ctr SB RAS, Photobiol Lab, Inst Biophys, Krasnoyarsk, Russia.
ShanghaiTech Univ, iHuman Inst, Ren Bldg,393 Middle Huaxia Rd, Shanghai 201210, Peoples R China.
Siberian Fed Univ, Inst Fundamental Biol & Biotechnol, Krasnoyarsk, Russia.
ShanghaiTech Univ, Sch Life Sci & Technol, Shanghai, Peoples R China.

Доп.точки доступа:
Larionova, Marina D.; Wu, Lijie; Eremeeva, Elena, V; Natashin, Pavel, V; Gulnov, Dmitry, V; Nemtseva, Elena, V; Liu, Dongsheng; Liu, Zhi-Jie; Vysotski, Eugene S.; Eremeeva, Elena; Nemtseva, Elena; Vysotski, Eugene; Gulnov, Dmitry; Natashin, Pavel; Larionova, Marina; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [32011530076]; Russian Foundation for Basic ResearchRussian Foundation for Basic Research (RFBR) [20-04-00085, 20-44-240006, 20-54-53011]

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12.

РУБ Biotechnology & Applied Microbiology + Engineering, Environmental
Рубрики:
FLUORIDE
   BIOASSAYS
   POLLUTION
   METALS
   WATER
Кл.слова (ненормированные):
Urbostratozems -- Soil pollution -- Industrial contamination -- Bioassay -- Bioluminescence
Аннотация: There is a need for rapid simple and informative environmental assessment methods. The present investigation is aimed at assessing the possibility of using the combined enzyme system of luminescent bacteria: NAD(P)H:FMN-oxidoreductase + luciferase (Red + Luc) for predicting the potential toxicity of industrial urbostratozems sampled in the city of Krasnoyarsk. Three groups of urbostratozems polluted with fluorine, arsenic and lead, were tested by the methods of chemical analysis and enzymatic bioassay. Only the assessment of the arsenic-contaminated soil samples showed the dependence between the reduced activity of the enzyme system and the arsenic concentration variations. The results reveal that the sensitivity of the Red + Luc enzyme system to the soil pollutants depends on the properties of the studied soil samples. Moreover, the solubility of lead in the soil samples affects the accuracy of the enzymatic bioassays for soil toxicity testing. The results of the enzymatic bioassay of the fluoride-contaminated soil samples are ambiguous. The obtained data show the relevance of the sample preparation during integral bioassays. In addition, soil properties should be taken into account as well. The current study emphasizes the importance of conducting chemical and biological testing as a combined set to obtain comprehensive information about the anthropogenic load. (C) 2021 Elsevier B.V. All rights reserved.

WOS
Держатели документа:
Siberian Fed Univ, Dept Biophys, 79 Svobodny St, Krasnoyarsk 660041, Russia.
Russian Acad Sci, Krasnoyarsk Agr Res Inst, Fed Res Ctr Krasnoyarsk Sci Ctr Siberian Branch, Krasnoyarsk 660036, Russia.
Siberian Fed Univ, Dept Aquat & Terr Ecosyst, Krasnoyarsk 660041, Russia.
Russian Acad Sci, Photobiol Lab, Inst Biophys, Fed Res Ctr `Krasnoyarsk Sci Ctr Siberian Branch, Krasnoyarsk 660036, Russia.

Доп.точки доступа:
Kolosova, Elizaveta M.; Sutormin, Oleg S.; Stepanova, L. V.; Shpedt, Aleksandr A.; Rimatskaya, N. V.; Sukovataya, Irina E.; Kratasyuk, Valentina A.; Russian Foundation for Basic Research, the Government of the Krasnoyarsk Region, Russia; Krasnoyarsk Regional Foundation for Supporting Scientific and Technological Activities, Russia [18-47-240005]; Ministry of Science and Higher Education of the Russian Federation [FSRZ-2020-0006]

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13.

The Recombinant Luciferase of the Fungus Neonothopanus nambi: Obtaining and Properties / A. Y. Gorokhovatsky, T. V. Chepurnykh, A. S. Shcheglov [et al.] // Dokl. Biochem. Biophys. - 2021. - Vol. 496, Is. 1. - P52-55, DOI 10.1134/S1607672921010051. - Cited References:10. - The work was supported by the Russian Science Foundation (project no. 16-14-00052-P). The creation of the luciferase-producing yeast strain nnLuz was supported by the President's grant for state support of the leading scientific schools of the Russian Federation (NSh-2605.2020.4). . - ISSN 1607-6729. - ISSN 1608-3091

РУБ Biochemistry & Molecular Biology + Biophysics

Кл.слова (ненормированные):
bioluminescence -- luciferase -- nnLuz -- Neonothopanus nambi -- heterologous -- expression -- Pichia pastoris
Аннотация: A key component of the recently described bioluminescent system of higher fungi is luciferase, a new class of proteins. The properties of fungal luciferase and their relationship with its structure are interesting both for improving autoluminescent systems already created on its basis and for creating new ones. Therefore, it is extremely important to understand the spatial structure of this protein. We have performed heterologous expression and purification of Neonothopanus nambi luciferase, obtained a protein suitable for subsequent crystallization, and also determined some biochemical properties of the recombinant luciferase.

WOS
Держатели документа:
Russian Acad Sci, Shemyakin Ovchinnikov Inst Bioorgan Chem, Moscow, Russia.
Russian Acad Sci, Inst Biophys, Fed Res Ctr, Krasnoyarsk Sci Ctr,Siberian Branch, Krasnoyarsk, Russia.

Доп.точки доступа:
Gorokhovatsky, A. Yu; Chepurnykh, T., V; Shcheglov, A. S.; Mokrushina, Yu A.; Baranova, M. N.; Goncharuk, S. A.; Purtov, K., V; Petushkov, V. N.; Rodionova, N. S.; Yampolsky, I., V; Russian Science FoundationRussian Science Foundation (RSF) [16-14-00052-P]; President's grant for state support of the leading scientific schools of the Russian Federation [NSh-2605.2020.4]

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14.

Detecting bioluminescence conditions in fruit bodies of two species of Armillaria basidiomycetes / A. P. Puzyr, A. E. Burov, V. S. Bondar // IOP Conference Series: Earth and Environmental Science : IOP Publishing Ltd, 2021. - Vol. 677: 4th International Scientific Conference on Agribusiness, Environmental Engineering and Biotechnologies, AGRITECH-IV 2020 (18 November 2020 through 20 November 2020, ) Conference code: 167873, Is. 5. - Ст. 052081, DOI 10.1088/1755-1315/677/5/052081
Кл.слова (ненормированные):
Bioluminescence -- Biotechnology -- Fungi -- Phosphorescence -- Armillaria -- Armillaria species -- Fruit body -- Possible mechanisms -- Fruits
Аннотация: Mycelia of various Armillaria fungi are bioluminescent while the fruit bodies do not emit light. The presence in fruit bodies of Armillaria species of enzymes involved in the fungal bioluminescence was investigated by treating them with an exogenous analogue of the substrate for the light-emitting reaction. For this, hot extracts from nonluminous fungus Pholiota squarrosa were used. Upon spraying the pristine and transversely cut fruit bodies with the extracts, light emitting regions of different intensity were revealed. This suggests that the fruit bodies of the studied species are nonluminous due to lack of the substrate for light luminescent reaction. The prolonged incubation of the fruit bodies in water elevated the bioluminescence level. A possible mechanism which can explain this phenomenon is discussed. © 2021 Institute of Physics Publishing. All rights reserved.

Scopus
Держатели документа:
Institute of Biophysics SB RAS, Federal Research Center, Krasnoyarsk Science Center SB RAS, Krasnoyarsk, 660036, Russian Federation
Federal Research Center for Information and Computational Technologies, Krasnoyarsk, 660049, Russian Federation

Доп.точки доступа:
Puzyr, A. P.; Burov, A. E.; Bondar, V. S.

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15.

Toxicity and antioxidant activity of fullerenol c60,70 with low number of oxygen substituents / E. S. Kovel, A. G. Kicheeva, N. G. Vnukova [et al.] // Int. J. Mol. Sci. - 2021. - Vol. 22, Is. 12. - Ст. 6382, DOI 10.3390/ijms22126382 . - ISSN 1661-6596
Кл.слова (ненормированные):
Antioxidant activity -- Bioluminescent assay -- Fullerenol -- Hormesis -- Reactive oxygen species -- Toxicity
Аннотация: Fullerene is a nanosized carbon structure with potential drug delivery applications. We studied the bioeffects of a water-soluble fullerene derivative, fullerenol, with 10-12 oxygen groups (F10-12); its structure was characterized by IR and XPS spectroscopy. A bioluminescent enzyme system was used to study toxic and antioxidant effects of F10-12 at the enzymatic level. Antioxidant characteristics of F10-12 were revealed in model solutions of organic and inorganic oxidizers. Low-concentration activation of bioluminescence was validated statistically in oxidizer solutions. Toxic and antioxidant characteristics of F10-12 were compared to those of homologous fullerenols with a higher number of oxygen groups:F24-28 and F40-42. No simple dependency was found between the toxic/antioxidant characteristics and the number of oxygen groups on the fullerene’s carbon cage. Lower toxicity and higher antioxidant activity of F24-28 were identified and presumptively attributed to its higher solubility. An active role of reactive oxygen species (ROS) in the bioeffects of F10-12 was demonstrated. Correlations between toxic/antioxidant characteristics of F10-12 and ROS content were evaluated. Toxic and antioxidant effects were related to the decrease in ROS content in the enzyme solutions. Our results reveal a complexity of ROS effects in the enzymatic assay system. © 2021 by the authors. Licensee MDPI, Basel, Switzerland.

Scopus
Держатели документа:
Institute of Biophysics SB RAS, FRC KSC SB RAS, Krasnoyarsk, 660036, Russian Federation
Institute of Physics SB RAS, FRC KSC SB RAS, Krasnoyarsk, 660036, Russian Federation
FRC KSC SB RAS, Krasnoyarsk, 660036, Russian Federation
Institute of Fundamental Biology and Biotechnology, Siberian Federal University, Krasnoyarsk, 660041, Russian Federation

Доп.точки доступа:
Kovel, E. S.; Kicheeva, A. G.; Vnukova, N. G.; Churilov, G. N.; Stepin, E. A.; Kudryasheva, N. S.

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16.

Rational Design and Mutagenesis of Fungal Luciferase from Neonothopanus nambi / K. A. Beregovaya, N. M. Myshkina, T. V. Chepurnykh [et al.] // Dokl. Biochem. Biophys. - 2021. - Vol. 496, Is. 1. - P14-17, DOI 10.1134/S1607672921010026. - Cited References:12. - This work was supported by the grant from the Russian Science Foundation no. 16-14-00052P, alanine screening was performed by the President grant for leading scientific schools NSh-2605.2020.4. . - ISSN 1607-6729. - ISSN 1608-3091

РУБ Biochemistry & Molecular Biology + Biophysics

Кл.слова (ненормированные):
bioluminescence -- luciferase -- Neonothopanus nambi -- rational design
Аннотация: The recently described bioluminescent system from fungi has great potential for developing highly efficient tools for biomedical research. Luciferase enzyme is one of the most crucial components of this system. The luciferase from Neonothopanus nambi fungus belongs to the novel still undescribed protein family. The structure data for this protein is almost absent. A detailed study of the N. nambi luciferase properties is necessary for the improvement of analytical methods based on the fungal bioluminescent system. Here we present the positions of key amino acid residues and their effect on enzyme function described using bioinformatic and experimental approaches. These results are useful for further fungal luciferase structure determination.

WOS
Держатели документа:
Russian Acad Sci, Shemyakin Ovchinnikov Inst Bioorgan Chem, Moscow, Russia.
Krasnoyarsk Sci Ctr SB RAS, Inst Biophys SB RAS, Fed Res Ctr, Krasnoyarsk, Russia.

Доп.точки доступа:
Beregovaya, K. A.; Myshkina, N. M.; Chepurnykh, T., V; Kotlobay, A. A.; Purtov, K., V; Petushkov, V. N.; Rodionova, N. S.; Yampolsky, I., V; Russian Science FoundationRussian Science Foundation (RSF) [16-14-00052P]; President grant for leading scientific schoolsLeading Scientific Schools Program [NSh-2605.2020.4]

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17.

H2O-Bridged Proton-Transfer Channel in Emitter Species Formation in Obelin Bioluminescence / S. F. Chen, E. S. Vysotski, Y. J. Liu // J. Phys. Chem. B. - 2021. - Vol. 125, Is. 37. - P10452-10458, DOI 10.1021/acs.jpcb.1c03985. - Cited References:50. - This work was supported by the Program of Shanghai Institute of Technology (no. YJ2016-42), the National Natural Science Foundation of China (21973005 and 21911530094), and the Russian Foundation for Basic Research (20-04-00085 and 19-14-53004). . - ISSN 1520-6106. - ISSN 1520-5207

РУБ Chemistry, Physical
Рубрики:
CHEMILUMINESCENT DECOMPOSITION
   FLUORESCENCE-SPECTRA
   MECHANISM
   QM/MM
Аннотация: Bioluminescence of a number of marine organisms is conditioned by Ca2+-regulated photoprotein (CaRP) with coelenterazine as the reaction substrate. The reaction product, coelenteramide, at the first singlet excited state (S-1) is the emitter of CaRP. The S-1-state coelenteramide is produced via the decomposition of coelenterazine dioxetanone. Experiments suggested that the neutral S-1-coelenteramide is the primary emitter species. This supposition contradicts with theoretical calculations showing that the anionic S-1-coelenteramide is a primary product of the decomposition of coelenterazine dioxetanone. In this study, applying molecular dynamic (MD) simulations and the hybrid quantum mechanics/molecular mechanics (QM/MM) method, we investigated a proton-transfer (PT) process taking place in CaRP obelin from Obelia longissima for emitter formation. Our calculations demonstrate a concerted PT process with a water molecule as a bridge between anionic S-1-coelenteramide and the nearest histidine residue. The low activation barrier as well as the strong hydrogen-bond network between the proton donor and the proton acceptor suggests a fast PT process comparable with that of the lifetime of excited anionic S-1-coelenteramide. The existence of the PT process eliminates the discrepancy between experimental and theoretical studies. The fast PT process at emitter formation can also take place in other CaRPs.

WOS
Держатели документа:
Shanghai Inst Technol, Sch Chem & Environm Engn, Shanghai 201418, Peoples R China.
Fed Res Ctr Krasnoyarsk Sci Ctr SB RAS, Inst Biophys SB RAS, Photo Biol Lab, Krasnoyarsk 660036, Russia.
Beijing Normal Univ Zhuhai, Ctr Adv Mat Res, Adv Inst Nat Sci, Zhuhai 519087, Peoples R China.
Beijing Normal Univ, Coll Chem, Key Lab Theoret & Computat Photochem, Minist Educ, Beijing 100875, Peoples R China.

Доп.точки доступа:
Chen, Shu-Feng; Vysotski, Eugene S.; Liu, Ya-Jun; Vysotski, Eugene; Program of Shanghai Institute of Technology [YJ2016-42]; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [21973005, 21911530094]; Russian Foundation for Basic ResearchRussian Foundation for Basic Research (RFBR) [20-04-00085, 19-14-53004]

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18.

Development of Cellular and Enzymatic Bioluminescent Assay Systems to Study Low-Dose Effects of Thorium / O. V. Kolesnik, T. V. Rozhko, M. A. Lapina [et al.] // Bioengineering-Basel. - 2021. - Vol. 8, Is. 12. - Ст. 194, DOI 10.3390/bioengineering8120194. - Cited References:77 . - ISSN 2306-5354

РУБ Biotechnology & Applied Microbiology + Engineering, Biomedical

Кл.слова (ненормированные):
bioassay -- bioluminescence -- luminous bacteria -- enzymes -- reactive oxygen -- species -- thorium -- low-dose exposure -- radiation hormesis
Аннотация: Thorium is one of the most widespread radioactive elements in natural ecosystems, along with uranium, it is the most important source of nuclear energy. However, the effects of thorium on living organisms have not been thoroughly studied. Marine luminescent bacteria and their enzymes are optimal bioassays for studying low-dose thorium exposures. Luminescent bioassays provide a quantitative measure of toxicity and are characterized by high rates, sensitivity, and simplicity. It is known that the metabolic activity of bacteria is associated with the production of reactive oxygen species (ROS). We studied the effects of thorium-232 (10(-11)-10(-3) M) on Photobacterium phosphoreum and bacterial enzymatic reactions; kinetics of bacterial bioluminescence and ROS content were investigated in both systems. Bioluminescence activation was revealed under low-dose exposures (<0.1 Gy) and discussed in terms of "radiation hormesis". The activation was accompanied by an intensification of the oxidation of a low-molecular reducer, NADH, during the enzymatic processes. Negative correlations were found between the intensity of bioluminescence and the content of ROS in bacteria and enzyme systems; an active role of ROS in the low-dose activation by thorium was discussed. The results contribute to radioecological potential of bioluminescence techniques adapted to study low-intensity radioactive exposures.

WOS
Держатели документа:
RAS, Krasnoyarsk Sci Ctr SB, Inst Biophys SB, Fed Res Ctr, Krasnoyarsk 660036, Russia.
Siberian Fed Univ, Biophys Dept, Krasnoyarsk 660041, Russia.
Krasnoyarsk State Med Acad, Krasnoyarsk 660022, Russia.
Natl Res Tomsk Polytech Univ, Tomsk 634050, Russia.

Доп.точки доступа:
Kolesnik, Olga V.; Rozhko, Tatiana V.; Lapina, Maria A.; Solovyev, Vladislav S.; Sachkova, Anna S.; Kudryasheva, Nadezhda S.; Kolesnik, Olga

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19.

Bacterial Luciferases from Vibrio harveyi and Photobacterium leiognathi Demonstrate Different Conformational Stability as Detected by Time-Resolved Fluorescence Spectroscopy / E. V. Nemtseva, D. V. Gulnov, M. A. Gerasimova [et al.] // Int. J. Mol. Sci. - 2021. - Vol. 22, Is. 19. - Ст. 10449, DOI 10.3390/ijms221910449. - Cited References:45. - The research was partially funded by the Ministry of Science and Higher Education of the Russian Federation (projects No. FSRZ-2020-0006); by the RFBR and Krasnoyarsk Territory and Krasnoyarsk Regional Fund of Science (projects No. 20-44-243002 and 20-44-240006); and by the RFBR (project No. 20-34-90118). . - ISSN 1422-0067

РУБ Biochemistry & Molecular Biology + Chemistry, Multidisciplinary
Рубрики:
TRYPTOPHAN FLUORESCENCE
   CRYSTAL-STRUCTURE
   SUBUNIT
   BIOLUMINESCENCE
Кл.слова (ненормированные):
bacterial luciferase -- urea-induced denaturation -- time-resolved -- spectroscopy -- conformational stability -- FRET -- tryptophan fluorescence -- molecular dynamics -- unfolding pathway
Аннотация: Detecting the folding/unfolding pathways of biological macromolecules is one of the urgent problems of molecular biophysics. The unfolding of bacterial luciferase from Vibrio harveyi is well-studied, unlike that of Photobacterium leiognathi, despite the fact that both of them are actively used as a reporter system. The aim of this study was to compare the conformational transitions of these luciferases from two different protein subfamilies during equilibrium unfolding with urea. Intrinsic steady-state and time-resolved fluorescence spectra and circular dichroism spectra were used to determine the stages of the protein unfolding. Molecular dynamics methods were applied to find the differences in the surroundings of tryptophans in both luciferases. We found that the unfolding pathway is the same for the studied luciferases. However, the results obtained indicate more stable tertiary and secondary structures of P. leiognathi luciferase as compared to enzyme from V. harveyi during the last stage of denaturation, including the unfolding of individual subunits. The distinctions in fluorescence of the two proteins are associated with differences in the structure of the C-terminal domain of alpha-subunits, which causes different quenching of tryptophan emissions. The time-resolved fluorescence technique proved to be a more effective method for studying protein unfolding than steady-state methods.

WOS
Держатели документа:
Siberian Fed Univ, Krasnoyarsk 660041, Russia.
Inst Biophys SB RAS, Photobiol Lab, Krasnoyarsk 660036, Russia.
Russian Acad Sci, Inst Prot Res, Pushchino 142290, Russia.

Доп.точки доступа:
Nemtseva, Elena, V; Gulnov, Dmitry, V; Gerasimova, Marina A.; Sukovatyi, Lev A.; Burakova, Ludmila P.; Karuzina, Natalya E.; Melnik, Bogdan S.; Kratasyuk, Valentina A.; Burakova, Lyudmila; Ministry of Science and Higher Education of the Russian Federation [FSRZ-2020-0006]; RFBRRussian Foundation for Basic Research (RFBR) [20-34-90118]; Krasnoyarsk Regional Fund of Science [20-44-243002, 20-44-240006]; RFBRRussian Foundation for Basic Research (RFBR)

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20.

Specific Activities of Hydromedusan Ca2+-Regulated Photoproteins / N. P. Malikova, E. V. Eremeeva, D. V. Gulnov [et al.] // Photochem. Photobiol. - 2021, DOI 10.1111/php.13556 . - Article in press. - ISSN 0031-8655
Аннотация: Nowadays the recombinant Ca2+-regulated photoproteins originating from marine luminous organisms are widely applied to monitor calcium transients in living cells due to their ability to emit light on Ca2+ binding. Here we report the specific activities of the recombinant Ca2+-regulated photoproteins—aequorin from Aequorea victoria, obelins from Obelia longissima and Obelia geniculata, clytin from Clytia gregaria and mitrocomin from Mitrocoma cellularia. We demonstrate that along with bioluminescence spectra, kinetics of light signals and sensitivities to calcium, these photoproteins also differ in specific activities and consequently in quantum yields of bioluminescent reactions. The highest specific activities were found for obelins and mitrocomin, whereas those of aequorin and clytin were shown to be lower. To determine the factors influencing the variations in specific activities the fluorescence quantum yields for Ca2+-discharged photoproteins were measured and found to be quite different varying in the range of 0.16–0.36. We propose that distinctions in specific activities may result from different efficiencies of singlet excited state generation and different fluorescence quantum yields of coelenteramide bound within substrate-binding cavity. This in turn may be conditioned by variations in the amino acid environment of the substrate-binding cavities and hydrogen bond distances between key residues and atoms of 2-hydroperoxycoelenterazine. © 2021 American Society for Photobiology

Scopus
Держатели документа:
Photobiology Laboratory, Institute of Biophysics SB RAS, Federal Research Center “Krasnoyarsk Science Center SB RAS”, Krasnoyarsk, Russian Federation
Institute of Fundamental Biology and Biotechnology, Siberian Federal University, Krasnoyarsk, Russian Federation

Доп.точки доступа:
Malikova, N. P.; Eremeeva, E. V.; Gulnov, D. V.; Natashin, P. V.; Nemtseva, E. V.; Vysotski, E. S.

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