Публикации за 2007

Conserved and species-specific alternative splicing in mammalian genomes.
Nurtdinov, R. N.; Neverov, A. D.; Favorov, A. V.; Mironov, A. A.; Gelfand, M. S.
BMC Evol Biol. 2007 Dec 22;7:249.
PubMed; doi 10.1186/1471-2148-7-249

Chiral high-performance liquid chromatography analysis of alpha-amino acid mixtures using a novel SH reagent--N-R-mandelyl-L-cysteine and traditional enantiomeric thiols for precolumn derivatization.
Chernobrovkin, M. G.; Shapovalova, E. N.; Guranda, D. T.; Kudryavtsev, P. A.; Svedas, V. K.; Shpigun, O. A.
J Chromatogr A. 2007 Dec 14;1175(1):89-95. Epub 2007 Oct 18.
PubMed; doi 10.1016/j.chroma.2007.10.034

A biochemical approach to the problem of aging: "megaproject" on membrane-penetrating ions. The first results and prospects.
Skulachev, V. P.
Biochemistry (Mosc). 2007 Dec;72(12):1385-96.
PubMed

Phylogeny of flowering plants by the chloroplast genome sequences: in search of a "lucky gene".
Logacheva, M. D.; Penin, A. A.; Samigullin, T. H.; Vallejo-Roman, C. M.; Antonov, A. S.
Biochemistry (Mosc). 2007 Dec;72(12):1324-30.
PubMed

Transcriptional regulation of the methionine and cysteine transport and metabolism in streptococci.
Kovaleva, G. Y.; Gelfand, M. S.
FEMS Microbiol Lett. 2007 Nov;276(2):207-15.
PubMed; doi 10.1111/j.1574-6968.2007.00934.x

Abundance and functional diversity of riboswitches in microbial communities.
Kazanov, M. D.; Vitreschak, A. G.; Gelfand, M. S.
BMC Genomics. 2007 Oct 1;8:347.
PubMed; doi 10.1186/1471-2164-8-347

Antioxidant and prooxidant effects of quercetin on glyceraldehyde-3-phosphate dehydrogenase.
Schmalhausen, E. V.; Zhlobek, E. B.; Shalova, I. N.; Firuzi, O.; Saso, L.; Muronetz, V. I.
Food Chem Toxicol. 2007 Oct;45(10):1988-93. Epub 2007 May 3.
PubMed; doi 10.1016/j.fct.2007.04.015

Overlapping alternative donor splice sites in the human genome.
Ermakova, E. O.; Nurtdinov, R. N.; Gelfand, M. S.
J Bioinform Comput Biol. 2007 Oct;5(5):991-1004.
PubMed

Deinococcus geothermalis: the pool of extreme radiation resistance genes shrinks.
Makarova, K. S.; Omelchenko, M. V.; Gaidamakova, E. K.; Matrosova, V. Y.; Vasilenko, A.; Zhai, M.; Lapidus, A.; Copeland, A.; Kim, E.; Land, M.; Mavrommatis, K.; Pitluck, S.; Richardson, P. M.; Detter, C.; Brettin, T.; Saunders, E.; Lai, B.; Ravel, B.; Kemner, K. M.; Wolf, Y. I.; Sorokin, A.; Gerasimova, A. V.; Gelfand, M. S.; Fredrickson, J. K.; Koonin, E. V.; Daly, M. J.
PLoS One. 2007 Sep 26;2(9):e955.
PubMed; doi 10.1371/journal.pone.0000955

Molecular oxygen (a substrate of the cyclooxygenase reaction) in the kinetic mechanism of the bifunctional enzyme prostaglandin-H-synthase.
Filimonov, I. S.; Vrzheshch, P. V.
Biochemistry (Mosc). 2007 Sep;72(9):944-53.
PubMed

Steady-state kinetics of bifunctional enzymes. Taking into account kinetic hierarchy of fast and slow catalytic cycles in a generalized model.
Vrzheshch, P. V.
Biochemistry (Mosc). 2007 Sep;72(9):936-43.
PubMed

Effects of lipophilic dications on planar bilayer phospholipid membrane and mitochondria.
Severina, I. I.; Vyssokikh, M. Y.; Pustovidko, A. V.; Simonyan, R. A.; Rokitskaya, T. I.; Skulachev, V. P.
Biochim Biophys Acta. 2007 Sep;1767(9):1164-8. Epub 2007 Jun 12.
PubMed; doi 10.1016/j.bbabio.2007.05.010

Low-molecular-weight post-translationally modified microcins.
Severinov, K.; Semenova, E.; Kazakov, A.; Kazakov, T.; Gelfand, M. S.
Mol Microbiol. 2007 Sep;65(6):1380-94. Epub 2007 Aug 17.
PubMed; doi 10.1111/j.1365-2958.2007.05874.x

Kinetic models of cyclooxygenase and peroxidase inactivation of prostaglandin-H-synthase during catalysis.
Vrzheshch, P. V.; Tsaplina, L. A.; Sakharova, I. S.
Biochemistry (Mosc). 2007 Aug;72(8):828-34.
PubMed

Comparative genomics and evolution of alternative splicing: the pessimists' science.
Artamonova, I. I.; Gelfand, M. S.
Chem Rev. 2007 Aug;107(8):3407-30. Epub 2007 Jul 24.
PubMed; doi 10.1021/cr068304c

A model of evolution with constant selective pressure for regulatory DNA sites.
Enikeeva, F. N.; Kotelnikova, E. A.; Gelfand, M. S.; Makeev, V. J.
BMC Evol Biol. 2007 Jul 27;7:125.
PubMed; doi 10.1186/1471-2148-7-125

Interaction of polyelectrolytes with proteins, 3. Influence of complexing polycations on the thermoaggregation of oligomeric enzymes.
Shalova, I. N.; Naletova, I. N.; Saso, L.; Muronetz, V. I.; Izumrudov, V. A.
Macromol Biosci. 2007 Jul 9;7(7):929-39.
PubMed; doi 10.1002/mabi.200700052

Conversion and compensatory evolution of the gamma-crystallin genes and identification of a cataractogenic mutation that reverses the sequence of the human CRYGD gene to an ancestral state.
Plotnikova, O. V.; Kondrashov, F. A.; Vlasov, P. K.; Grigorenko, A. P.; Ginter, E. K.; Rogaev, E. I.
Am J Hum Genet. 2007 Jul;81(1):32-43. Epub 2007 May 16.
PubMed; doi 10.1086/518616

Somatic and sperm-specific isoenzymes of glyceraldehyde-3-phosphate dehydrogenase: comparative analysis of primary structures and functional features.
Kuravsky, M. L.; Muronetz, V. I.
Biochemistry (Mosc). 2007 Jul;72(7):744-9.
PubMed

[A method for prediction of conserved RNA secondary structures].
Mironov, A. A.
Mol Biol (Mosk). 2007 Jul-Aug;41(4):711-8.
PubMed

Cyclooxygenase and peroxidase inactivation of prostaglandin-H-synthase during catalysis.
Tsaplina, L. A.; Vrzheshch, P. V.
Biochemistry (Mosc). 2007 Jun;72(6):631-9.
PubMed

Living without Fur: the subtlety and complexity of iron-responsive gene regulation in the symbiotic bacterium Rhizobium and other alpha-proteobacteria.
Johnston, A. W.; Todd, J. D.; Curson, A. R.; Lei, S.; Nikolaidou-Katsaridou, N.; Gelfand, M. S.; Rodionov, D. A.
Biometals. 2007 Jun;20(3-4):501-11. Epub 2007 Feb 20.
PubMed; doi 10.1007/s10534-007-9085-8

MicroRNA in schizophrenia: genetic and expression analysis of miR-130b (22q11).
Burmistrova, O. A.; Goltsov, A. Y.; Abramova, L. I.; Kaleda, V. G.; Orlova, V. A.; Rogaev, E. I.
Biochemistry (Mosc). 2007 May;72(5):578-82.
PubMed

Quantum chemical studies of the catalytic mechanism of N-terminal nucleophile hydrolase.
Chilov, G. G.; Sidorova, A. V.; Svedas, V. K.
Biochemistry (Mosc). 2007 May;72(5):495-500.
PubMed

Decrease of dehydrogenase activity of cerebral glyceraldehyde-3-phosphate dehydrogenase in different animal models of Alzheimer's disease.
Shalova, I. N.; Cechalova, K.; Rehakova, Z.; Dimitrova, P.; Ognibene, E.; Caprioli, A.; Schmalhausen, E. V.; Muronetz, V. I.; Saso, L.
Biochim Biophys Acta. 2007 May;1770(5):826-32. Epub 2007 Feb 4.
PubMed; doi 10.1016/j.bbagen.2007.01.014

Enzyme-catalyzed side reactions with molecular oxygen may contribute to cell signaling and neurodegenerative diseases.
Bunik, V. I.; Schloss, J. V.; Pinto, J. T.; Gibson, G. E.; Cooper, A. J.
Neurochem Res. 2007 Apr-May;32(4-5):871-91. Epub 2007 Mar 7.
PubMed; doi 10.1007/s11064-006-9239-z

Methyltransferase that modifies guanine 966 of the 16 S rRNA: functional identification and tertiary structure.
Lesnyak, D. V.; Osipiuk, J.; Skarina, T.; Sergiev, P. V.; Bogdanov, A. A.; Edwards, A.; Savchenko, A.; Joachimiak, A.; Dontsova, O. A.
J Biol Chem. 2007 Feb 23;282(8):5880-7. Epub 2006 Dec 21.
PubMed; doi 10.1074/jbc.M608214200

Comparative genomic analysis of regulation of anaerobic respiration in ten genomes from three families of gamma-proteobacteria (Enterobacteriaceae, Pasteurellaceae, Vibrionaceae).
Ravcheev, D. A.; Gerasimova, A. V.; Mironov, A. A.; Gelfand, M. S.
BMC Genomics. 2007 Feb 21;8:54.
PubMed; doi 10.1186/1471-2164-8-54

Temporal regulation of viral transcription during development of Thermus thermophilus bacteriophage phiYS40.
Sevostyanova, A.; Djordjevic, M.; Kuznedelov, K.; Naryshkina, T.; Gelfand, M. S.; Severinov, K.; Minakhin, L.
J Mol Biol. 2007 Feb 16;366(2):420-35. Epub 2006 Nov 18.
PubMed; doi 10.1016/j.jmb.2006.11.050

Purifying selection in mitochondria, free-living and obligate intracellular proteobacteria.
Mamirova, L.; Popadin, K.; Gelfand, M. S.
BMC Evol Biol. 2007 Feb 12;7:17.
PubMed; doi 10.1186/1471-2148-7-17

Effect of alpha-crystallin on thermal denaturation and aggregation of rabbit muscle glyceraldehyde-3-phosphate dehydrogenase.
Khanova, H. A.; Markossian, K. A.; Kleimenov, S. Y.; Levitsky, D. I.; Chebotareva, N. A.; Golub, N. V.; Asryants, R. A.; Muronetz, V. I.; Saso, L.; Yudin, I. K.; Muranov, K. O.; Ostrovsky, M. A.; Kurganov, B. I.
Biophys Chem. 2007 Feb;125(2-3):521-31. Epub 2006 Nov 21.
PubMed; doi 10.1016/j.bpc.2006.11.002

Influence of donor substrate on kinetic parameters of thiamine diphosphate binding to transketolase.
Ospanov, R. V.; Kochetov, G. A.; Kurganov, B. I.
Biochemistry (Mosc). 2007 Jan;72(1):84-92.
PubMed

RegTransBase--a database of regulatory sequences and interactions in a wide range of prokaryotic genomes.
Kazakov, A. E.; Cipriano, M. J.; Novichkov, P. S.; Minovitsky, S.; Vinogradov, D. V.; Arkin, A.; Mironov, A. A.; Gelfand, M. S.; Dubchak, I.
Nucleic Acids Res. 2007 Jan;35(Database issue):D407-12. Epub 2006 Nov 16.
PubMed; doi 10.1093/nar/gkl865

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