Alexander A Tokmakov

Summary

Affiliation: Kobe University
Country: Japan

Publications

  1. pmc Multiple post-translational modifications affect heterologous protein synthesis
    Alexander A Tokmakov
    RIKEN Systems and Structural Biology Center, University of Tokyo, Bunkyo, Tokyo 113 0033, Japan
    J Biol Chem 287:27106-16. 2012
  2. doi request reprint Comparative homology modeling of pyruvate dehydrogenase kinase isozymes from Xenopus tropicalis reveals structural basis for their subfunctionalization
    Alexander A Tokmakov
    Research Center for Environmental Genomics and Graduate School of Science, Kobe University, Nada, Kobe, Japan
    J Mol Model 18:2567-76. 2012
  3. pmc Unfertilized frog eggs die by apoptosis following meiotic exit
    Alexander A Tokmakov
    Research Center for Environmental Genomics, Kobe University, Rokko dai 1 1, Nada, Kobe, Japan
    BMC Cell Biol 12:56. 2011
  4. doi request reprint Analysis of signal transduction in cell-free extracts and rafts of Xenopus eggs
    Alexander A Tokmakov
    Graduate School of Science, Kobe University, Nada, Kobe, Japan
    Methods 51:177-82. 2010
  5. doi request reprint Comparative expression analysis of multiple PDK genes in Xenopus laevis during oogenesis, maturation, fertilization, and early embryogenesis
    Alexander A Tokmakov
    Research Center for Environmental Genomics, Kobe University, Rokko dai 1 1, Nada, Kobe, Hyogo 657 8501, Japan
    Gene Expr Patterns 9:158-65. 2009
  6. doi request reprint Activation of T7 RNA polymerase in Xenopus oocytes and cell-free extracts
    Alexander A Tokmakov
    Research Center for Environmental Genomics and Graduate School of Science, Kobe University, Nada, Kobe, Japan
    Genes Cells 15:1136-44. 2010
  7. ncbi request reprint Reconstitution of Src-dependent phospholipase Cgamma phosphorylation and transient calcium release by using membrane rafts and cell-free extracts from Xenopus eggs
    Ken ichi Sato
    Research Center for Environmental Genomics, Faculty of Science, Kobe University, Nada, Kobe 657 8501, Japan
    J Biol Chem 278:38413-20. 2003
  8. ncbi request reprint Studying fertilization in cell-free extracts: focusing on membrane/lipid raft functions and proteomics
    Ken ichi Sato
    Research Center for Environmental Genomics, Kobe University, Japan
    Methods Mol Biol 322:395-411. 2006
  9. doi request reprint Comprehensive bioinformatics analysis of cell-free protein synthesis: identification of multiple protein properties that correlate with successful expression
    Atsushi Kurotani
    RIKEN Systems and Structural Biology Center, Yokohama, Japan
    FASEB J 24:1095-104. 2010
  10. ncbi request reprint Low density detergent-insoluble membrane of Xenopus eggs: subcellular microdomain for tyrosine kinase signaling in fertilization
    Ken ichi Sato
    Research Center for Environmental Genomics, Kobe University, Nada, Kobe 657 8501 Japan
    Development 129:885-96. 2002

Detail Information

Publications16

  1. pmc Multiple post-translational modifications affect heterologous protein synthesis
    Alexander A Tokmakov
    RIKEN Systems and Structural Biology Center, University of Tokyo, Bunkyo, Tokyo 113 0033, Japan
    J Biol Chem 287:27106-16. 2012
    ..In sum, this study provides the most compelling evidence so far for the role of multiple PTMs in the stability and solubility of heterologously expressed recombinant proteins...
  2. doi request reprint Comparative homology modeling of pyruvate dehydrogenase kinase isozymes from Xenopus tropicalis reveals structural basis for their subfunctionalization
    Alexander A Tokmakov
    Research Center for Environmental Genomics and Graduate School of Science, Kobe University, Nada, Kobe, Japan
    J Mol Model 18:2567-76. 2012
    ..Hence, this study provides a rationale for the existence of two closely related PDK isozymes in X. tropicalis, thereby enhancing our understanding of the functional evolution of PDK family genes...
  3. pmc Unfertilized frog eggs die by apoptosis following meiotic exit
    Alexander A Tokmakov
    Research Center for Environmental Genomics, Kobe University, Rokko dai 1 1, Nada, Kobe, Japan
    BMC Cell Biol 12:56. 2011
    ..If the eggs are not fertilized within several hours of ovulation, they deteriorate and ultimately die by as yet unknown mechanism...
  4. doi request reprint Analysis of signal transduction in cell-free extracts and rafts of Xenopus eggs
    Alexander A Tokmakov
    Graduate School of Science, Kobe University, Nada, Kobe, Japan
    Methods 51:177-82. 2010
    ..Herein, we describe protocols for studying molecular mechanisms of egg fertilization/activation using cell-free extracts and membrane rafts prepared from metaphase-arrested Xenopus eggs...
  5. doi request reprint Comparative expression analysis of multiple PDK genes in Xenopus laevis during oogenesis, maturation, fertilization, and early embryogenesis
    Alexander A Tokmakov
    Research Center for Environmental Genomics, Kobe University, Rokko dai 1 1, Nada, Kobe, Hyogo 657 8501, Japan
    Gene Expr Patterns 9:158-65. 2009
    ..Bioinformatics and mass-spectrometric analyses allowed identification of an N-terminal mitochondrial targeting signal and a peptide cleavage site in xPDKo3 molecule...
  6. doi request reprint Activation of T7 RNA polymerase in Xenopus oocytes and cell-free extracts
    Alexander A Tokmakov
    Research Center for Environmental Genomics and Graduate School of Science, Kobe University, Nada, Kobe, Japan
    Genes Cells 15:1136-44. 2010
    ..The study also introduces a novel highly sensitive luminescent assay of T7 RNAP activity...
  7. ncbi request reprint Reconstitution of Src-dependent phospholipase Cgamma phosphorylation and transient calcium release by using membrane rafts and cell-free extracts from Xenopus eggs
    Ken ichi Sato
    Research Center for Environmental Genomics, Faculty of Science, Kobe University, Nada, Kobe 657 8501, Japan
    J Biol Chem 278:38413-20. 2003
    ..The development of such experimental platforms will allow us to dissect the molecular mechanism of sperm-dependent activation of raft-associated Src and subsequent up-regulation of PLCgamma and egg activation machinery in Xenopus eggs...
  8. ncbi request reprint Studying fertilization in cell-free extracts: focusing on membrane/lipid raft functions and proteomics
    Ken ichi Sato
    Research Center for Environmental Genomics, Kobe University, Japan
    Methods Mol Biol 322:395-411. 2006
    ..e., whole egg proteome) of fertilization in a cell-free manner. As one of these proteomics approaches, we provide a protocol for molecular identification of Xenopus egg raft proteins using mass spectrometry and database mining...
  9. doi request reprint Comprehensive bioinformatics analysis of cell-free protein synthesis: identification of multiple protein properties that correlate with successful expression
    Atsushi Kurotani
    RIKEN Systems and Structural Biology Center, Yokohama, Japan
    FASEB J 24:1095-104. 2010
    ..Toyama, M., Shirouzu, M., Yokoyama, S., Fukami, Y., Tokmakov, A. A. Comprehensive bioinformatics analysis of cell-free protein synthesis: identification of multiple protein properties that correlate with successful expression...
  10. ncbi request reprint Low density detergent-insoluble membrane of Xenopus eggs: subcellular microdomain for tyrosine kinase signaling in fertilization
    Ken ichi Sato
    Research Center for Environmental Genomics, Kobe University, Nada, Kobe 657 8501 Japan
    Development 129:885-96. 2002
    ..These findings suggest that the egg LD-DIM might serve as subcellular microdomain for tyrosine kinase signaling in Xenopus egg fertilization...
  11. ncbi request reprint Phylogeny of vertebrate Src tyrosine kinases revealed by the epitope region of mAb327
    Tetsushi Iwasaki
    Research Center for Environmental Genomics, Kobe University, Nada, Kobe 657 8501
    J Biochem 139:347-54. 2006
    ....
  12. pmc Unlaid Xenopus eggs degrade by apoptosis in the genital tract
    Sho Iguchi
    Graduate School of Science, Rokko dai 1 1, Nada, Kobe 657 8501, Japan
    BMC Cell Biol 14:11. 2013
    ..However, there is no apparent reason for the externally laid eggs to degrade by this process, considering that apoptosis developed as a mechanism to reduce the damaging effect of individual cell death to the whole organism...
  13. pmc Evidence that phosphatidylinositol 3-kinase is involved in sperm-induced tyrosine kinase signaling in Xenopus egg fertilization
    Gunay Mammadova
    The Graduate School of Science, Kobe University, 1 1 Rokkodai cho, Nada Ku, Kobe 657 8501, Japan
    BMC Dev Biol 9:68. 2009
    ..However, the roles of egg-associated PI 3-kinase and Akt, especially in signal transduction at fertilization, are not well understood...
  14. ncbi request reprint Adaptor protein Shc is an isoform-specific direct activator of the tyrosine kinase c-Src
    Ken ichi Sato
    Research Center for Environmental Genomics, Department of Biology, Faculty of Science, Kobe University, Nada, Kobe 657 8501, Japan
    J Biol Chem 277:29568-76. 2002
    ..Using this mutant, we have confirmed that the Shc-mediated c-Src activation triggers Stat-p21/WAF1/Cip1 pathway that has been implicated in the cell cycle arrest and apoptosis of epidermal growth factor-stimulated A431 cells...
  15. doi request reprint Bioinformatics analysis and optimization of cell-free protein synthesis
    Alexander A Tokmakov
    RIKEN Systems and Structural Biology Center, Tsurumi, Yokohama, Japan
    Methods Mol Biol 1118:17-33. 2014
    ..In this chapter, we describe our approach and demonstrate how computational and predictive bioinformatics can be used to analyze and optimize cell-free protein expression. ..
  16. doi request reprint Monitoring gene expression in a single Xenopus oocyte using multiple cytoplasmic collections and quantitative RT-PCR
    Alexander A Tokmakov
    Research Center for Environmental Genomics, Kobe University, Japan
    FEBS J 281:104-14. 2014
    ..Finally, using this technique, we observed a dramatic decrease in the content of various cytoplasmic mRNAs in aging unfertilized eggs but not in oocytes, suggesting a link between mRNA degradation and egg apoptosis. ..