S Yokoyama

Summary

Affiliation: Syracuse University
Country: USA

Publications

  1. ncbi request reprint Isolation and expression of rat interferon beta gene and growth-inhibitory effect of its expression on rat glioma cells
    S Yokoyama
    Institute of Applied Biochemistry, Gifu, Japan
    Biochem Biophys Res Commun 232:698-701. 1997
  2. pmc The molecular genetics and evolution of red and green color vision in vertebrates
    S Yokoyama
    Department of Biology, Syracuse University, New York 13244, USA
    Genetics 158:1697-710. 2001
  3. pmc Ultraviolet pigments in birds evolved from violet pigments by a single amino acid change
    S Yokoyama
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Proc Natl Acad Sci U S A 97:7366-71. 2000
  4. pmc Adaptive evolution of color vision of the Comoran coelacanth (Latimeria chalumnae)
    S Yokoyama
    Department of Biology, Syracuse University, Syracuse, NY 13244, USA
    Proc Natl Acad Sci U S A 96:6279-84. 1999
  5. pmc The molecular genetics of red and green color vision in mammals
    S Yokoyama
    Department of Biology, Syracuse University, Syracuse, New York 13244, USA
    Genetics 153:919-32. 1999
  6. ncbi request reprint Adaptive evolution of the African and Indonesian coelacanths to deep-sea environments
    S Yokoyama
    Biological Research Laboratories, Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Gene 261:35-42. 2000
  7. ncbi request reprint Regeneration of ultraviolet pigments of vertebrates
    S Yokoyama
    Department of Biology, Syracuse University, NY 13244, USA
    FEBS Lett 423:155-8. 1998
  8. ncbi request reprint Molecular evolution of color vision of zebra finch
    S Yokoyama
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Gene 259:17-24. 2000
  9. ncbi request reprint Cloning and characterization of the pineal gland-specific opsin gene of marine lamprey (Petromyzon marinus)
    S Yokoyama
    Syracuse University, Department of Biology, NY 13244, USA
    Gene 202:89-93. 1997
  10. ncbi request reprint Genetics and evolution of ultraviolet vision in vertebrates
    S Yokoyama
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    FEBS Lett 486:167-72. 2000

Collaborators

Detail Information

Publications75

  1. ncbi request reprint Isolation and expression of rat interferon beta gene and growth-inhibitory effect of its expression on rat glioma cells
    S Yokoyama
    Institute of Applied Biochemistry, Gifu, Japan
    Biochem Biophys Res Commun 232:698-701. 1997
    ..When the cultured cells of rat glioma cell line T9 were transfected with the plasmid, their growth was markedly suppressed due to the expression of rat IFN beta...
  2. pmc The molecular genetics and evolution of red and green color vision in vertebrates
    S Yokoyama
    Department of Biology, Syracuse University, New York 13244, USA
    Genetics 158:1697-710. 2001
    ..It is most likely that this "five-sites" rule is the molecular basis of spectral tuning in the MWS and LWS pigments during vertebrate evolution...
  3. pmc Ultraviolet pigments in birds evolved from violet pigments by a single amino acid change
    S Yokoyama
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Proc Natl Acad Sci U S A 97:7366-71. 2000
    ..These results and comparative amino acid sequence analyses of the pigments in vertebrates demonstrate that many avian species have achieved their UV vision by S84C...
  4. pmc Adaptive evolution of color vision of the Comoran coelacanth (Latimeria chalumnae)
    S Yokoyama
    Department of Biology, Syracuse University, Syracuse, NY 13244, USA
    Proc Natl Acad Sci U S A 96:6279-84. 1999
    ..The lambdamax values are shifted about 20 nm toward blue compared with those of the corresponding orthologous pigments. Mutagenesis experiments show that each of these coadapted changes is fully explained by two amino acid replacements...
  5. pmc The molecular genetics of red and green color vision in mammals
    S Yokoyama
    Department of Biology, Syracuse University, Syracuse, New York 13244, USA
    Genetics 153:919-32. 1999
    ..The additive effects of these amino acid changes fully explain the red-green color vision in a wide range of mammalian species, goldfish, American chameleon (Anolis carolinensis), and pigeon (Columba livia)...
  6. ncbi request reprint Adaptive evolution of the African and Indonesian coelacanths to deep-sea environments
    S Yokoyama
    Biological Research Laboratories, Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Gene 261:35-42. 2000
    ..Statistical analyses show that the adaptation of the coelacanths toward the deep-sea started as early as 200 million years ago...
  7. ncbi request reprint Regeneration of ultraviolet pigments of vertebrates
    S Yokoyama
    Department of Biology, Syracuse University, NY 13244, USA
    FEBS Lett 423:155-8. 1998
    ..The construction and functional assays of the ultraviolet or near-ultraviolet pigments from a wide range of vertebrate species will allow us to study the molecular bases of ultraviolet vision for the first time...
  8. ncbi request reprint Molecular evolution of color vision of zebra finch
    S Yokoyama
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Gene 259:17-24. 2000
    ..Molecular evolutionary analyses suggest that specific amino acid replacements in the SWS1 and SWS2 pigments, resulting from accelerated evolution, must have been responsible for their functional divergences among the avian pigments...
  9. ncbi request reprint Cloning and characterization of the pineal gland-specific opsin gene of marine lamprey (Petromyzon marinus)
    S Yokoyama
    Syracuse University, Department of Biology, NY 13244, USA
    Gene 202:89-93. 1997
    ..These changes in P(Pm) might have been important in achieving marine lamprey-specific interaction between P(Pm) and other proteins in the pineal gland...
  10. ncbi request reprint Genetics and evolution of ultraviolet vision in vertebrates
    S Yokoyama
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    FEBS Lett 486:167-72. 2000
    ..The avian lineage is an exception, where the ancestral pigment lost UV-sensitivity but some descendants regained it by one amino acid replacement at an entirely different site...
  11. ncbi request reprint Molecular evolution of the cone visual pigments in the pure rod-retina of the nocturnal gecko, Gekko gekko
    S Yokoyama
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Gene 276:117-25. 2001
    ..The accelerated evolutionary rates reflect not only the transition from cones to rods in the retina but also the blue-shift in the absorption spectra of the gecko pigments...
  12. pmc Molecular genetics and the evolution of ultraviolet vision in vertebrates
    Y Shi
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Proc Natl Acad Sci U S A 98:11731-6. 2001
    ..Our results also strongly support the hypothesis that UV pigments have an unprotonated Schiff base-linked chromophore...
  13. ncbi request reprint Genetic analyses of the green visual pigments of rabbit (Oryctolagus cuniculus) and rat (Rattus norvegicus)
    F B Radlwimmer
    Department of Biology, Syracuse University, 130 College Place, Syracuse, NY 13244, USA
    Gene 218:103-9. 1998
    ..The inference on the ancestral pigment sequences strongly suggests that the rabbit and rat (and mouse) green pigments attained the extant lambdamax values independently, mainly by the single aa replacement A308S...
  14. ncbi request reprint Color vision of the coelacanth (Latimeria chalumnae) and adaptive evolution of rhodopsin (RH1) and rhodopsin-like (RH2) pigments
    S Yokoyama
    Department of Biology, Syracuse University, NY 13244 1220, USA
    J Hered 91:215-20. 2000
    ..Among these, D83N, E1220, M207L, and A292S are associated strongly with the adaptive blue shifts in the lambda max values of RH1 and RH2 pigments in vertebrates...
  15. ncbi request reprint Phylogenetic relationships among short wavelength-sensitive opsins of American chameleon (Anolis carolinensis) and other vertebrates
    S Kawamura
    Department of Biology, Syracuse University, NY 13244, USA
    Vision Res 36:2797-804. 1996
    ..The shorter wavelengths of absorption by the two SWS subgroup opsins seem to be achieved by different sets of amino acid replacements in the transmembrane regions...
  16. ncbi request reprint Molecular characterization of the red visual pigment gene of the American chameleon (Anolis carolinensis)
    S Kawamura
    Department of Biology, Syracuse University, NY 13244
    FEBS Lett 323:247-51. 1993
    ..We identified nine Anolis-specific amino acid replacements, seven of which reside in transmembrane domains and might contribute to the red-shift of the Anolis visual pigments...
  17. ncbi request reprint The "five-sites" rule and the evolution of red and green color vision in mammals
    S Yokoyama
    Department of Biology, Syracuse University, New York 13244, USA
    Mol Biol Evol 15:560-7. 1998
    ..The inferred amino acid sequences of ancestral organisms suggest that the extant mammalian red and green pigments appear to have evolved from a single ancestral green-red hybrid pigment by directed amino acid substitutions...
  18. ncbi request reprint Molecular genetic basis of adaptive selection: examples from color vision in vertebrates
    S Yokoyama
    Department of Biology, Syracuse University, New York, USA
    Annu Rev Genet 31:315-36. 1997
    ..The identification of potentially important amino acid changes using evolutionary biological means is an indispensable step in elucidating the molecular mechanisms that underlie the spectral tuning of visual pigments...
  19. ncbi request reprint Expression of visual and nonvisual opsins in American chameleon
    S Kawamura
    Department of Biology, Syracuse University, NY 13244, USA
    Vision Res 37:1867-71. 1997
    ..Although opsins are detected in the pineal glands of a wide variety of vertebrates, Southern analysis suggests that the P-opsin gene is used mainly by birds and reptiles...
  20. ncbi request reprint Molecular evolution of vertebrate visual pigments
    S Yokoyama
    Biological Research Laboratories, Department of Biology, Syracuse University, Syracuse, NY 13244, USA
    Prog Retin Eye Res 19:385-419. 2000
    ..Therefore, both molecular evolutionary analyses of visual pigments and vision science have an important common goal...
  21. ncbi request reprint Cloning of the rhodopsin-encoding gene from the rod-less lizard Anolis carolinensis
    S Kawamura
    Department of Biology, Syracuse University, NY 13244
    Gene 149:267-70. 1994
    ..Four out of these six replacements (S22N, N199H, E232A and T319M) reside outside the transmembrane (TM) domains. Some of these replacements might have been required for Rh to function solely in the pineal gland...
  22. ncbi request reprint Paralogous origin of the rhodopsinlike opsin genes in lizards
    S Kawamura
    Department of Biology, Syracuse University, NY 13244, USA
    J Mol Evol 40:594-600. 1995
    ..This gene tree differs from the organismal tree, where the two lizard species should be most closely related, implying that rh2Ac and the gecko blue-sensitive opsin genes have been derived from duplicate ancestral genes...
  23. ncbi request reprint Molecular characterization of a class IV human alcohol dehydrogenase gene (ADH7)
    S Yokoyama
    Department of Biology, Syracuse University, NY 13244
    FEBS Lett 351:411-5. 1994
    ..We report here the isolation and sequence determination of a novel human ADH gene (ADH7). Phylogenetic analysis strongly suggests that ADH7 is a functional class IV ADH gene...
  24. ncbi request reprint Molecules, biodiversity, and adaptive evolution
    S Yokoyama
    Department of Biology, Rollins Research Center, Emory University, 1510 Clifton Road, Atlanta, GA 30322, USA
    J Hered 96:169-70. 2005
  25. ncbi request reprint Human ABCA1 contains a large amino-terminal extracellular domain homologous to an epitope of Sjögren's Syndrome
    A R Tanaka
    Laboratory of Biochemistry, Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Kyoto, 606 8502, Japan
    Biochem Biophys Res Commun 283:1019-25. 2001
    ..We found that this amino-terminal extracellular domain contains a segment homologous to the autoantigen SS-N, an epitope of Sjögren's syndrome, and further identified that ABCA7 codes for the autoantigen SS-N...
  26. ncbi request reprint Characterization of acyl-CoA-binding protein (ACBP) in the pheromone gland of the silkworm, Bombyx mori
    S Matsumoto
    The Institute of Physical and Chemical Research RIKEN, Hirosawa 2 1, Wako Shi, Saitama 351 0198, Japan
    Insect Biochem Mol Biol 31:603-9. 2001
    ..Present results suggest that ACBP plays a significant role in the production of sex pheromones regulated by the neurohormone, pheromone biosynthesis activating neuropeptide (PBAN)...
  27. ncbi request reprint Structural basis for the recognition of isoleucyl-adenylate and an antibiotic, mupirocin, by isoleucyl-tRNA synthetase
    T Nakama
    Department of Biophysics and Biochemistry, Graduate School of Science, University of Tokyo, 7 3 1 Hongo, Bunkyo ku, Tokyo 113 0033, Japan
    J Biol Chem 276:47387-93. 2001
    ..Mutagenic analyses revealed that the replacement of the two residues significantly changed the sensitivity to mupirocin...
  28. ncbi request reprint Ankycorbin: a novel actin cytoskeleton-associated protein
    Y F Peng
    Department of Molecular Biology and Biochemistry, Osaka University Graduate School of Medicine Faculty of Medicine, Suita 565 0871, Japan
    Genes Cells 5:1001-8. 2000
    ..Many actin filament (F-actin)-binding proteins have been isolated and implicated in the maintenance and reorganization of actin cytoskeleton structures...
  29. ncbi request reprint KCR1, a membrane protein that facilitates functional expression of non-inactivating K+ currents associates with rat EAG voltage-dependent K+ channels
    N Hoshi
    Department of Biophysical Genetics, Kanazawa University Graduate School of Medicine, Kanazawa 920 8640, Japan
    J Biol Chem 273:23080-5. 1998
    ..Far-Western blotting revealed that KCR1 and EAG proteins interacted with each other by means of their C-terminal regions. These results suggest that KCR1 is the regulatory component of non-inactivating K+ channels...
  30. ncbi request reprint Potassium channels from NG108-15 neuroblastoma-glioma hybrid cells. Primary structure and functional expression from cDNAs
    S Yokoyama
    Department of Medical Chemistry, Kyoto University Faculty of Medicine, Japan
    FEBS Lett 259:37-42. 1989
    ..mRNAs derived from both the cloned cDNAs, when injected into Xenopus oocytes, direct the formation of functional potassium channels with properties of delayed rectifiers...
  31. ncbi request reprint B2 bradykinin receptors in NG108-15 cells: cDNA cloning and functional expression
    S Yokoyama
    Department of Biophysics, Neuroinformation Research Institute, Kanazawa University School of Medicine, Japan
    Biochem Biophys Res Commun 200:634-41. 1994
    ..These results suggest that both the rat and mouse B2 BKRs of the smooth muscle type are expressed in NG108-15 cells...
  32. ncbi request reprint Cysteine-rich region of Raf-1 interacts with activator domain of post-translationally modified Ha-Ras
    C D Hu
    Department of Physiology II, Kobe University School of Medicine, Japan
    J Biol Chem 270:30274-7. 1995
    ..These results suggest that the activator domain of Ha-Ras participates in activation of Raf-1 through interaction with CRR and that post-translational modifications of Ha-Ras are required for this interaction...
  33. ncbi request reprint Coassociation of Rap1A and Ha-Ras with Raf-1 N-terminal region interferes with ras-dependent activation of Raf-1
    C D Hu
    Department of Physiology II, Kobe University School of Medicine, 7 5 1 Kusunoki cho, Chuo Ku, Kobe 650, Japan
    J Biol Chem 272:11702-5. 1997
    ..These results suggest that Rap1A interferes with Ras-dependent Raf-1 activation by inhibiting binding of Ras to Raf-1 CRR...
  34. ncbi request reprint Tomosyn: a syntaxin-1-binding protein that forms a novel complex in the neurotransmitter release process
    Y Fujita
    Department of Molecular Biology and Biochemistry, Osaka University Medical School, Suita, Japan
    Neuron 20:905-15. 1998
    ..These results suggest that tomosyn is an important component in the neurotransmitter release process where it may stimulate SNARE complex formation...
  35. ncbi request reprint Architectures of class-defining and specific domains of glutamyl-tRNA synthetase
    O Nureki
    Department of Biophysics and Biochemistry, School of Science, University of Tokyo, Japan
    Science 267:1958-65. 1995
    ....
  36. ncbi request reprint Crystallization and preliminary X-ray analysis of a DNA primase from hyperthermophilic archaeon Pyrococcus horikoshii
    N Ito
    Cellular Physiology Laboratory, RIKEN (The Institute of Physical and Chemical Research, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
    J Biochem 130:727-30. 2001
    ..8 and 2.2 A resolution, respectively, with synchrotron radiation at SPring-8 under flash-frozen conditions at 100 K. The four wavelength MAD data provided a phase to determine the structure of the primase at 2.2 A resolution...
  37. pmc Structural and mutational studies of the recognition of the arginine tRNA-specific major identity element, A20, by arginyl-tRNA synthetase
    A Shimada
    Department of Biophysics and Biochemistry, Graduate School of Science, The University of Tokyo, 7 3 1 Hongo, Bunkyo ku, Tokyo 113 0033, Japan
    Proc Natl Acad Sci U S A 98:13537-42. 2001
    ..Other mutants of Asn(79) also exhibited broader specificity for the nucleotide at position 20 of tRNA(Arg). We propose a model of A20 recognition by the ArgRS that is consistent with the present results of the mutational analyses...
  38. ncbi request reprint Role of CEACAM1 isoforms in an in vivo model of mammary morphogenesis: mutational analysis of the cytoplasmic domain of CEACAM1-4S reveals key residues involved in lumen formation
    S Yokoyama
    Division of Immunology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA
    Oncogene 26:7637-46. 2007
    ....
  39. ncbi request reprint The genes for human alcohol dehydrogenases beta 1 and beta 2 differ by only one nucleotide
    Y Matsuo
    Department of Ecology, Ethology and Evolution, University of Illinois, Urbana Champaign 61820
    Eur J Biochem 183:317-20. 1989
    ..Surprisingly, no silent substitution was found between the coding regions of ADH2(1) [Duester, G., Smith, M., Bilanchone, V. & Hatfield, G. W. (1986) J. Biol. Chem. 261, 2027-2033.] and ADH2(2) alleles over the 1122 nucleotide sites...
  40. ncbi request reprint Identification and characterization of Asef2, a guanine-nucleotide exchange factor specific for Rac1 and Cdc42
    Y Kawasaki
    Laboratory of Molecular and Genetic Information, Institute for Molecular and Cellular Biosciences, University of Tokyo, Tokyo, Japan
    Oncogene 26:7620-267. 2007
    ..These results suggest that similar to Asef, Asef2 plays an important role in cell migration, and that Asef2 activated by truncated mutant APC is required for aberrant migration of colorectal tumor cells...
  41. ncbi request reprint Molecular structure of the human alcohol dehydrogenase 1 gene
    Y Matsuo
    Department of Ecology, Ethology, and Evolution, University of Illinois, Champaign 61820
    FEBS Lett 243:57-60. 1989
    ..The nucleotide sequence of this allele is identical to that of a cDNA clone [(1986) Biochemistry 25, 2465-2470] and the intron positions of the ADH1 gene are identical to that of the ADH2 gene [(1986) J. Biol. Chem. 261, 2027-2033]...
  42. ncbi request reprint Cloning and overexpression of the oah1 gene encoding O-acetyl-L-homoserine sulfhydrylase of Thermus thermophilus HB8 and characterization of the gene product
    H Shimizu
    Department of Biotechnology, Faculty of Agriculture, Gifu University, Japan
    Biochim Biophys Acta 1549:61-72. 2001
    ..thermophilus HB8, only under such conditions as deficiency in transsulfuration, bringing about a sufficient amount of sulfide available in the cell...
  43. ncbi request reprint Recombination of two homologous MHC class III genes of the mouse (C4 and Slp) that accounts for the loss of testosterone dependence of sex-limited protein expression
    K Nakayama
    J Immunol 138:620-7. 1987
    ..It is suggested that 5'-flanking region derived from C4 in these C4-Slp recombinant genes accounts for testosterone-independent expression of Slp in C3H.W7 mouse...
  44. pmc Crystal structure of the CENP-B protein-DNA complex: the DNA-binding domains of CENP-B induce kinks in the CENP-B box DNA
    Y Tanaka
    RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan
    EMBO J 20:6612-8. 2001
    ..The overall bending angle is 59 degrees, which may be important for the centromere-specific chromatin structure...
  45. ncbi request reprint Crystal structure of human AUH protein, a single-stranded RNA binding homolog of enoyl-CoA hydratase
    K Kurimoto
    Department of Biophysics and Biochemistry, Graduate School of Science, The University of Tokyo, 7 3 1 Hongo, Bunkyo ku, Tokyo 113 0033, Japan
    Structure 9:1253-63. 2001
    ..A segment of AUH, named the R peptide, binds to RNA. However, the mechanism of the RNA binding activity of AUH remains to be elucidated...
  46. ncbi request reprint Mild hypothermia reduces expression of intercellular adhesion molecule-1 (ICAM-1) and the accumulation of neutrophils after acid-induced lung injury in the rat
    S Kira
    1st Department of Pathology, Oita University Faculty of Medicine, Hasama machi, Oita, Japan
    Acta Anaesthesiol Scand 49:351-9. 2005
    ..We studied the effects of mild hypothermia on the expression of ICAM-1 and the accumulation of neutrophils after AILI in the rat...
  47. ncbi request reprint Methionyl-tRNA synthetase gene from an extreme thermophile, Thermus thermophilus HB8. Molecular cloning, primary-structure analysis, expression in Escherichia coli, and site-directed mutagenesis
    O Nureki
    Department of Biophysics and Biochemistry, Faculty of Science, University of Tokyo, Japan
    J Biol Chem 266:3268-77. 1991
    ..Further upstream a region contains a nucleotide sequence homologous to that of the 5' half of T. thermophilus initiator tRNA(Met)...
  48. ncbi request reprint Post-secretion neutralization of transgene-derived effect: soluble erythropoietin receptor/IgG1Fc expressed in liver neutralizes erythropoietin produced in muscle
    H Maruyama
    Division of Clinical Nephrology and Rheumatology, Niigata University Graduate School of Medical and Dental Sciences, 1 757 Asahimachidori, Niigata 951 8120, Japan
    J Gene Med 6:228-37. 2004
    ..Neutralization following secretion is another important backup system to prevent super-therapeutic levels of a protein from being expressed by gene transfer...
  49. ncbi request reprint The novel mutation K87E in ribosomal protein S12 enhances protein synthesis activity during the late growth phase in Escherichia coli
    T Hosaka
    National Food Research Institute, 2 1 12 Kannondai, Tsukuba, Ibaraki 305 8642, Japan
    Mol Genet Genomics 271:317-24. 2004
    ..We propose that the aberrant activation of protein synthesis at the late growth phase is caused by the increased stability of the ribosome...
  50. ncbi request reprint Enhancement of ultraviolet-induced apoptosis by NF-kappaB decoy oligonucleotides
    S Yokoyama
    Department of Dermatology, Hirosaki University School of Medicine, 5 Zaifu cho, Hirosaki 036 8562, Japan
    Br J Dermatol 153:47-51. 2005
    ..However, the application of this new therapeutic modality to skin diseases has not been fully documented...
  51. ncbi request reprint Re-emission of heavy water vapour from soil to the atmosphere
    S Yokoyama
    Japan Atomic Energy Research Institute, Department of Health Physics, Tokai mura, 319 1195 Ibaraki ken, Japan
    J Environ Radioact 71:201-13. 2004
    ..It was found that the model is applicable to calculating the time variations of detailed depth profiles of HDO concentration in soil water in surface soil layers, using an estimated exchange velocity...
  52. ncbi request reprint L3/Lhx8 is a pivotal factor for cholinergic differentiation of murine embryonic stem cells
    T Manabe
    Department of 2nd Anatomy, Faculty of Medicine, Nara Medical University, 840 Shijyo cho, Kasihara City, Nara 634 8521, Japan
    Cell Death Differ 14:1080-5. 2007
    ..These results strongly suggest that L3/Lhx8 is a key factor in the cholinergic differentiation of murine ES cells and is involved in basal forebrain development...
  53. ncbi request reprint Preferential transcription of a gene for alpha amylase in the carcinoid tumor of African rodent Mastomys natalensis
    T Daa
    First Dept of Pathology, Oita Medical University, Japan
    J Exp Clin Cancer Res 21:131-6. 2002
    ..Immunohistochemical staining revealed alpha-amylase in the cytoplasm of Mastomys carcinoid tumors. Our results demonstrated that an exocrine enzyme 'amylase' could be produced ectopically by a neuroen docrine tumor...
  54. ncbi request reprint L3/Lhx8 is involved in the determination of cholinergic or GABAergic cell fate
    T Manabe
    Department of 2nd Anatomy, Faculty of Medicine, Nara Medical University, Kasihara City, Nara, Japan
    J Neurochem 94:723-30. 2005
    ..These results suggest the possibility that L3/Lhx8 is involved in the determination of transmitter phenotypes (GABAergic or cholinergic cell fate) in a population of neurons during basal forebrain development...
  55. ncbi request reprint Further evidence for the involvement of insulin receptor substrates in epidermal growth factor-induced activation of phosphatidylinositol 3-kinase
    T Fujioka
    Ui Laboratory, Institute of Physical and Chemical Research, Hirosawa, Wako, Japan
    Eur J Biochem 268:4158-68. 2001
    ..We suggest that tyrosine phosphorylation of IRS-1 or IRS-2 could mediate EGFR-induced activation of phosphatidylinositol 3-kinase in mammalian cells...
  56. pmc Homologous-pairing activity of the human DNA-repair proteins Xrcc3.Rad51C
    H Kurumizaka
    Genomic Sciences Center, RIKEN, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama shi, Kanagawa 230 0045, Japan
    Proc Natl Acad Sci U S A 98:5538-43. 2001
    ..Rad51C. Electron microscopic observations revealed that Xrcc3.Rad51C and Rad51C formed similar filamentous structures with circular single-stranded DNA...
  57. ncbi request reprint Glutamyl-tRNA synthetase from Thermus thermophilus HB8. Molecular cloning of the gltX gene and crystallization of the overproduced protein
    O Nureki
    Department of Biophysics and Biochemistry, Faculty of Science, University of Tokyo, Japan
    Eur J Biochem 204:465-72. 1992
    ..The crystals diffract X-rays beyond 0.35 nm. The crystal belongs to the orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters of a = 8.64 nm, b = 8.86 nm and c = 8.49 nm...
  58. ncbi request reprint A characteristic arrangement of aromatic amino acid residues in the solution structure of the amino-terminal RNA-binding domain of Drosophila sex-lethal
    M Inoue
    Department of Biophysics and Biochemistry, Graduate School of Science, The University of Tokyo, Tokyo, Hongo, Bunkyo ku, 113, Japan
    J Mol Biol 272:82-94. 1997
    ..In contrast, the second RBD of Sxl does not exhibit these characteristic features...
  59. ncbi request reprint Crystal structure of Escherichia coli methionyl-tRNA synthetase highlights species-specific features
    Y Mechulam
    Laboratoire de Biochimie, Ecole Polytechnique, CNRS UMR 7654, Palaiseau Cedex, F 91128, France
    J Mol Biol 294:1287-97. 1999
    ..Extreme cases are exemplified by the MetRS of eucaryotic or archaeal origin, where two knuckles and two metal ions are expected, and by the mitochondrial enzymes, which are predicted to have one knuckle without metal ion...
  60. ncbi request reprint Interactions of the amino acid residue at position 31 of the c-Ha-Ras protein with Raf-1 and RalGDS
    M Shirouzu
    Cellular Signaling Laboratory, Institute of Physical and Chemical Research RIKEN, Hirosawa 2 1, Wako Shi, Saitama 351 01, Japan
    J Biol Chem 273:7737-42. 1998
    ..All of these results clearly show that the sharp contrast between the characteristics of Ras and Rap1A, with respect to the interactions with Raf-1 and RalGDS, depends on their residues at position 31...
  61. ncbi request reprint Fusion of a novel gene, ELKS, to RET due to translocation t(10;12)(q11;p13) in a papillary thyroid carcinoma
    T Nakata
    Department of Molecular Biology, Institute of Gerontology, Nippon Medical School, Kawasaki, Kanagawa, Japan
    Genes Chromosomes Cancer 25:97-103. 1999
    ....
  62. ncbi request reprint Structural basis for recognition of the tra mRNA precursor by the Sex-lethal protein
    N Handa
    Department of Biophysics and Biochemistry, Graduate School of Science, University of Tokyo, Japan
    Nature 398:579-85. 1999
    ..This structure offers the first insight, to our knowledge, into how a protein binds specifically to a cognate RNA without any intramolecular base-pairing...
  63. ncbi request reprint Three splicing variants of tomosyn and identification of their syntaxin-binding region
    S Yokoyama
    Department of Molecular Biology and Biochemistry, Osaka University Medical School, Suita, 565 0871, Japan
    Biochem Biophys Res Commun 256:218-22. 1999
    ..This region was necessary but not sufficient for high-affinity binding of tomosyn to syntaxin-1...
  64. ncbi request reprint Nuclear magnetic resonance and molecular dynamics studies on the interactions of the Ras-binding domain of Raf-1 with wild-type and mutant Ras proteins
    T Terada
    Cellular Signaling Laboratory, The Institute of Physical and Chemical Research, 2 1 Hirosawa Wako shi Saitama 351 0198, Japan
    J Mol Biol 286:219-32. 1999
    ..Consistent with this, the D33A mutation in Ras greatly reduced its Raf-I RBD binding activity. We conclude that the major salt bridge partner of Lys84 in Raf-1 may be Asp33 in Ras...
  65. ncbi request reprint Ca2+ release and Ca2+ influx in Chinese hamster ovary cells expressing the cloned mouse B2 bradykinin receptor: tyrosine kinase inhibitor-sensitive and- insensitive processes
    M Taketo
    Department of Biophysics, Kanazawa University School of Medicine, Japan
    Biochim Biophys Acta 1355:89-98. 1997
    ....
  66. pmc The crystal structure of the ttCsaA protein: an export-related chaperone from Thermus thermophilus
    S Kawaguchi
    RIKEN Harima Institute at SPring 8, 1 1 1 Kouto, Mikazuki cho, Sayo gun, Hyogo 679 5148, Japan
    EMBO J 20:562-9. 2001
    ..These results raise the intriguing possibility that CsaA proteins possess a second, tRNA-binding activity in addition to their export-related function...
  67. pmc Unnatural base pairs for specific transcription
    T Ohtsuki
    Genomic Sciences Center, Exploratory Research for Advanced Technology (ERATO, Japan Science and Technology Corporation (JST, Institute of Physical and Chemical Research (RIKEN, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan
    Proc Natl Acad Sci U S A 98:4922-5. 2001
    ..The bulky dimethylamino group of x in the templates effectively eliminates noncognate pairing with the natural bases. These results enable RNA biosynthesis for the specific incorporation of unnatural nucleotides at the desired positions...
  68. pmc Overexpression of rat neuronal calcium sensor-1 in rodent NG108-15 cells enhances synapse formation and transmission
    X L Chen
    Department of Biophysical Genetics, Kanazawa University Graduate School of Medicine, Kanazawa 920-8640, Japan
    J Physiol 532:649-59. 2001
    ..The mean number of quanta per impulse (m) increased 5-fold. These results show that NCS-1 functions to facilitate synapse formation, probably because of the increased quantal content of evoked acetylcholine release...
  69. ncbi request reprint Evolution of the G protein alpha subunit multigene family
    T M Wilkie
    Pharmacology Department, UT Southwestern Medical Center, Dallas 75235 9041
    Soc Gen Physiol Ser 49:249-70. 1994
    ..Members of all four classes are expressed in invertebrates and vertebrates but not in other eukaryotes, suggesting that this quartet evolved with metazoan progenitors...
  70. ncbi request reprint Structural basis for anticodon recognition by discriminating glutamyl-tRNA synthetase
    S Sekine
    Cellular Signaling Laboratory, RIKEN Harima Institute at SPring 8, 1 1 1 Kouto, Mikazuki cho, Sayo, Hyogo 679 5148, Japan
    Nat Struct Biol 8:203-6. 2001
    ..The mutation of Arg 358 to Gln resulted in a GluRS that does not discriminate between the Glu and Gln anticodons. This change mimics the reverse course of GluRS evolution from anticodon 'non-dicsriminating' to 'discriminating'...
  71. ncbi request reprint Characterization of the N-oligosaccharides attached to the atypical Asn-X-Cys sequence of recombinant human epidermal growth factor receptor
    C Sato
    Department of Structural Biology, Biomolecular Engineering Research Institute, Furuedai Suita, Osaka 565 0874, Japan
    J Biochem 127:65-72. 2000
    ..Therefore, sEGFR with the mutation of Asn(32) -> Lys(32 )is useful for biophysical and biochemical studies, and, particularly, for X-ray crystallography...
  72. ncbi request reprint A novel transcript from a pseudogene for human glucocerebrosidase in non-Gaucher disease cells
    K Imai
    Department of Biochemistry, Shimane Medical University, Izumo, Japan
    Gene 136:365-8. 1993
    ..In vitro translation of RNA synthesized by transcription of the pseudogene cDNA produced a polypeptide of approximately 30 kDa...
  73. ncbi request reprint Solution structure of the human parvulin-like peptidyl prolyl cis/trans isomerase, hPar14
    T Terada
    Genomic Sciences Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho, Tsurumi, Yokohama 230 0045, Japan
    J Mol Biol 305:917-26. 2001
    ..Therefore, the mechanism determining the substrate specificity seems to be different between hPar14 and hPin1...
  74. pmc Structure of the EMAPII domain of human aminoacyl-tRNA synthetase complex reveals evolutionary dimer mimicry
    L Renault
    Laboratoire d Enzymologie et Biochimie Structurales, CNRS, 1 Avenue de la Terrasse, 91198 Gif sur Yvette Cedex, France
    EMBO J 20:570-8. 2001
    ..The low sequence homology between the extra domain of EMAPII and either its own OB fold or that of Trbps suggests that dimer mimicry originated from convergent evolution rather than gene duplication...
  75. ncbi request reprint Solution structure of the Eps15 homology domain of a human POB1 (partner of RalBP1)
    S Koshiba
    Cellular Signaling Laboratory, The Institute of Physical and Chemical Research RIKEN, Wako, Saitama, Japan
    FEBS Lett 442:138-42. 1999
    ....