M Kimura

Summary

Affiliation: National Institute of Genetics
Country: Japan

Publications

  1. pmc Formation of a carboxy-terminal domain phosphatase (Fcp1)/TFIIF/RNA polymerase II (pol II) complex in Schizosaccharomyces pombe involves direct interaction between Fcp1 and the Rpb4 subunit of pol II
    Makoto Kimura
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411 8540, Japan
    Mol Cell Biol 22:1577-88. 2002
  2. pmc Involvement of multiple subunit-subunit contacts in the assembly of RNA polymerase II
    M Kimura
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411 8540, Japan
    Nucleic Acids Res 28:952-9. 2000
  3. ncbi Intracellular contents and assembly states of all 12 subunits of the RNA polymerase II in the fission yeast Schizosaccharomyces pombe
    M Kimura
    National Institute of Genetics, Department of Molecular Genetics, Mishima, Shizuoka, Japan
    Eur J Biochem 268:612-9. 2001
  4. pmc The Rpb4 subunit of fission yeast Schizosaccharomyces pombe RNA polymerase II is essential for cell viability and similar in structure to the corresponding subunits of higher eukaryotes
    H Sakurai
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411 8540, Japan
    Mol Cell Biol 19:7511-8. 1999
  5. ncbi Two large subunits of the fission yeast RNA polymerase II provide platforms for the assembly of small subunits
    A Ishiguro
    Department of Molecular Genetics, National Institute of Genetics, Shizuoka 411, Mishima, Japan
    J Mol Biol 279:703-12. 1998
  6. ncbi RNA polymerase II subunits 2, 3, and 11 form a core subassembly with DNA binding activity
    M Kimura
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411, Japan
    J Biol Chem 272:25851-5. 1997
  7. pmc The two alpha subunits of Escherichia coli RNA polymerase are asymmetrically arranged and contact different halves of the DNA upstream element
    K Murakami
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka, Japan
    Proc Natl Acad Sci U S A 94:1709-14. 1997
  8. ncbi Subunits of yeast RNA polymerases: structure and function
    A Ishihama
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411, Japan
    Curr Opin Microbiol 1:190-6. 1998
  9. ncbi Identification of the gene and the protein of RNA polymerase II subunit 9 (Rpb9) from the fission yeast Schizosacharomyces pombe
    H Sakurai
    National Institute of Genetics, Department of Molecular Genetics, Shizuoka, Japan
    Gene 221:11-6. 1998
  10. ncbi Functional organization of two large subunits of the fission yeast Schizosaccharomyces pombe RNA polymerase II. Location of the catalytic sites
    W A Wlassoff
    National Institute of Genetics, Department of Molecular Genetics, Mishima, Shizuoka 411 8540, Japan
    J Biol Chem 274:5104-13. 1999

Collaborators

  • H Sakurai
  • H Mitsuzawa
  • Akira Ishihama
  • K Murakami
  • Yoshiaki Kouzuma
  • Shunsuke Kawamura
  • Fumio Hanaoka
  • Takehiko Shibata
  • Tomomitsu Hatakeyama
  • Yoshimitsu Kakuta
  • Isao Tanaka
  • Isamu Yamaguchi
  • Tomoyuki Numata
  • Min Yao
  • Naoko Takahashi-Ando
  • Shin Kawano
  • Yoshinori Shingu
  • Hisanori Takagi
  • Tomoko Igawa
  • Kazumi Kimura
  • Kazumasa Hada
  • Takashi Nakashima
  • Toshiaki Kudo
  • Hiroshi Hamamoto
  • Shuichi Ohsato
  • Maino Tahara
  • Tomoya Asano
  • Ayami Matsushima
  • Atsushi Terada
  • Aik Hong Teh
  • Takaomi Nomura
  • Hideo Fukuhara
  • Yoshiro Ono
  • Kazuhiro Hayashi
  • Mayumi Kifusa
  • Arisa Higa-Nishiyama
  • Ikuko Ishimatsu
  • Akiko Ohsawa
  • Shingo Kikukawa
  • Kenta Iwasaki
  • Naomi Kurata
  • Madoka Hino
  • Kazuo Yamaguchi
  • Michiko Yasuda
  • Hideo Nakashita
  • Daisuke Masuda
  • Takuo Osawa
  • W A Wlassoff
  • Hiroaki Shimada
  • Takumi Nishiuchi
  • Yasuyuki Shimohigashi
  • Xiaohui Liu
  • Takatoshi Tokunaga
  • Shun ichiro Kawabata
  • Hiroyuki Okada
  • Takamasa Teramoto
  • Takumi Koshiba
  • Toshio Uchiumi
  • Akira Hachimori
  • Masaki Yamamoto
  • Takao Naganuma
  • Takashi Kumasaka
  • Satoko Yokomizo
  • Kohji Nakano
  • A Ishiguro
  • Nobuo Tanaka
  • Takashi Honda
  • Yasushi Maki
  • Takeshi Hayashi
  • Chiaki Sato-Tsuchiya
  • Tomomichi Watanabe
  • Tadashi Furumoto
  • Yoshiaki Ohkuma
  • Tomoko Kudo
  • Takahiro Okada
  • Aki Tanaka
  • Tsutomu Shimizu
  • Takeshi Tokai
  • Masayuki Yokoi
  • Mitsutoshi Watanabe
  • Tetsuko Ochiai-Fukuda
  • Sakura Saito
  • Ritsu Kamachi
  • Shigehiro Maetani
  • Tadashi Ueda
  • Yuichiro Yoshida
  • Akio Suzuki
  • Hiroyuki Osada
  • Tohru Kariu
  • Hideaki Kakeya

Detail Information

Publications45

  1. pmc Formation of a carboxy-terminal domain phosphatase (Fcp1)/TFIIF/RNA polymerase II (pol II) complex in Schizosaccharomyces pombe involves direct interaction between Fcp1 and the Rpb4 subunit of pol II
    Makoto Kimura
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411 8540, Japan
    Mol Cell Biol 22:1577-88. 2002
    ..This result indicates the importance of Fcp1-Rpb4 interaction for formation of the Fcp1/TFIIF/pol II complex in vivo...
  2. pmc Involvement of multiple subunit-subunit contacts in the assembly of RNA polymerase II
    M Kimura
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411 8540, Japan
    Nucleic Acids Res 28:952-9. 2000
    ..We propose a mechanism in which the assembly of RNA poly-merase II is stabilized through multiple subunit-subunit contacts...
  3. ncbi Intracellular contents and assembly states of all 12 subunits of the RNA polymerase II in the fission yeast Schizosaccharomyces pombe
    M Kimura
    National Institute of Genetics, Department of Molecular Genetics, Mishima, Shizuoka, Japan
    Eur J Biochem 268:612-9. 2001
    ..In agreement with the biochemical analysis, the GFP-Rpb1 and GFP-Rpb3 fusions were present in the nuclei but the GFP-Rpb4 was detected in the cytoplasm as well as the nuclei...
  4. pmc The Rpb4 subunit of fission yeast Schizosaccharomyces pombe RNA polymerase II is essential for cell viability and similar in structure to the corresponding subunits of higher eukaryotes
    H Sakurai
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411 8540, Japan
    Mol Cell Biol 19:7511-8. 1999
    ..However, S. pombe Rpb4 is closer in certain molecular functions to S. cerevisiae RPB4 than the eukaryotic RPB4 homologues...
  5. ncbi Two large subunits of the fission yeast RNA polymerase II provide platforms for the assembly of small subunits
    A Ishiguro
    Department of Molecular Genetics, National Institute of Genetics, Shizuoka 411, Mishima, Japan
    J Mol Biol 279:703-12. 1998
    ..Direct contact of the two large subunits, Rpb1 and Rpb2, was also demonstrated by cross-linking...
  6. ncbi RNA polymerase II subunits 2, 3, and 11 form a core subassembly with DNA binding activity
    M Kimura
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411, Japan
    J Biol Chem 272:25851-5. 1997
    ..Both the Rpb2-Rpb3-Rpb11 complex and the free Rpb1 protein showed DNA binding activity, although the affinity was weaker compared with the intact RNA polymerase...
  7. pmc The two alpha subunits of Escherichia coli RNA polymerase are asymmetrically arranged and contact different halves of the DNA upstream element
    K Murakami
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka, Japan
    Proc Natl Acad Sci U S A 94:1709-14. 1997
    ..The results clearly indicated that the two alpha subunits bind in tandem to two helix turns of the rrnBP1 UP element, and that the beta'-associated alpha subunit is bound to the promoter-distal region...
  8. ncbi Subunits of yeast RNA polymerases: structure and function
    A Ishihama
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411, Japan
    Curr Opin Microbiol 1:190-6. 1998
    ..These protein-protein interactions ultimately lead to control of the activity and specificity of the RNA polymerases...
  9. ncbi Identification of the gene and the protein of RNA polymerase II subunit 9 (Rpb9) from the fission yeast Schizosacharomyces pombe
    H Sakurai
    National Institute of Genetics, Department of Molecular Genetics, Shizuoka, Japan
    Gene 221:11-6. 1998
    ..After Western blot analysis using antibodies raised against the protein product of the newly isolated rpb9 gene, we found that the purified RNA polymerase II contains Rpb9...
  10. ncbi Functional organization of two large subunits of the fission yeast Schizosaccharomyces pombe RNA polymerase II. Location of the catalytic sites
    W A Wlassoff
    National Institute of Genetics, Department of Molecular Genetics, Mishima, Shizuoka 411 8540, Japan
    J Biol Chem 274:5104-13. 1999
    ..All these regions include the conserved sequences of RNA polymerases, and the catalytic site of Rpb2 belongs to an NH2-terminal part of its conserved sequence H...
  11. ncbi Functional map of the alpha subunit of Escherichia coli RNA polymerase: amino acid substitution within the amino-terminal assembly domain
    M Kimura
    Department of Molecular Genetics, National Institute of Genetics, Shizuoka, Japan
    J Mol Biol 254:342-9. 1995
    ..Isolation of two mutants, alpha-K86A and alpha-V173A, both forming alpha 2 beta but not alpha 2 beta beta' complex, confirmed our previous conclusion that two separated regions participate in beta'-binding...
  12. ncbi Studies of Schizosaccharomyces pombe TFIIE indicate conformational and functional changes in RNA polymerase II at transcription initiation
    Kazuhiro Hayashi
    Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565 0871, Japan
    Genes Cells 10:207-24. 2005
    ....
  13. pmc Tfg3, a subunit of the general transcription factor TFIIF in Schizosaccharomyces pombe, functions under stress conditions
    Makoto Kimura
    Gene Engineering Division, BioResource Center, RIKEN Institute of Physical and Chemical Research, Tsukuba, Ibaraki 305 0074, Japan and Nippon Institute for Biological Science, Ome, Tokyo 198 0024, Japan
    Nucleic Acids Res 32:6706-15. 2004
    ..Taken together, we propose that Tfg3 is involved in transcriptional regulation under stress conditions, in particular, at high temperatures...
  14. ncbi Glyceraldehyde-3-phosphate dehydrogenase and actin associate with RNA polymerase II and interact with its Rpb7 subunit
    Hiroshi Mitsuzawa
    Department of Molecular Genetics, National Institute of Genetics, Mishima, Shizuoka 411 8540, Japan
    FEBS Lett 579:48-52. 2005
    ..In addition, GAPDH was affinity-purified from S. pombe extract by using an Rpb4/Rpb7-coupled column. We also identified actin as a pol II-associated protein and revealed the interaction between actin and Rpb7...
  15. ncbi AtNFXL1, an Arabidopsis homologue of the human transcription factor NF-X1, functions as a negative regulator of the trichothecene phytotoxin-induced defense response
    Tomoya Asano
    Division of Functional Genomics, Advanced Science Research Center, Kanazawa University, 13 1 Takaramachi, Kanazawa 920 0934, Japan
    Plant J 53:450-64. 2008
    ..tomato strain DC3000 (Pst DC3000). Taken together, these results indicate that AtNFXL1 plays an important role in the trichothecene response, as well as the general defense response in Arabidopsis...
  16. doi IRF2-binding protein-1 is a JDP2 ubiquitin ligase and an inhibitor of ATF2-dependent transcription
    Makoto Kimura
    Gene Engineering Division, RIKEN, 3 1 1 Koyadai, Tsukuba, Ibaraki, Japan
    FEBS Lett 582:2833-7. 2008
    ..As anticipated from the presence of a RING-finger domain, IRF2-BP1 enhanced the polyubiquitination of JDP2. Moreover, IRF2-BP1 repressed ATF2-mediated transcriptional activation from a CRE-containing promoter...
  17. ncbi Crystal structure of archaeal toxin-antitoxin RelE-RelB complex with implications for toxin activity and antitoxin effects
    Hisanori Takagi
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka 812 8581, Japan
    Nat Struct Mol Biol 12:327-31. 2005
    ..Site-directed mutagenesis suggests that Arg85, in the C-terminal region, is strongly involved in the functional activity of aRelE, whereas Arg40, Leu48, Arg58 and Arg65 play a modest role in the toxin's activity...
  18. ncbi Characterization of genes encoding metal tolerance proteins isolated from Nicotiana glauca and Nicotiana tabacum
    Yoshinori Shingu
    Environmental Plant Research Group, Plant Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama 230 0045, Japan
    Biochem Biophys Res Commun 331:675-80. 2005
    ..In yeast, these proteins were shown to be located to vacuole membrane. These results suggest that the three MTPs operate by sequestering Zn and Co into vacuoles, thereby reducing the toxicity of these metals...
  19. ncbi A wheat xylanase inhibitor gene, Xip-I, but not Taxi-I, is significantly induced by biotic and abiotic signals that trigger plant defense
    Tomoko Igawa
    Laboratory for Remediation Research, Plant Science Center, RIKEN, Saitama
    Biosci Biotechnol Biochem 69:1058-63. 2005
    ..The different expression profiles of XIP- and TAXI-type genes suggest distinct roles in plant defense...
  20. ncbi Protein-protein interactions in the subunits of ribonuclease P in the hyperthermophilic archaeon Pyrococcus horikoshii OT3
    Mayumi Kifusa
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka, Japan
    Biosci Biotechnol Biochem 69:1209-12. 2005
    ..In contrast, no interaction was detected between Ph1496p and the other four proteins. Co-immunoprecipitation analysis confirmed the interactions obtained by yeast two-hybrid assay...
  21. ncbi Crystal structure of a ribonuclease P protein Ph1601p from Pyrococcus horikoshii OT3: an archaeal homologue of human nuclear ribonuclease P protein Rpp21
    Yoshimitsu Kakuta
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka 812 8581, Japan
    Biochemistry 44:12086-93. 2005
    ....
  22. ncbi A model transgenic cereal plant with detoxification activity for the estrogenic mycotoxin zearalenone
    Arisa Higa-Nishiyama
    Laboratory for Remediation Research, Plant Science Center, RIKEN, 1 7 22 Suehiro, Kanagawa, Tsurumi, Yokohama 230 0045, Japan
    Transgenic Res 14:713-7. 2005
    ..g., wheat and maize) from contamination with the estrogenic mycotoxin...
  23. pmc In vitro reconstitution of the GTPase-associated centre of the archaebacterial ribosome: the functional features observed in a hybrid form with Escherichia coli 50S subunits
    Takaomi Nomura
    Institute of High Polymer Research, Faculty of Textile Science and Technology, Shinshu University, Ueda 386 8567, Japan
    Biochem J 396:565-71. 2006
    ..The results suggest that the archaebacterial proteins, including the Ph-L12 homodimer, are functionally accessible to eukaryotic translation factors...
  24. ncbi The 1.48 A resolution crystal structure of the homotetrameric cytidine deaminase from mouse
    Aik Hong Teh
    Department of Life Science, Tokyo Institute of Technology, 4259 B 6 Nagatsuta cho, Midori ku, Yokohama, Kanagawa 226 8501, Japan
    Biochemistry 45:7825-33. 2006
    ..Implications for CDA-RNA interaction have also been considered...
  25. ncbi Characterization of the archaeal ribonuclease P proteins from Pyrococcus horikoshii OT3
    Atsushi Terada
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Hakozaki 6 10 1, Higashi ku, Fukuoka 812 8581
    J Biochem 140:293-8. 2006
    ..Together, it is suggested that the P. horikoshii RNase P proteins are predominantly involved in optimization of the pRNA conformation, though they are individually dispensable for RNase P activity in vitro...
  26. ncbi Crystal structure and functional analysis of an archaeal chromatin protein Alba from the hyperthermophilic archaeon Pyrococcus horikoshii OT3
    Kazumasa Hada
    Laboratory of Structural Biology, Graduate School of Systems Life Sciences, Kyushu University, 6 10 1 Hakozaki, Fukuoka 812 8581, Japan
    Biosci Biotechnol Biochem 72:749-58. 2008
    ..These results suggest that PhoAlba contributes little to the catalytic activity of P. horikoshii RNase P...
  27. ncbi Crystal structures of the Nicotiana glutinosa ribonuclease NT in complex with nucleoside monophosphates
    Shin Kawano
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Hakozaki 6 10 1, Higashi ku, Fukuoka 812 8581
    J Biochem 140:375-81. 2006
    ..The nucleotide binding modes in these complexes would provide a clue to elucidation of structural basis for the broad base specificity for RNase NT...
  28. ncbi Conferring cadmium resistance to mature tobacco plants through metal-adsorbing particles of tomato mosaic virus vector
    Yoshinori Shingu
    Environmental Plant Research Group, RIKEN Plant Science Center, Suehiro cho 1 7 22, Tsurumi, Yokohama, 230 0045, Japan
    Plant Biotechnol J 4:281-8. 2006
    ..This shows the possible use of an artificial sink for metal tolerance and the advantage of employing a plant viral vector for phytoremediation...
  29. ncbi Structural evidence for endocrine disruptor bisphenol A binding to human nuclear receptor ERR gamma
    Ayami Matsushima
    Laboratory of Structure Function Biochemistry, Department of Chemistry, Research Education Centre of Risk Science, Faculty and Graduate School of Sciences, Kyushu University, Fukuoka 812 8581, Japan
    J Biochem 142:517-24. 2007
    ..Our results present the first evidence that the nuclear receptor forms complexes with the endocrine disruptor, providing detailed molecular insight into the interaction features...
  30. ncbi Crystal structure of hyperthermophilic archaeal initiation factor 5A: a homologue of eukaryotic initiation factor 5A (eIF-5A)
    Min Yao
    Division of Biological Science, Graduate School of Science, Hokkaido University, Sapporo 066 0810
    J Biochem 133:75-81. 2003
    ..These findings led to the speculation that the concave surface and loop L1 at the N-domain may be involved in RNA binding, while the opposite side of the concave surface in the C-domain may be involved in protein interaction...
  31. pmc A novel lactonohydrolase responsible for the detoxification of zearalenone: enzyme purification and gene cloning
    Naoko Takahashi-Ando
    Laboratory for Remediation Research, Plant Science Centre, RIKEN, 2 1 Hirosawa, Wako, Saitama 351 0198, Japan
    Biochem J 365:1-6. 2002
    ..Zhd101 could be a promising genetic resource for in planta detoxification of the mycotoxin in important crops...
  32. ncbi Molecular cloning of cDNAs encoding ribonuclease-related proteins in Nicotiana glutinosa leaves, as induced in response to wounding or to TMV-infection
    Naomi Kurata
    Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka, Japan
    Biosci Biotechnol Biochem 66:391-7. 2002
    ..In contrast, the expression of the NGR3 gene is induced after 48 h upon TMV infection...
  33. ncbi Expression of Nicotiana glutinosa ribonucleases in Escherichia coli
    Madoka Hino
    Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka, Japan
    Biosci Biotechnol Biochem 66:910-2. 2002
    ..Furthermore, kinetic parameters for RNase NW (Km, 0.778 mM and kcat, 1938 min(-1)) and RNase NGR3 (Km, 0.548 mM and kcat, 408 min(-1)) were calculated using GpU as a substrate...
  34. ncbi Guanine binding site of the Nicotiana glutinosa ribonuclease NW revealed by X-ray crystallography
    Shin Kawano
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka 812 8581, Japan
    Biochemistry 41:15195-202. 2002
    ..Therefore, Gln12, Tyr17, Thr78, Leu79, and Phe89 are responsible for recognition of the guanine base by RNase NW, findings which provide insight into the manner in which RNase NW preferentially cleaves guanylic acid...
  35. ncbi Crystal structures of the ribonuclease MC1 mutants N71T and N71S in complex with 5'-GMP: structural basis for alterations in substrate specificity
    Tomoyuki Numata
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka 812 8581, Japan
    Biochemistry 42:5270-8. 2003
    ..Consequently, it can be concluded that amino acids at position 71 (RNase MC1 numbering) serve as one of the determinants for substrate specificity (or preference) in the RNase T2 fimily by changing the size and shape of the B2 site...
  36. ncbi Reconstitution of archaeal ribonuclease P from RNA and four protein components
    Yoshiaki Kouzuma
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Kyushu University, Hakozaki 6 10 1, Higashi ku, 812 8581, Fukuoka, Japan
    Biochem Biophys Res Commun 306:666-73. 2003
    ..The present data will pave the way for the elucidation of the reaction mechanism for archaeal as well as eukaryotic RNase P...
  37. ncbi Characterization of functional domains of the hemolytic lectin CEL-III from the marine invertebrate Cucumaria echinata
    Yoshiaki Kouzuma
    Laboratory of Biochemistry, Faculty of Agriculture, Graduate School, Kyushu University, Hakozaki 6 10 1 Higashi ku, Fukuoka 812 8581
    J Biochem 134:395-402. 2003
    ..These results suggest that after binding to cell surface carbohydrate chains, CEL-III oligomerizes through C-terminal domains, leading to the formation of ion-permeable pores by hydrophobic interaction with the cell membrane...
  38. ncbi In vitro phosphorylation of initiation factor 2 alpha (aIF2 alpha) from hyperthermophilic archaeon Pyrococcus horikoshii OT3
    Maino Tahara
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Kyushu University, Hakozaki 6 10 1, Higashi ku, Fukuoka 812 8581
    J Biochem 135:479-85. 2004
    ..horikoshii. These findings suggest that aIF2 alpha, like eIF2 alpha in eukaryotes, plays a role in regulation of the protein synthesis in Archaea through phosphorylation and dephosphorylation...
  39. ncbi Crystal structure of the regulatory subunit of archaeal initiation factor 2B (aIF2B) from hyperthermophilic archaeon Pyrococcus horikoshii OT3: a proposed structure of the regulatory subcomplex of eukaryotic IF2B
    Yoshimitsu Kakuta
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka 812 8581, Japan
    Biochem Biophys Res Commun 319:725-32. 2004
    ..This structure suggests an architecture of the three subunits, alpha, beta, and delta, in the regulatory subcomplex within eIF2B...
  40. ncbi Crystal structure of the ribonuclease P protein Ph1877p from hyperthermophilic archaeon Pyrococcus horikoshii OT3
    Hisanori Takagi
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka 812 8581, Japan
    Biochem Biophys Res Commun 319:787-94. 2004
    ..The results presented here provide an initial step for definite understanding of how archaeal and eukaryotic RNase Ps mediate substrate recognition and process 5'-leader sequence of pre-tRNA...
  41. pmc Metabolism of zearalenone by genetically modified organisms expressing the detoxification gene from Clonostachys rosea
    Naoko Takahashi-Ando
    Laboratory for Remediation Research, Plant Science Center, RIKEN, 2 1 Hirosawa, Wako, Saitama 351 0198, Japan
    Appl Environ Microbiol 70:3239-45. 2004
    ..Environ. Microbiol. 68:3545-3549, 2002). An appropriate combination of a candidate host microbe and the codon-optimized synthetic gene may contribute significantly to establishing a mycotoxin detoxification system for food and feed...
  42. pmc Crystal structure of archaeal ribonuclease P protein Ph1771p from Pyrococcus horikoshii OT3: an archaeal homolog of eukaryotic ribonuclease P protein Rpp29
    Tomoyuki Numata
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka 812 8581, Japan
    RNA 10:1423-32. 2004
    ..These two potential sites for RNA binding are located in close proximity. The crystal structure of Ph1771p provides insight into the structure and function relationships of archaeal and eukaryotic RNase P...
  43. ncbi Amino acids conserved at the C-terminal half of the ribonuclease T2 family contribute to protein stability of the enzymes
    Kazumi Kimura
    Laboratory of Biochemistry, Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Hakozaki 6 10 1, Fukuoka 812 8581, Japan
    Biosci Biotechnol Biochem 68:1748-57. 2004
    ..Taken together, it appeared that Tyr(101), Phe(102), Ala(105), Pro(125), Gly(127), Gly(144), Leu(162), Val(165), and Phe(190) conserved in the RNase T2 family play an important role in the stability of the proteins...
  44. ncbi New TAXI-type xylanase inhibitor genes are inducible by pathogens and wounding in hexaploid wheat
    Tomoko Igawa
    Laboratory for Remediation Research, Plant Science Center, RIKEN, 1 7 22 Suehiro, Tsurumi, Yokohama, Kanagawa, 230 0045, Japan
    Plant Cell Physiol 45:1347-60. 2004
    ..xylanases: it was also active against some spelt xylan-induced xylanases of F. graminearum. These features suggest that some, but not all, TAXI-type xylanase inhibitors have a role in plant defense...
  45. ncbi On the interaction of ribosomal protein L5 with 5S rRNA
    Kenta Iwasaki
    Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu University, Fukuoka, Japan
    Biosci Biotechnol Biochem 66:103-9. 2002
    ....