thermococcus

Summary

Summary: A genus of extremely thermophilic heterotrophic archaea, in the family THERMOCOCCACEAE, occurring in heated sea flows. They are anerobic chemoorganotropic sulfidogens.

Top Publications

  1. pmc Insights into dynamics of mobile genetic elements in hyperthermophilic environments from five new Thermococcus plasmids
    Mart Krupovic
    Unité Biologie Moléculaire du Gène chez les Extrêmophiles, Departement de Microbiologie, Institut Pasteur, Paris, France
    PLoS ONE 8:e49044. 2013
  2. pmc Characterization of DNA primase complex isolated from the archaeon, Thermococcus kodakaraensis
    Wiebke Chemnitz Galal
    Program of Molecular Biology, Memorial Sloan Kettering Cancer Center, New York, New York 10065, USA
    J Biol Chem 287:16209-19. 2012
  3. pmc Archaeal DNA polymerase D but not DNA polymerase B is required for genome replication in Thermococcus kodakarensis
    Lubomira Cubonová
    Department of Microbiology, Ohio State University, Columbus, Ohio, USA
    J Bacteriol 195:2322-8. 2013
  4. pmc Thermococcus kodakarensis as a host for gene expression and protein secretion
    Ryo Takemasa
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    Appl Environ Microbiol 77:2392-8. 2011
  5. pmc Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes
    Toshiaki Fukui
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    Genome Res 15:352-63. 2005
  6. pmc Targeted gene disruption by homologous recombination in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1
    Takaaki Sato
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Yoshida Honmachi, Sakyo ku, Kyoto 606 8501
    J Bacteriol 185:210-20. 2003
  7. ncbi Comparative analyses of the two proliferating cell nuclear antigens from the hyperthermophilic archaeon, Thermococcus kodakarensis
    Yumani Kuba
    Department of Bioscience and Biotechnology, Faculty of Agriculture and Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Fukuoka, 812 8581, Japan
    Genes Cells 17:923-37. 2012
  8. ncbi TPV1, the first virus isolated from the hyperthermophilic genus Thermococcus
    Aurore Gorlas
    Laboratory of Microbiology of Extreme Environments, UMR 6197 CNRS UBO IUEM, Place Nicolas Copernic, Technopôle Brest Iroise Plouzane, France
    Environ Microbiol 14:503-16. 2012
  9. pmc Distinct physiological roles of the three [NiFe]-hydrogenase orthologs in the hyperthermophilic archaeon Thermococcus kodakarensis
    Tamotsu Kanai
    Department of Biotechnology, College of Life Sciences, Ritsumeikan University, Kusatsu 525 8577, Japan
    J Bacteriol 193:3109-16. 2011
  10. pmc Deletion of alternative pathways for reductant recycling in Thermococcus kodakarensis increases hydrogen production
    Thomas J Santangelo
    Department of Microbiology and Center for RNA Biology, Ohio State University, Columbus, OH 43210, USA
    Mol Microbiol 81:897-911. 2011

Detail Information

Publications277 found, 100 shown here

  1. pmc Insights into dynamics of mobile genetic elements in hyperthermophilic environments from five new Thermococcus plasmids
    Mart Krupovic
    Unité Biologie Moléculaire du Gène chez les Extrêmophiles, Departement de Microbiologie, Institut Pasteur, Paris, France
    PLoS ONE 8:e49044. 2013
    ..dynamics of mobile genetic elements in these environments we have sequenced five new plasmids from different Thermococcus strains that have been isolated from geographically remote hydrothermal vents...
  2. pmc Characterization of DNA primase complex isolated from the archaeon, Thermococcus kodakaraensis
    Wiebke Chemnitz Galal
    Program of Molecular Biology, Memorial Sloan Kettering Cancer Center, New York, New York 10065, USA
    J Biol Chem 287:16209-19. 2012
    ..the isolation and biochemical characterization of the DNA primase complex and its subunits from the archaeon Thermococcus kodakaraensis. The T...
  3. pmc Archaeal DNA polymerase D but not DNA polymerase B is required for genome replication in Thermococcus kodakarensis
    Lubomira Cubonová
    Department of Microbiology, Ohio State University, Columbus, Ohio, USA
    J Bacteriol 195:2322-8. 2013
    ..Here we report the construction of Thermococcus kodakarensis strains with mutations that delete or inactivate key functions of Pol B. T...
  4. pmc Thermococcus kodakarensis as a host for gene expression and protein secretion
    Ryo Takemasa
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    Appl Environ Microbiol 77:2392-8. 2011
    Taking advantage of the gene manipulation system developed in Thermococcus kodakarensis, here, we developed a system for gene expression and efficient protein secretion using this hyperthermophilic archaeon as a host cell...
  5. pmc Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes
    Toshiaki Fukui
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    Genome Res 15:352-63. 2005
    The genus Thermococcus, comprised of sulfur-reducing hyperthermophilic archaea, belongs to the order Thermococcales in Euryarchaeota along with the closely related genus Pyrococcus...
  6. pmc Targeted gene disruption by homologous recombination in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1
    Takaaki Sato
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Yoshida Honmachi, Sakyo ku, Kyoto 606 8501
    J Bacteriol 185:210-20. 2003
    ..This study aimed to develop a gene disruption system for the hyperthermophilic euryarchaeon Thermococcus kodakaraensis KOD1...
  7. ncbi Comparative analyses of the two proliferating cell nuclear antigens from the hyperthermophilic archaeon, Thermococcus kodakarensis
    Yumani Kuba
    Department of Bioscience and Biotechnology, Faculty of Agriculture and Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Fukuoka, 812 8581, Japan
    Genes Cells 17:923-37. 2012
    ..Among the Euryarchaeota whose genome is sequenced, Thermococcus kodakarensis is the only species with two genes encoding PCNA homologues on its genome...
  8. ncbi TPV1, the first virus isolated from the hyperthermophilic genus Thermococcus
    Aurore Gorlas
    Laboratory of Microbiology of Extreme Environments, UMR 6197 CNRS UBO IUEM, Place Nicolas Copernic, Technopôle Brest Iroise Plouzane, France
    Environ Microbiol 14:503-16. 2012
    We describe a novel virus, TPV1 (Thermococcus prieurii virus 1), which was discovered in a hyperthermophilic euryarchaeote isolated from a deep-sea hydrothermal chimney sample collected at a depth of 2700 m at the East Pacific Rise...
  9. pmc Distinct physiological roles of the three [NiFe]-hydrogenase orthologs in the hyperthermophilic archaeon Thermococcus kodakarensis
    Tamotsu Kanai
    Department of Biotechnology, College of Life Sciences, Ritsumeikan University, Kusatsu 525 8577, Japan
    J Bacteriol 193:3109-16. 2011
    ..The hyperthermophilic archaeon Thermococcus kodakarensis KOD1, which assimilates organic carbon coupled with the reduction of elemental sulfur (S⁰) or H..
  10. pmc Deletion of alternative pathways for reductant recycling in Thermococcus kodakarensis increases hydrogen production
    Thomas J Santangelo
    Department of Microbiology and Center for RNA Biology, Ohio State University, Columbus, OH 43210, USA
    Mol Microbiol 81:897-911. 2011
    Hydrogen (H₂) production by Thermococcus kodakarensis compares very favourably with the levels reported for the most productive algal, fungal and bacterial systems. T...
  11. ncbi Biochemical and genetic characterization of the three metabolic routes in Thermococcus kodakarensis linking glyceraldehyde 3-phosphate and 3-phosphoglycerate
    Kohei Matsubara
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    Mol Microbiol 81:1300-12. 2011
    ..In the Euryarchaeota Thermococcus kodakarensis and Pyrococcus furiosus, an additional gene encoding GAP:ferredoxin oxidoreductase (GAPOR) and a ..
  12. ncbi Effects of charge-to-alanine substitutions on the stability of ribosomal protein L30e from Thermococcus celer
    Chi Fung Lee
    Department of Biochemistry and Molecular Biotechnology Programme, Centre for Protein Science and Crystallography, The Chinese University of Hong Kong, Hong Kong SAR, China
    Biochemistry 44:16817-25. 2005
    ..Thus, optimization of the charge-charge interactions might be a useful approach for the rational increase in protein stability...
  13. pmc Stabilizing salt-bridge enhances protein thermostability by reducing the heat capacity change of unfolding
    Chi Ho Chan
    School of Life Sciences, Centre for Protein Science and Crystallography, The Chinese University of Hong Kong, Hong Kong, Shatin, Hong Kong SAR, China
    PLoS ONE 6:e21624. 2011
    ..Taken together, our results suggest that the extra salt-bridges found in thermophilic proteins enhance the thermostability of proteins by reducing ΔC(p), leading to the up-shifting and broadening of the protein stability curves...
  14. pmc Thermococcus kodakarensis encodes three MCM homologs but only one is essential
    Miao Pan
    Institute for Bioscience and Biotechnology Research, University of Maryland, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 39:9671-80. 2011
    ..Atypically, the Thermococcus kodakarensis genome encodes three archaeal MCM homologs, here designated MCM1-3, although MCM1 and MCM2 are ..
  15. pmc Shuttle vector expression in Thermococcus kodakaraensis: contributions of cis elements to protein synthesis in a hyperthermophilic archaeon
    Thomas J Santangelo
    Department of Microbiology, Ohio State University, Columbus, OH 43210 1292, USA
    Appl Environ Microbiol 74:3099-104. 2008
    Shuttle vectors that replicate stably and express selectable phenotypes in both Thermococcus kodakaraensis and Escherichia coli have been constructed. Plasmid pTN1 from Thermococcus nautilis was ligated to the commercial vector pCR2...
  16. ncbi Continuous hydrogen production by the hyperthermophilic archaeon, Thermococcus kodakaraensis KOD1
    Tamotsu Kanai
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    J Biotechnol 116:271-82. 2005
    The hydrogen (H2) production potential of the hyperthermophilic archaeon, Thermococcus kodakaraensis KOD1 was evaluated at 85 degrees C...
  17. pmc Thermococcus kodakarensis genetics: TK1827-encoded beta-glycosidase, new positive-selection protocol, and targeted and repetitive deletion technology
    Thomas J Santangelo
    Department of Microbiology, Ohio State University, Columbus, OH 43210, USA
    Appl Environ Microbiol 76:1044-52. 2010
    Inactivation of TK1761, the reporter gene established for Thermococcus kodakarensis, revealed the presence of a second beta-glycosidase that we have identified as the product of TK1827...
  18. ncbi Archaeal proviruses TKV4 and MVV extend the PRD1-adenovirus lineage to the phylum Euryarchaeota
    Mart Krupovic
    Department of Biological and Environmental Sciences, Biocenter 2, P O Box 56 Viikinkaari 5, FIN 00014 University of Helsinki, Finland
    Virology 375:292-300. 2008
    ..TKV4 and MVV, integrated into the 5'- and 3'-distal regions of tRNA genes of the euryarchaeal species Thermococcus kodakaraensis KOD1 and Methanococcus voltae A3, respectively...
  19. pmc Two novel families of plasmids from hyperthermophilic archaea encoding new families of replication proteins
    Nicolas Soler
    Institut de Genetique et Microbiologie, Univ Paris Sud, Orsay, France
    Nucleic Acids Res 38:5088-104. 2010
    ..The plasmids pTN2 from Thermococcus nautilus sp. 30-1 and pP12-1 from Pyrococcus sp. 12-1 belong to the same family...
  20. ncbi A global transcriptional regulator in Thermococcus kodakaraensis controls the expression levels of both glycolytic and gluconeogenic enzyme-encoding genes
    Tamotsu Kanai
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    J Biol Chem 282:33659-70. 2007
    ..Tgr), functioning as both an activator and a repressor of transcription in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1...
  21. pmc A highly divergent archaeo-eukaryotic primase from the Thermococcus nautilus plasmid, pTN2
    Sukhvinder Gill
    Institut Pasteur Unité Biologie Moléculaire du Gène chez les Extrêmophiles, 25 rue du Docteur Roux, 75015 Paris, France, CNRS UMR 7138 Systématique, Adaptation, Evolution, Université Paris 6 quai Saint Bernard, 75252 Paris Cedex 05, France and Univ Paris Sud Institut de Génétique et Microbiologie, CNRS UMR 8621, Orsay 91406, France
    Nucleic Acids Res 42:3707-19. 2014
    We report the characterization of a DNA primase/polymerase protein (PolpTN2) encoded by the pTN2 plasmid from Thermococcus nautilus...
  22. pmc Metabolic versatility and indigenous origin of the archaeon Thermococcus sibiricus, isolated from a siberian oil reservoir, as revealed by genome analysis
    Andrey V Mardanov
    Centre Bioengineering, Russian Academy of Sciences, Moscow, Russia
    Appl Environ Microbiol 75:4580-8. 2009
    b>Thermococcus species are widely distributed in terrestrial and marine hydrothermal areas, as well as in deep subsurface oil reservoirs...
  23. ncbi Structural basis for the ADP-specificity of a novel glucokinase from a hyperthermophilic archaeon
    S Ito
    Department of Biotechnology, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
    Structure 9:205-14. 2001
    ..However, certain hyperthermophilic archaea such as Thermococcus litoralis and Pyrococcus furiosus utilize unusual ADP-dependent glucokinases and phosphofructokinases in their ..
  24. pmc Formation of dAMP-glycerol and dAMP-Tris derivatives by Thermococcus kodakaraensis DNA primase
    Wiebke Chemnitz Galal
    Program of Molecular Biology, 5 Memorial Sloan Kettering Cancer Center, New York, New York 1006, USA
    J Biol Chem 287:16220-9. 2012
    In the presence of dATP, glycerol, and Tris buffer, the DNA primase isolated from Thermococcus kodakaraensis catalyzed the formation of dAMP and two products that were identified as dAMP-glycerol and dAMP-Tris...
  25. ncbi The Thermococcus kodakaraensis Tko CDC21-1 intein activates its N-terminal splice junction in the absence of a conserved histidine by a compensatory mechanism
    Kazuo Tori
    New England Biolabs, Ipswich, Massachusetts 01938, United States
    Biochemistry 51:2496-505. 2012
    ..This His is present in all inteins identified to date except the Thermococcus kodakaraensis Tko CDC21-1 intein orthologs and the inactive Arthrobacter species FB24 Arth_1007 intein...
  26. ncbi Thermococcus kodakarensis DNA replication
    Zhuo Li
    Institute for Bioscience and Biotechnology Research, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Biochem Soc Trans 41:332-8. 2013
    ..One of these organisms is the thermophilic euryarchaeon Thermococcus kodakarensis...
  27. ncbi TrmB, a sugar-specific transcriptional regulator of the trehalose/maltose ABC transporter from the hyperthermophilic archaeon Thermococcus litoralis
    Sung Jae Lee
    Department of Biology, University of Konstanz, Germany
    J Biol Chem 278:983-90. 2003
    ..of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of a gene cluster in Thermococcus litoralis, malE malF malG orf trmB malK, encoding a binding protein-dependent ABC transporter for trehalose and ..
  28. pmc An archaeal histone is required for transformation of Thermococcus kodakarensis
    Lubomira Čuboňováa
    Department of Microbiology, Ohio State University, Columbus, Ohio, USA
    J Bacteriol 194:6864-74. 2012
    ..Therefore, all DNA interactions in vivo in Thermococcus kodakarensis, the most genetically versatile model species for archaeal research, must occur in the context of ..
  29. pmc Thermococcus kodakarensis has two functional PCNA homologs but only one is required for viability
    Miao Pan
    Institute for Bioscience and Biotechnology Research, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Extremophiles 17:453-61. 2013
    ..Most eukarya and euryarchaea have only one PCNA homolog but Thermococcus kodakarensis uniquely has two, designated PCNA1 and PCNA2, encoded by TK0535 and TK0582, respectively...
  30. pmc Sulfide ameliorates metal toxicity for deep-sea hydrothermal vent archaea
    Virginia P Edgcomb
    Biology Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, USA
    Appl Environ Microbiol 70:2551-5. 2004
    ..Three hyperthermophilic vent archaea, the sulfur-reducing heterotrophs Thermococcus fumicolans and Pyrococcus strain GB-D and the chemolithoautotrophic methanogen Methanocaldococcus jannaschii, ..
  31. pmc Archaeal RNA polymerase subunits E and F are not required for transcription in vitro, but a Thermococcus kodakarensis mutant lacking subunit F is temperature-sensitive
    Akira Hirata
    Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA
    Mol Microbiol 70:623-33. 2008
    ..By gene replacement, we have isolated archaeal mutants of Thermococcus kodakarensis with the subunit F-encoding gene (rpoF) deleted, but we were unable to isolate mutants lacking the ..
  32. ncbi Expression profiles and physiological roles of two types of prefoldins from the hyperthermophilic archaeon Thermococcus kodakaraensis
    Atsushi Danno
    Department of Bioscience, Nanobiotechnology Research Center, School of Science and Technology, Kwansei Gakuin University, 2 1 Gakuen, Sanda, Hyogo 669 1337, Japan
    J Mol Biol 382:298-311. 2008
    The hyperthermophilic archaeon Thermococcus kodakaraensis possesses four prefoldin genes encoding two alpha subunits (pfdA and pfdC) and two beta subunits (pfdB and pfdD) of prefoldins on the genome...
  33. pmc Histone and TK0471/TrmBL2 form a novel heterogeneous genome architecture in the hyperthermophilic archaeon Thermococcus kodakarensis
    Hugo Maruyama
    Laboratory of Plasma Membrane and Nuclear Signaling, Graduate School of Biostudies, Kyoto University, Kyoto, Japan
    Mol Biol Cell 22:386-98. 2011
    ..2 (TrmBL2), in addition to histone, is a novel type of abundant chromosomal protein in the model euryarchaeon Thermococcus kodakarensis . The chromosome of T...
  34. ncbi Effective approaches for the production of heterologous proteins using the Thermococcus kodakaraensis-based translation system
    Takashi Endoh
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Kyoto, Japan
    J Biotechnol 133:177-82. 2008
    ..synthesis that can be operated at high temperatures using the cell lysate of a hyperthermophilic archaeon, Thermococcus kodakaraensis...
  35. pmc TFB1 or TFB2 is sufficient for Thermococcus kodakaraensis viability and for basal transcription in vitro
    Thomas J Santangelo
    Department of Microbiology, Ohio State University, Columbus, OH 43210, USA
    J Mol Biol 367:344-57. 2007
    ..As a first test of this hypothesis, we have determined the ability of RNAP purified from Thermococcus kodakaraensis (T.k.) to initiate transcription from a variety of T.k. promoters in vitro when provided with T.k...
  36. pmc Expression profiles and physiological roles of two types of molecular chaperonins from the hyperthermophilic archaeon Thermococcus kodakarensis
    Shinsuke Fujiwara
    Department of Bioscience, School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo 669 1337, Japan
    Appl Environ Microbiol 74:7306-12. 2008
    b>Thermococcus kodakarensis possesses two chaperonins, CpkA and CpkB, and their expression is induced by the downshift and upshift, respectively, of the cell cultivation temperature...
  37. ncbi Different cleavage specificities of the dual catalytic domains in chitinase from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1
    T Tanaka
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Yoshida Honmachi, Sakyo ku, Kyoto 606 8501, Japan
    J Biol Chem 276:35629-35. 2001
    The chitinase from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1, Tk-ChiA, has an interesting multidomain structure containing dual catalytic domains and triple chitin-binding domains...
  38. ncbi Agmatine is essential for the cell growth of Thermococcus kodakaraensis
    Wakao Fukuda
    Nanobiotechnology Research Center, Graduate School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo, Japan
    FEMS Microbiol Lett 287:113-20. 2008
    TK0149 (designated as Tk-PdaD) of a hyperthermophilic archaeon, Thermococcus kodakaraensis, was annotated as pyruvoyl-dependent arginine decarboxylase, which catalyzes agmatine formation by the decarboxylation of arginine as the first ..
  39. pmc Polarity in archaeal operon transcription in Thermococcus kodakaraensis
    Thomas J Santangelo
    Department of Microbiology, Ohio State University, Columbus, OH 43210 1292, USA
    J Bacteriol 190:2244-8. 2008
    ..reporter system has been established based on TK1761, a gene that encodes a nonessential beta-glycosidase in Thermococcus kodakaraensis...
  40. pmc Solution structure and thermal stability of ribosomal protein L30e from hyperthermophilic archaeon Thermococcus celer
    Kam Bo Wong
    Department of Biochemistry and Molecular Biotechnology Programme, Room 507B, Mong Man Wai Building, The Chinese University of Hong Kong, Shatin, Hong Kong, China
    Protein Sci 12:1483-95. 2003
    ..of thermostability, we have determined the solution structure of a thermophilic ribosomal protein L30e from Thermococcus celer by NMR spectroscopy. The conformational stability of T...
  41. ncbi Protein synthesis in giant liposomes using the in vitro translation system of Thermococcus kodakaraensis
    Kazuaki Yamaji
    Graduate School of Engineering, Kyoto University, Nishikyo ku, Kyoto 615 8510, Japan
    IEEE Trans Nanobioscience 8:325-31. 2009
    An in vitro translation system, based on cell components of the hyperthermophilic archaeon, Thermococcus kodakaraensis, has previously been developed...
  42. ncbi Role of the helical protrusion in the conformational change and molecular chaperone activity of the archaeal group II chaperonin
    Ryo Iizuka
    Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2 24 16 Naka cho, Koganei, Tokyo 184 8588, Japan
    J Biol Chem 279:18834-9. 2004
    ..its molecular chaperone function, three deletion mutants of the chaperonin from a hyperthermophilic archaeum (Thermococcus sp. strain KS-1) lacking one-third, two-thirds, and the whole of the helical protrusion were constructed...
  43. pmc Architectures of archaeal GINS complexes, essential DNA replication initiation factors
    Takuji Oyama
    Laboratory of Protein Organic Chemistry, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology OLABB, Osaka 565 0874, Japan
    BMC Biol 9:28. 2011
    ..Due to the low sequence similarity between the archaeal and eukaryotic GINS subunits, the atomic structures of the archaeal GINS complexes are attracting interest for comparisons of their subunit architectures and organization...
  44. ncbi Archaeal group II chaperonin mediates protein folding in the cis-cavity without a detachable GroES-like co-chaperonin
    Takao Yoshida
    Kamaishi Laboratories, Marine Biotechnology Institute Co Ltd, 3 75 1 Heita, Kamaishi, 026 0001, Iwate, Japan
    J Mol Biol 315:73-85. 2002
    ..alpha or beta-subunit chaperonin homo-oligomer (alpha16mer and beta16mer) from a hyperthermoplilic archaeum, Thermococcus strain KS-1, using a model substrate, green fluorescent protein (GFP)...
  45. ncbi Crystal structure of unautoprocessed precursor of subtilisin from a hyperthermophilic archaeon: evidence for Ca2+-induced folding
    Shun ichi Tanaka
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    J Biol Chem 282:8246-55. 2007
    ..crystal structure of an active site mutant of pro-Tk-subtilisin (pro-S324A) from the hyperthermophilic archaeon Thermococcus kodakaraensis was determined at 2.3 A resolution...
  46. pmc Crystal structures of two active proliferating cell nuclear antigens (PCNAs) encoded by Thermococcus kodakaraensis
    Jane E Ladner
    National Institute of Standards and Technology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Proc Natl Acad Sci U S A 108:2711-6. 2011
    ..Interestingly, the genome of the euryarchaeon Thermococcus kodakaraensis contains two PCNA-encoding genes (TK0535 and TK0582), making it unique among the euryarchaea ..
  47. ncbi Concerted action of diacetylchitobiose deacetylase and exo-beta-D-glucosaminidase in a novel chitinolytic pathway in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1
    Takeshi Tanaka
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    J Biol Chem 279:30021-7. 2004
    The hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 possesses chitinase (Tk-ChiA) and exo-beta-D-glucosaminidase (Tk-GlmA) for chitin degradation; the former produces diacetylchitobiose (GlcNAc2) from chitin, and the latter ..
  48. ncbi Thermococcus gammatolerans sp. nov., a hyperthermophilic archaeon from a deep-sea hydrothermal vent that resists ionizing radiation
    Edmond Jolivet
    UMR 6539, Centre National de la Recherche Scientifique et Université de Bretagne Occidentale, Technopole Brest Iroise, Place Nicolas Copernic, 29280 Plouzane, France
    Int J Syst Evol Microbiol 53:847-51. 2003
    ..3 mol%. As determined by 16S rRNA gene sequence analysis, the organism was most closely related to Thermococcus celer, Thermococcus guaymasensis, Thermococcus hydrothermalis, Thermococcus profundus and Thermococcus ..
  49. ncbi Biochemical and genetical analyses of the three mcm genes from the hyperthermophilic archaeon, Thermococcus kodakarensis
    Sonoko Ishino
    Department of Bioscience and Biotechnology, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Hakozaki, Higashi ku, Fukuoka, Japan
    Genes Cells 16:1176-89. 2011
    ..In Archaea, Thermococcus kodakarensis harbors three genes encoding the Mcm homologs on its genome, contrary to most archaea, which have ..
  50. ncbi TreT, a novel trehalose glycosyltransferring synthase of the hyperthermophilic archaeon Thermococcus litoralis
    Qiuhao Qu
    Department of Biology, University of Konstanz, 78457 Konstanz, Germany
    J Biol Chem 279:47890-7. 2004
    The gene cluster in Thermococcus litoralis encoding a multicomponent and binding protein-dependent ABC transporter for trehalose and maltose contains an open reading frame of unknown function...
  51. ncbi Four new crystal structures of Tk-subtilisin in unautoprocessed, autoprocessed and mature forms: insight into structural changes during maturation
    Shun ichi Tanaka
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka, Japan
    J Mol Biol 372:1055-69. 2007
    Subtilisin from the hyperthermophilic archaeon Thermococcus kodakaraensis (Tk-subtilisin) is matured from Pro-Tk-subtilisin upon autoprocessing and degradation of the propeptide...
  52. ncbi Crystal structure of a subtilisin homologue, Tk-SP, from Thermococcus kodakaraensis: requirement of a C-terminal beta-jelly roll domain for hyperstability
    Tita Foophow
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    J Mol Biol 400:865-77. 2010
    Tk-SP is a hyperthermostable subtilisin-like serine protease from Thermococcus kodakaraensis and is autoprocessed from its precursor (Pro-Tk-SP) with N- and C-propeptides...
  53. pmc Thermococcus kodakarensis mutants deficient in di-myo-inositol phosphate use aspartate to cope with heat stress
    Nuno Borges
    Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Rua da Quinta Grande 6, Apartado 127, 2780 156 Oeiras, Portugal
    J Bacteriol 192:191-7. 2010
    ..Mutant strains of Thermococcus kodakarensis (formerly Thermococcus kodakaraensis), manipulated in their ability to synthesize DIP, were ..
  54. ncbi ATP binding is critical for the conformational change from an open to closed state in archaeal group II chaperonin
    Ryo Iizuka
    Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2 24 16 Naka cho, Koganei, Tokyo 184 8588, Japan
    J Biol Chem 278:44959-65. 2003
    ..analyses and tryptophan fluorescence spectroscopy of alpha-chaperonin from a hyperthermophilic archaeum, Thermococcus strain KS-1...
  55. pmc Dual biosynthesis pathway for longer-chain polyamines in the hyperthermophilic archaeon Thermococcus kodakarensis
    Nanako Morimoto
    Department of Bioscience, School of Science and Technology, Kwansei Gakuin University, 2 1 Gakuen, Sanda, Hyogo 669 1337, Japan
    J Bacteriol 192:4991-5001. 2010
    ..polyamines were analyzed for cells cultivated at various growth temperatures in the hyperthermophilic archaeon Thermococcus kodakarensis...
  56. ncbi Identification of the Phr-dependent heat shock regulon in the hyperthermophilic archaeon, Thermococcus kodakaraensis
    Tamotsu Kanai
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto, Japan
    J Biochem 147:361-70. 2010
    The hyperthermophilic archaeon Thermococcus kodakaraensis harbors a putative transcriptional regulator (Tk-Phr) that is orthologous to the Pyrococcus furiosus Phr (Pf-Phr)...
  57. ncbi The Fur iron regulator-like protein is cryptic in the hyperthermophilic archaeon Thermococcus kodakaraensis
    Hélène Louvel
    Department of Microbiology, Ohio State University, Columbus, OH, USA
    FEMS Microbiol Lett 295:117-28. 2009
    ..In this report, iron acquisition mechanisms were investigated in the hyperthermophilic archaeon Thermococcus kodakaraensis...
  58. pmc Description of Thermococcus kodakaraensis sp. nov., a well studied hyperthermophilic archaeon previously reported as Pyrococcus sp. KOD1
    Haruyuki Atomi
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    Archaea 1:263-7. 2004
    ..sequences of various species in the order Thermococcales, indicated that strain KOD1 is a member of the genus Thermococcus. We performed DNA-DNA hybridization tests against species that displayed high similarity in terms of 16S ..
  59. pmc Sequential action of ATP-dependent subunit conformational change and interaction between helical protrusions in the closure of the built-in lid of group II chaperonins
    Taro Kanzaki
    Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, Koganei, Tokyo 184 8588, Japan
    J Biol Chem 283:34773-84. 2008
    ..To elucidate the intra-ring cooperative action of subunits for the conformational change, we constructed Thermococcus chaperonin complexes containing mutant subunits in an ordered manner and examined their folding and ..
  60. pmc Improved and versatile transformation system allowing multiple genetic manipulations of the hyperthermophilic archaeon Thermococcus kodakaraensis
    Takaaki Sato
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    Appl Environ Microbiol 71:3889-99. 2005
    We have recently developed a gene disruption system for the hyperthermophilic archaeon Thermococcus kodakaraensis by utilizing a pyrF-deficient mutant, KU25, as a host strain and the pyrF gene as a selectable marker...
  61. ncbi Thermococcus profundus 2-ketoisovalerate ferredoxin oxidoreductase, a key enzyme in the archaeal energy-producing amino acid metabolic pathway
    Yukiko Ozawa
    Department of Life Science and Graduate School of Life Science, and Department of Chemistry and Graduate School of Chemistry, Rikkyo St Paul s University, Toshima ku, Tokyo 171 8501, Japan
    J Biochem 137:101-7. 2005
    ..The very oxygen-labile enzyme purified under anaerobic conditions from a hyperthermophilic archaeon, Thermococcus profundus, is a hetero-octamer (alphabetagammadelta)(2) consisting of four different subunits, alpha = 45,000, ..
  62. pmc Thermostable alcohol dehydrogenase from Thermococcus kodakarensis KOD1 for enantioselective bioconversion of aromatic secondary alcohols
    Xi Wu
    Department of Chemical Engineering, Tsinghua University, Beijing, China
    Appl Environ Microbiol 79:2209-17. 2013
    ..ADH) showing activity toward aromatic secondary alcohols was identified from the hyperthermophilic archaeon Thermococcus kodakarensis KOD1 (TkADH)...
  63. ncbi Advantages of Thermococcus kodakaraenis (KOD) DNA Polymerase for PCR-mass spectrometry based analyses
    Linda M Benson
    Department of Biochemistry and Molecular Biology and the W M Keck FT ICR Mass Spectrometry Laboratory, Mayo Proteomics Research Center, Mayo Clinic and Foundation, Rochester, Minnesota 55905, USA
    J Am Soc Mass Spectrom 14:601-4. 2003
    The advantages of the thermostable DNA polymerase from Thermococcus kodakaraensis (KOD) are demonstrated for PCR amplification with subsequent detection by mass spectrometry...
  64. ncbi Crystal structures of the group II chaperonin from Thermococcus strain KS-1: steric hindrance by the substituted amino acid, and inter-subunit rearrangement between two crystal forms
    Yasuhito Shomura
    Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo ku, Kyoto 606 8502, Japan
    J Mol Biol 335:1265-78. 2004
    ..of the alpha subunit with amino acid substitutions of G65C and/or I125T from the hyperthermophilic archaeum Thermococcus strain KS-1 were determined...
  65. pmc Programmable plasmid interference by the CRISPR-Cas system in Thermococcus kodakarensis
    Joshua R Elmore
    Department of Molecular Biology and Biochemistry, University of Georgia, Athens, GA, USA
    RNA Biol 10:828-40. 2013
    ..There are multiple CRISPR-Cas systems with distinct compositions and mechanistic processes. Thermococcus kodakarensis (Tko) is a hyperthermophilic euryarchaeon that has both a Type I-A Csa and a Type I-B Cst CRISPR-..
  66. pmc An alternative beads-on-a-string chromatin architecture in Thermococcus kodakarensis
    Hugo Maruyama
    Department of Bacteriology, Osaka Dental University, Osaka 573 1121, Japan
    EMBO Rep 14:711-7. 2013
    We have applied chromatin sequencing technology to the euryarchaeon Thermococcus kodakarensis, which is known to possess histone-like proteins...
  67. ncbi Membrane vesicles, nanopods and/or nanotubes produced by hyperthermophilic archaea of the genus Thermococcus
    Evelyne Marguet
    Institut de Genetique et Microbiologie, Universite Paris Sud, CNRS UMR8621, 91405 Orsay Cedex, France
    Biochem Soc Trans 41:436-42. 2013
    b>Thermococcus species produce MVs (membrane vesicles) into their culture medium. These MVs are formed by a budding process from the cell envelope, similar to ectosome formation in eukaryotic cells...
  68. pmc Genetic evidence identifying the true gluconeogenic fructose-1,6-bisphosphatase in Thermococcus kodakaraensis and other hyperthermophiles
    Takaaki Sato
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    J Bacteriol 186:5799-807. 2004
    ..both FBPase and IMPase activities and a structurally novel FBPase (FbpTk) from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 have been proposed as the "missing" FBPase. For this study, using T...
  69. pmc Characterization of two members among the five ADP-forming acyl coenzyme A (Acyl-CoA) synthetases reveals the presence of a 2-(Imidazol-4-yl)acetyl-CoA synthetase in Thermococcus kodakarensis
    Tomotsugu Awano
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Kyoto, Japan
    J Bacteriol 196:140-7. 2014
    The genome of Thermococcus kodakarensis, along with those of most Thermococcus and Pyrococcus species, harbors five paralogous genes encoding putative α subunits of nucleoside diphosphate (NDP)-forming acyl coenzyme A (acyl-CoA) ..
  70. ncbi Genetic elements of Thermococcales
    D Prieur
    Universite de Bretagne Occidentale, UMR 6539, IUEM, Technopole Brest Iroise, 29270 Plouzané, France
    Biochem Soc Trans 32:184-7. 2004
    ..We also review the work accomplished over the last 5 years in the development of genetic tools for members of the Pyrococcus and Thermococcus genera, mainly in our laboratories.
  71. ncbi Characterization and PCR applications of dUTPase from the hyperthermophilic euryarchaeon Thermococcus pacificus
    Sung Suk Cho
    Department of Biotechnology and Bioengineering, Sungkyunkwan University, 300 Cheoncheon dong, Jangan gu, Suwon 440 746, Republic of Korea
    Enzyme Microb Technol 51:342-7. 2012
    We cloned and sequenced the gene encoding Thermococcus pacificus dUTPase (Tpa dUTPase). The Tpa dUTPase gene consists of 471 bp and encodes a 156-amino acid protein...
  72. pmc Purification, characterization, and application of a novel dye-linked L-proline dehydrogenase from a hyperthermophilic archaeon, Thermococcus profundus
    H Sakuraba
    Department of Biological Science and Technology, Faculty of Engineering, The University of Tokushima, 2-1 Minamijosanjimacho, Tokushima 770-8506, Japan
    Appl Environ Microbiol 67:1470-5. 2001
    ..The enzyme was purified to homogeneity from a hyperthermophilic archaeon, Thermococcus profundus DSM 9503, which exhibited the highest specific activity in the crude extract...
  73. ncbi Subtilisin-like serine protease from hyperthermophilic archaeon Thermococcus kodakaraensis with N- and C-terminal propeptides
    T Foophow
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    Protein Eng Des Sel 23:347-55. 2010
    The genome of the hyperthermophilic archaeon Thermococcus kodakaraensis contains three genes encoding subtilisin-like serine proteases, Tk-1689, Tk-0076 and Tk-subtilisin...
  74. pmc Identification of a novel class of membrane-bound [NiFe]-hydrogenases in Thermococcus onnurineus NA1 by in silico analysis
    Jae Kyu Lim
    Marine Biotechnology Research Center, Korea Ocean Research and Development Institute, Ansan, Seoul 425 600, Republic of Korea
    Appl Environ Microbiol 76:6286-9. 2010
    In silico analysis of group 4 [NiFe]-hydrogenases from a hyperthermophilic archaeon, Thermococcus onnurineus NA1, revealed a novel tripartite gene cluster consisting of dehydrogenase-hydrogenase-cation/proton antiporter subunits, which ..
  75. ncbi A novel hyperthermophilic archaeal glyoxylate reductase from Thermococcus litoralis. Characterization, gene cloning, nucleotide sequence and expression in Escherichia coli
    T Ohshima
    Department of Biological Science and Technology, Faculty of Engineering, The University of Tokushima, Japan
    Eur J Biochem 268:4740-7. 2001
    A novel NADH-dependent glyoxylate reductase has been found in a hyperthermophilic archaeon Thermococcus litoralis DSM 5473. This is the first evidence for glyoxylate metabolism and its corresponding enzyme in hyperthermophilic archaea...
  76. ncbi pAMT11, a novel plasmid isolated from a Thermococcus sp. strain closely related to the virus-like integrated element TKV1 of the Thermococcus kodakaraensis genome
    Mathieu Gonnet
    Unité d Epidémiologie Animale, UR356, INRA Centre de Clermont Ferrand Theix, Route de Theix, 63122 Saint Genes Champanelle, France
    Res Microbiol 162:132-43. 2011
    ..Most of the ORFs of pAMT1 showed homology and synteny with a genomic island of Thermococcus kodakaraensis KOD1...
  77. ncbi Thermococcus guaymasensis sp. nov. and Thermococcus aggregans sp. nov., two novel thermophilic archaea isolated from the Guaymas Basin hydrothermal vent site
    F Canganella
    Department of Agrobiology and Agrochemistry, University of Tuscia, Viterbo, Italy
    Int J Syst Bacteriol 48:1181-5. 1998
    b>Thermococcus strains TYST and TYT isolated from the Guaymas Basin hydrothermal vent site and previously described were compared by DNA-DNA hybridization analysis with the closest Thermococcus species in terms of physiology and nutritional ..
  78. pmc Crystal structure of the ADP-dependent glucokinase from Pyrococcus horikoshii at 2.0-A resolution: a large conformational change in ADP-dependent glucokinase
    Hideaki Tsuge
    Institute for Health Sciences, Tokushima Bunri University, Yamashiro cho, Japan
    Protein Sci 11:2456-63. 2002
    ..group donor for kinases, some kinases from certain hyperthermophilic archaea such as Pyrococcus horikoshii and Thermococcus litoralis use ADP as the phosphoryl donor...
  79. pmc Association of a multi-synthetase complex with translating ribosomes in the archaeon Thermococcus kodakarensis
    Medha Raina
    Ohio State Biochemistry Program, Ohio State University, Columbus, OH 43210, USA
    FEBS Lett 586:2232-8. 2012
    ..MSC function was investigated in vivo in the archaeon Thermococcus kodakarensis, wherein six aaRSs were affinity co-purified together with several other factors involved in ..
  80. ncbi The rolling-circle plasmid pTN1 from the hyperthermophilic archaeon Thermococcus nautilus
    Nicolas Soler
    Institut de Genetique et Microbiologie, Univ Paris Sud, CNRS UMR 8621 and 8619, 91405 Orsay Cedex, France
    Mol Microbiol 66:357-70. 2007
    The hyperthermophilic archaeon Thermococcus nautilus carries a plasmid, pTN1, which encodes a rolling-circle (RC) replication initiator protein of 74 kDa (Rep74) and an orphan protein of 24 kDa (p24)...
  81. ncbi Structural insight into the molecular basis of polyextremophilicity of short-chain alcohol dehydrogenase from the hyperthermophilic archaeon Thermococcus sibiricus
    Ekaterina Y Bezsudnova
    A N Bach Institute of Biochemistry, Russian Academy of Sciences, Leninsky pr 33, Moscow 119071, Russia
    Biochimie 94:2628-38. 2012
    Biochemical analysis of enantioselective short-chain alcohol dehydrogenase from the hyperthermophilic archaeon Thermococcus sibiricus (TsAdh319) revealed unique polyextremophilic properties of the enzyme - half-life of 1 h at 100 °C, ..
  82. ncbi Directed evolution of Tk-subtilisin from a hyperthermophilic archaeon: identification of a single amino acid substitution responsible for low-temperature adaptation
    M A Pulido
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    Protein Eng Des Sel 20:143-53. 2007
    Tk-subtilisin from the hyperthermophilic archaeon Thermococcus kodakaraensis is synthesized in a prepro-form (prepro-Tk-subtilisin), secreted in a pro-form (pro-Tk-subtilisin), and matured to an active form (mat-Tk-subtilisin*; a Ca(2+)-..
  83. pmc Mechanism of pressure-induced thermostabilization of proteins: studies of glutamate dehydrogenases from the hyperthermophile Thermococcus litoralis
    M M Sun
    Department of Chemical Engineering, University of California, Berkeley, California 94720, USA
    Protein Sci 10:1750-7. 2001
    ..enzyme and two single mutants (D167T and T138E) of the glutamate dehydrogenase (GDH) from the hyperthermophile Thermococcus litoralis. All three GDHs were stabilized, although to different degrees, by the application of 500 atm...
  84. ncbi A GH57 family amylopullulanase from deep-sea Thermococcus siculi: expression of the gene and characterization of the recombinant enzyme
    Yu Liang Jiao
    College of Marine Sciences, Huaihai Institute of Technology, Lianyungang, 222005, People s Republic of China
    Curr Microbiol 62:222-8. 2011
    ..amylopullulanase (type II pullulanase) was cloned from an extremely thermophilic anaerobic archaeon Thermococcus siculi strain HJ21 isolated previously from a deep-sea hydrothermal vent...
  85. ncbi Molecular characterization of the recombinant iron-containing alcohol dehydrogenase from the hyperthermophilic Archaeon, Thermococcus strain ES1
    Xiangxian Ying
    Department of Biology, University of Waterloo, 200 University Ave W, Waterloo, ON N2L 3G1, Canada
    Extremophiles 13:299-311. 2009
    The gene encoding a thermostable iron-containing alcohol dehydrogenase from Thermococcus Strain ES1 (ES1 ADH) was cloned, sequenced and expressed in Escherichia coli...
  86. ncbi Structural basis for branching-enzyme activity of glycoside hydrolase family 57: structure and stability studies of a novel branching enzyme from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1
    Camila R Santos
    National Laboratory for Biosciences, National Center for Research in Energy and Materials, Campinas, Brazil
    Proteins 79:547-57. 2011
    ..belong to glycoside hydrolase family 13 (GH13); however TK1436, isolated from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1, is the first GH57 member, which possesses BE activity...
  87. pmc Cloning, expression, and characterization of aminopeptidase P from the hyperthermophilic archaeon Thermococcus sp. strain NA1
    Hyun Sook Lee
    Korean Ocean Research and Development Institute, Ansan P O Box 29, Seoul 425 600, Korea
    Appl Environ Microbiol 72:1886-90. 2006
    Genomic analysis of a hyperthermophilic archaeon, Thermococcus sp...
  88. pmc Active subtilisin-like protease from a hyperthermophilic archaeon in a form with a putative prosequence
    Y Kannan
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    Appl Environ Microbiol 67:2445-52. 2001
    ..kodakaraensis subtilisin was cloned from a hyperthermophilic archaeon Thermococcus kodakaraensis KOD1. T...
  89. ncbi Crystal structure of Tk-subtilisin folded without propeptide: requirement of propeptide for acceleration of folding
    Shun ichi Tanaka
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    FEBS Lett 582:3875-8. 2008
    Tk-subtilisin (a subtilisin homologue from Thermococcus kodakaraensis) is matured from Pro-Tk-subtilisin upon autoprocessing and degradation of Tk-propeptide...
  90. ncbi Analysis of the hyperthermophilic chitinase from Pyrococcus furiosus: activity toward crystalline chitin
    Takashi Oku
    National Institute of Advanced Industrial Science and Technology, AIST, Ikeda, Osaka 563 8577, Japan
    Biosci Biotechnol Biochem 70:1696-701. 2006
    ..Pyrococcus furiosus, we found two adjacent genes (PF1233 and PF1234) homologous to those of the chitinase of Thermococcus kodakaraensis. In the cultured medium of P. furiosus, however, no chitinase activity was detected...
  91. pmc First characterization of an archaeal GTP-dependent phosphoenolpyruvate carboxykinase from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1
    Wakao Fukuda
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    J Bacteriol 186:4620-7. 2004
    ..of the enzymatic properties and expression profile of an archaeal PCK from the hyperthermophilic archaeon Thermococcus kodakaraensis (PckTk)...
  92. pmc Indole-3-glycerol-phosphate synthase is recognized by a cold-inducible group II chaperonin in Thermococcus kodakarensis
    Le Gao
    Department of Bioscience, School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo, Japan
    Appl Environ Microbiol 78:3806-15. 2012
    b>Thermococcus kodakarensis optimally grows at 85°C and possesses two chaperonins, cold-inducible CpkA and heat-inducible CpkB. Gene disruptants DA1 (ΔcpkA) and DB1 (ΔcpkB) showed decreased cell growth at 60°C and 93°C, respectively...
  93. pmc Ca2+-dependent maturation of subtilisin from a hyperthermophilic archaeon, Thermococcus kodakaraensis: the propeptide is a potent inhibitor of the mature domain but is not required for its folding
    Marian Pulido
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    Appl Environ Microbiol 72:4154-62. 2006
    Subtilisin from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 is a member of the subtilisin family. T. kodakaraensis subtilisin in a proform (T. kodakaraensis pro-subtilisin), as well as its propeptide (T...
  94. ncbi Identification of the interactions critical for propeptide-catalyzed folding of Tk-subtilisin
    Shun ichi Tanaka
    Department of Material and Life Science, Graduate School of Engineering, Osaka University, 2 1 Yamadaoka, Suita, Osaka 565 0871, Japan
    J Mol Biol 394:306-19. 2009
    ..We propose that Glu201-mediated interactions are critical for initiation of Tkpro-catalyzed folding of Tk-subtilisin...
  95. pmc Complete genome sequence of the hyperthermophilic, piezophilic, heterotrophic, and carboxydotrophic archaeon Thermococcus barophilus MP
    Pauline Vannier
    Université Bretagne Occidentale, Institut Universitaire Europén de la mer, UMR 6197, Technopole Brest Iroise, Place Nicolas Copernic, F 29280 Plouzane, France
    J Bacteriol 193:1481-2. 2011
    b>Thermococcus barophilus is a hyperthermophilic, anaerobic, mixed heterotrophic, and carboxydotrophic euryarchaeon isolated from the deep sea hydrothermal vent Snakepit site on the mid-Atlantic ridge at a depth of 3,550 m. T...
  96. pmc Efficient isothermal expansion of human telomeric and minisatellite repeats by Thermococcus litoralis DNA polymerase
    Jörg S Hartig
    Department of Chemistry, Stanford University, Stanford, CA 94305 5080, USA
    Nucleic Acids Res 33:4922-7. 2005
    ..final product lengths of several hundreds to thousands of nucleotides by the thermostable DNA polymerase from Thermococcus litoralis (Vent DNA polymerase). This enzyme was so far unknown to catalyze repeat expansion...
  97. ncbi H2 production from CO, formate or starch using the hyperthermophilic archaeon, Thermococcus onnurineus
    Seung Seob Bae
    Department of Marine Biotechnology, University of Science and Technology, Daejeon, 305 333, South Korea
    Biotechnol Lett 34:75-9. 2012
    The hyperthermophilic archaeon, Thermococcus onnurineus, was grown in media supplemented with either CO, formate, or starch. H(2) was produced with each substrate with respective maximum rates of 1.55, 3.83 and 2.66 mmol H(2)/l h...
  98. pmc Among multiple phosphomannomutase gene orthologues, only one gene encodes a protein with phosphoglucomutase and phosphomannomutase activities in Thermococcus kodakaraensis
    Naeem Rashid
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    J Bacteriol 186:6070-6. 2004
    ..phosphomannomutase (PMM) genes (COG1109) have been identified in the genome of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1. We previously found that TK1777 actually encodes a phosphopentomutase...
  99. ncbi Highly thermostable L-threonine dehydrogenase from the hyperthermophilic archaeon Thermococcus kodakaraensis
    Qamar Bashir
    University of the Punjab, Lahore, Pakistan
    J Biochem 146:95-102. 2009
    ..A search of the genome sequence of hyperthermophilic archaeon, Thermococcus kodakaraensis revealed the presence of a closely related orthologue (TK0916) of archaeal and bacterial l-..
  100. pmc A novel branching enzyme of the GH-57 family in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1
    Taira Murakami
    Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Katsura, Nishikyo ku, Kyoto 615 8510, Japan
    J Bacteriol 188:5915-24. 2006
    ..a novel BE encoded by an uncharacterized open reading frame (TK1436) of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1...
  101. ncbi Site-directed chemical modification of archaeal Thermococcus litoralis Sh1B DNA polymerase: Acquired ability to read through template-strand uracils
    Edita Gaidamaviciute
    Fermentas UAB, Vilnius LT 02241, Lithuania
    Biochim Biophys Acta 1804:1385-93. 2010
    ..The Thermococcus litoralis Sh1B DNA polymerase (GenBank: GQ891548) was chosen as the object of the study. Similar to D...

Research Grants8

  1. A Model Archaeal System: Genetic Tools and Resources for T. kodakarensis
    JOHN NEWTON REEVE; Fiscal Year: 2013
    ..We have recently established the genetic techniques needed for Thermococcus kodakarensis (T.k.) and, as solicited by the PA-07-457 request ".....
  2. TRANSCRIPTION RELATED STRUCTURAL MODULES
    Michael Weiss; Fiscal Year: 2001
    ..Because the structure of neither RNAP is known, we propose to determine the structure of this subunit from Thermococcus celer (Aim 2B)...
  3. PURCHASE OF A VARIAN INOVA 600 MHz NMR SPECTROMETER
    ERIC KOOL; Fiscal Year: 2002
    ..1 T magnet, as well as supershims, two Fullband RF channels with three total RF channels, waveform generators for each channel, a variable temperature unit, pulsed field gradients, a Sun workstation, and a cryo probe. ..
  4. NONPOLAR NUCLEOSIDE ISOSTERES AS BIOMOLECULAR PROBES
    ERIC KOOL; Fiscal Year: 2002
    ..abstract_text> ..
  5. NOVEL PROBE TOPOLOGIES IN BIOMEDICAL DIAGNOSTICS
    ERIC KOOL; Fiscal Year: 2002
    ..Over the long term, it is hoped that this approach will give rise to clinically useful methods for the early diagnosis of diseases. ..
  6. NONPOLAR NUCLEOSIDE ISOSTERES AS BIOMOLECULAR PROBES
    ERIC KOOL; Fiscal Year: 2003
    ..abstract_text> ..
  7. CHEMICAL AND BIOLOGICAL MIMICRY OF TELOMERASE
    ERIC KOOL; Fiscal Year: 2007
    ..Chemical approaches to telomere elongation have the long-term potential to solve important problems in transplantation medicine, and to lead to new treatments for senescence-related diseases. ..
  8. RE-ENGINEERING THE DIAMETER OF THE DOULBE HELIX
    Eric T Kool; Fiscal Year: 2010
    ..Finally, we will study basic biophysical, structuraland thermodynamic properties of these compounds, to better understandand delineate their utility as broadly applicable tools. ..