研究業績＞原著論文

2021年3月25日 現在

    [2021]
  1. Fujino, Y., Miyagawa, T., Torii, M., Inoue, M., Fujii, Y., Okanishi, H., Kanai, Y. and Masui, R. (2021) Structural changes induced by ligand-bidning drastically increase the thermostability of the Ser/Thr protein kinase TpkD from Thermus thermophilus HB8. FEBS Lett., 595(2), 264-274

    2. [2020]
  2. Mega, R., Nakagawa. N., Kuramitsu, S., and Masui, R. (2020) The crystal structures of Thermus thermophilus CMP kinase complexed with a phosphoryl group acceptor and donor. PLoS ONE, 15(5), e0233689. DOI: 10.1371/journal.pone.0233689

    3. [2018]
  3. Fujii, Y., Inoue, M., Fukui, K., Kuramitsu, S., and Masui, R. (2018) Resistance to UV irradiation caused by inactivation of nurA and herA genes in Thermus thermophilus. J. Bacteriol., 200, e00201-18. DOI: 10.1128/JB.00201-18

    4. [2017]
  4. Tomoike, F., Nakagawa, N., Fukui, K., Yano, T., Kuramitsu, S. and Masui, R. (2017) Indispensable residue for uridine binding in the uridine-cytidine kinase family. Biochem. Biophys. Rep., 11, 93-98. DOI: 10.1016/j.bbrep.2017.07.002

  5. Inoue, M., Fukui, K., Fujii, Y., Nakagawa, N., Yano, T., Kuramitsu, S. and Masui, R. (2017) The Lon protease-like domain in the bacterial RecA paralog RadA is required for DNA binding and repair. J. Biol. Chem., 292(23), 9801-9814

  6. Okanishi, H., Kim, K., Masui, R., and Kuramitsu, S. (2017) Proteome-wide identification of lysine propionylation in thermophilic and mesophilic bacteria: Geobacillus kaustophilus, Thermus thermophilus, Escherichia coli, Bacillus subtilis, and Rhodothermus marinus. Extremophiles, 21(2), 283–296

  7. Okanishi, H., Kim, K., Fukui, K., Yano, T., Kuramitsu, S., and Masui, R. (2017) Proteome-wide identification of lysine succinylation in thermophilic and mesophilic bacteria. Biochim. Biophys. Acta., 1865(2), 232-242

    8. [2016]
  8. Nishida, Y., Ikeya, T., Mikawa, T., Inoue, J., Ito, Y., Shintani, Y., Masui, R., Kuramitsu, S., and Takashima, S. (2016) A specific single-stranded DNA induces a distinct conformational change in the nucleoid-associated protein HU. Biochem. Biophys. Rep., 8, 318–324

  9. Tomoike, F., Tsunetou, A., Kim, K., Nakagawa, N., Kuramitsu, S., and Masui, R. (2016) A putative adenosine kinase family protein possesses adenosine diphosphatase activity. Biosci. Biotechonol. Biochem., 80(11), 2138-2143

  10. Watanabe, Y., Yanai, H., Kanagawa, M., Suzuki, S., Tamura, S., Okada, K., Baba, S., Kumasaka, T., Agari, Y., Chen, L., Fu, Z.-Q., Chrzas, J., Wang, B.-C., Nakagawa, N., Ebihara, A., Masui, R., Kuramitsu, S., Yokoyama, S., Sampei, G., and Kawai, G. (2016) Crystal structures of a subunit of the formyl­glycinamide ribonucleotide amidotransferase, PurS, from Thermus thermophilus, Sulfolobus tokodaii and Methanocaldococcus jannaschii. Acta Crystallogr. F Struct. Biol. Commun., 72(8), 627–635

  11. Tanaka, W., Shoji, M., Tomoike, F., Ujiie, Y., Hanaoka, K., Harada, R., Kayanuma, M., Kamiya, K., Ishida, T., Masui, R., Kuramitsu, S. and Shigeta, Y. (2016) Molecular mechanisms of substrate specificities of uridine-cytidine kinase. Biophys. Physicobiol., 13, 77–84

    12. [2015]
  12. Tomoike, F, Nakagawa, N, Kuramitsu, S, and Masui R. (2015) Structural and biochemical studies on the reaction mechanism of uridine-cytidine kinase. Protein J., 34(6), 411–420

  13. Ebihara, A., Manzoku, M. Fukui, K., Shimada, A., Morita, R., Masui, R., and Kuramitsu, S. (2015) Roles of Mn-catalase and a possible heme peroxidase homologue in protection from oxidative stress in Thermus thermophilus. Extremophiles, 19(4), 775–785

    14. [2014]
  14. Okanishi, H., Kim, K., Masui, R., and Kuramitsu, S. (2014) Lysine propionylation is a prevalent post-translational modification in Thermus thermophilus. Mol. Cell. Proteomics, 13(9), 2382–2398

  15. Ohyama, H., Sakai, T., Agari, Y., Fukui, K. Nakagawa, N., Shinkai, A., Masui, R. and Kuramitsu, S. (2014) The role of ribonucleases in regulating global mRNA levels in the model organism Thermus thermophilus HB8. BMC Genomics, 15, 386

  16. Masui, R., Takahata, Y., Inoue, M., Iio, Y., Okanishi, H., Kim, K., Nakagawa, N., Yura. K. and Kuramitsu, S. (2014) Structural insights of post-translational modification sites in the proteome of Thermus thermophilus. J. Struct. Funct. Genomics, 15(3), 137–151

    17. [2013]
  17. Okanishi, H., Kim, K., Masui, R., and Kuramitsu, S. (2013) Acetylome with structural mapping reveals the significance of lysine acetylation in Thermus thermophilus. J. Proteome Res., 12(9), 3952–3968

  18. Uemura, Y., Nakagawa, N., Wakamatsu, T., Kim, K., Montelione, G. T., Hunt, J. F., Kuramitsu, S., and Masui, R. (2013) Crystal structure of the ligand-binding form of nanoRNase from Bacteroides fragilis, a member of the DHH/DHHA1 phosphoesterase family of proteins. FEBS Lett., 587(16), 2669–2674

  19. Shimada, A., Kawasoe, Y., Hata, Y., Takahashi, T., Masui, R., Kuramitsu, S., and Fukui, K. (2013) MutS stimulates the endonuclease activity of MutL in an ATP hydrolysis-dependent manner. FEBS J., 280(14), 3467–3479

  20. Tomoike, F., Kuramitsu, S., and Masui, R. (2013) Unique substrate specificity of purine nucleoside phosphorylases from Thermus thermophilus. Extremophiles, 17(3), 505–514

  21. Ouchi, T., Tomita, T., Horie, A., Yoshita, A., Takahashi, K., Nishida, H., Lassak, K., Taka, H., Mineki, R., Fujimura, T., Kosono, S., Nishiyama, C., Masui, R., Kuramitsu, S., Alberts, S.-J., Kuzuyama, T., and Nishiyama, M. (2013) Lysine and arginine biosyntheses mediated by a common carrier protein in Sulfolobus. Nat. Chem. Biol., 9(4), 277–283

    22. [2012]
  22. Wilkinson, O. J., Latypov, V., Tubbs, J. L., Millington, C. L., Morita, R., Blackburn, H., Marriott, A., McGown, G., Thorncroft, M., Watson, A. J., Connolly, B. A., Grasby, J. A., Masui, R., Hunter, C. A., Tainer, J. A., Margison, G. P., and Williams, D. M. (2012) Alkyltransferase-like protein (Atl1) distinguishes alkylated guanines for DNA repair using cation-pi interactions. Proc. Natl. Acad. Sci. U. S. A., 109(46), 18755–18760

  23. Nakane, S., Nakagawa, N., Kuramitsu, S., and Masui, R. (2012) The role of the PHP domain associated with DNA polymerase X from Thermus thermophilus HB8 in base excision repair. DNA Repair, 11(11), 906–914

  24. Kim, K., Okanishi, H., Masui, R., Harada, A., Ueyama, N., and Kuramitsu, S. (2012) Whole-cell proteome reference maps of an extreme thermophile, Thermus thermophilus HB8. Proteomics, 12(19-20), 3063–3068

  25. Takahata, Y., Inoue, M., Kim, K., Iio, Y., Miyamoto, M., Masui, R., Ishihama, Y., and Kuramitsu, S. (2012) Close proximity of phosphorylation sites to ligand in the phosphoproteome of the extreme thermophile Thermus thermophilus HB8. Proteomics, 12(9),1414–1430

  26. Nakane, S., Ishikawa, H., Nakagawa, N., Kuramitsu, S., and Masui, R. (2012) The structural basis of the kinetic mechanism of a gap-filling X-family DNA polymerase that binds Mg2+-dNTP before binding to DNA. J. Mol. Biol., 417(3), 179–196

  27. Tanaka, T., Mega, R., Kim, K., Shinkai, A., Masui, R., Kuramitsu, S., and Nakagawa, N. (2012) A non-cold-inducible cold shock protein homolog mainly contributes to translational control under optimal growth conditions. FEBS J., 279(6), 1014–1029

    28. [2011]
  28. Onodera, T., Morino, K., Tokishita, S., Morita, R., Masui, R., Kuramitsu, S., and Ohta, T. (2011) Role of alkyltransferase-like (ATL) protein in repair of methylated DNA lesions in Thermus thermophilus. Mutagenesis, 26(2), 303–308

  29. Asano, R., Ishikawa, H., Nakane, S., Nakagawa, N., Kuramitsu, S., and Masui, R. (2011) An additional C-terminal loop in endonuclease IV, an apurinic/apyrimidinic endonuclease, controls binding affinity to DNA. Acta Crystallogr., D67(3), 149–155

  30. Iino, H., Kim, K., Shimada, A., Masui, R., Kuramitsu, S., and Fukui, K. (2011) Characterization of C- and N-terminal domains of Aquifex aeolicus MutL endonuclease: N-terminal domain stimulates the endonuclease activity of C-terminal domain in a zinc-dependent manner. Biosci Rep., 31(5), 309–322

  31. Fukui, K., Wakamatsu, T., Agari, Y., Masui, R., and Kuramitsu, S. (2011) Inactivation of DNA repair genes mutS and mutL or the anti-recombination gene mutS2 leads to activation of vitamin B1 biosynthesis genes in Thermus thermophilus HB8. PLoS One, 6(4), e19053

  32. Morita, R., Hishinuma, H., Ohyama, H., Mega, R., Ohta, T., Nakagawa, N., Agari, Y., Fukui, K., Shinkai, A., Kuramitsu, S., and Masui, R. (2011) An alkyltransferase-like protein from Thermus thermophilus HB8 affects the regulation of gene expression in alkylation response. J. Biochem., 150(3), 327–339

  33. Nakane, S., Wakamatsu, T., Masui, R., Kuramitsu, S., and Fukui, K. (2011) In vivo, in vitro, and X-ray crystallographic analyses suggest the involvement of an uncharacterized TIM barrel protein in protection against oxidative stress. J. Biol. Chem., 286(48), 41636–41646

  34. Tomoike, F., Nakagawa, N., Kuramitsu, S., and Masui, R. (2011) A single amino acid limits the substrate specificity of Thermus thermophilus uridine-cytidine kinase to cytidine. Biochemistry, 50(21), 4597–4607

  35. Wakamatsu, T., Kim, K., Uemura, Y., Nakagawa, N., Kuramitsu, S., and Masui, R. (2011) Role of RecJ-like exonuclease with 5'-3' exonuclease in oligo(deoxy)nucleotide degradation. J. Biol. Chem., 286(4), 2807–2816

  36. Kim, K., Kim, J.-J., Masui, R., Kuramitsu, S., and Sung, M.-H. (2011) Commensal symbiotic interrelationship for the growth of Symbiobacterium toebii with its partner bacterium, Geobacillus toebii. BMC Res. Notes, 4, 437

    37. [2010]
  37. Wakamatsu, T., Kitamura, Y., Kotera, Y., Nakagawa, N., Kuramitsu, S., and Masui, R. (2010) Structure of RecJ exonuclease defines its specificity for single-stranded DNA. J. Biol. Chem., 285(13), 9762–9769

  38. Shimada, A., Masui, R., Nakagawa, N., Takahata, Y., Kim, K., Kuramitsu, S., and Fukui, K. (2010) A novel single-stranded DNA-specific 3'-5' exonuclease, Thermus thermophilus exonuclease I, is involved in several DNA repair pathways. Nucleic Acids Res., 38(17), 5692–5705

  39. Cielo, C. B., Okazaki, S., Suzuki, A., Mizushima, T., Masui, R., Kuramitsu, S., and Yamane, T. (2010) Structure of ST0929, a putative glycosyl transferase from Sulfolobus tokodaii. Acta Crystallogr., F66(4), 397–400

  40. Nishida, Y., Ishikawa, H., Baba, S., Nakagawa, N., Kuramitsu, S., and Masui, R. (2010) Crystal structure of an archaeal cleavage and polyadenylation specificity factor subunit from Pyrococcus horikoshii. Proteins, 78(10), 2395–2398

  41. Shimada, A., Ishikawa, H., Nakagawa, N., Kuramitsu, S., and Masui, R. (2010) The first crystal structure of an archaeal metallo-β-lactamase superfamily protein; ST1585 from Sulfolobus tokodaii. Proteins, 78(10), 2399–2402

  42. Mega, R., Manzoku, M., Shinkai, A., Nakagawa, N., Kuramitsu, S., and Masui, R. (2010) Very rapid induction of a cold shock protein by temperature downshift in Thermus thermophilus. Biochem. Biophys. Res. Commun., 399(3), 336–340

    43. [2009]
  43. Nakane, S., Nakagawa, N., Kuramitsu, S., and Masui, R. (2009) Characterization of DNA polymerase X from Thermus thermophilus HB8 reveals the POLXc and PHP domains are both required for 3'-5' exonuclease activity. Nucleic Acids Res., 37(6), 2037–2052

  44. Mega, R., Kondo, N., Nakagawa, N., Kuramitsu, S. and Masui, R. (2009) Two dNTP triphosphohydrolases from Pseudomonas aeruginosa possess diverse substrate specificities. FEBS J., 276(12), 3211–3221

  45. Ooga, T., Ohashi, Y., Kuramitsu, S., Koyama, Y., Tomita, M., Soga, T., and Masui, R. (2009) Degradation of ppGpp by nudix pyrophosphatase modulates the transition of growth phase in the bacterium Thermus thermophilus. J. Biol. Chem., 284(23), 15549–15556

  46. Tomoike, F., Wakamatsu, T., Nakagawa, N., Kuramitsu, S., and Masui, R. (2009) Crystal structure of the conserved hypothetical protein TTHA1606 from Thermus thermophilus HB8. Proteins, 76(1), 244-248

    47. [2008]
  47. Fukui, K., Nishida, M., Nakagawa, N., Masui, R., and Kuramitsu, S. (2008) Bound nucleotide controls the endonuclease activity of mismatch repair enzyme MutL. J. Biol. Chem., 283(18), 12136-12145

  48. Morita, R., Nakagawa, N., Kuramitsu, S., and Masui, R (2008) An O6-methylguanine-DNA methyltransferase-like protein from Thermus thermophilus interacts with a nucleotide excision repair protein. J. Biochem., 144(2), 267–277

  49. Morita, R., Ishikawa, H., Nakagawa, N., Kuramitsu , S., and Masui, R. (2008) Crystal structure of a putative DNA methylase TTHA0409 from Thermus thermophilus HB8. Proteins, 73(1), 259–264

  50. Fukui, K., Nakagawa, N., Kitamura, Y., Nishida, Y., Masui, R., and Kuramitsu, S. (2008) Crystal structure of MutS2 endonuclease domain and the mechanism of homologous recombination supression. J. Biol. Chem., 283(48), 33417–33427

  51. Wakamatsu, T., Nakagawa, N., Kuramitsu, S., and Masui, R. (2008) Structural basis for different substrate specificities of two ADP-ribose pyrophosphatases from Thermus thermophilus HB8. J. Bacteriol., 190(3), 1108–1117

  52. Kondo, N., Nishikubo, T., Wakamatsu, T., Ishikawa, H., Nakagawa, N., Kuramitsu, S., and Masui, R. (2008) Insights into different dependence of dNTP triphosphohydrolase on metal ion species from intracellular ion concentrations in Thermus thermophilus. Extremophiles, 12(2), 217–223

  53. Kim, J. J., Masui, R., Kuramitsu, S., Seo, J. H., Kim, K., and Sung, M. H. (2008) Characterization of growth-supporting factors produced by Geobacillus toebii for the commensal thermophile Symbiobacterium toebii. J. Microbiol. Biotechnol., 18(3), 490–496

  54. Kim, J.-J., Kim, H. N., Masui, R., Kuramitsu, S., Seo, J. H., Kim, K., and Sung, M.-H. (2008) Isolation of uncultivable anaerobic thermophiles of the family Clostridiaceae requiring growth-supporting factors. J. Microbiol. Biotechnol., 18(4), 611–615

    55. [2007]
  55. Fukui, K., Kosaka, H., Kuramitsu, S., and Masui, R. (2007) Nuclease activity of the MutS homologue MutS2 from Thermus thermophilus is confined to the Smr domain. Nucleic Acids Res., 35(3), 850–860

  56. Fukui, K., Takahata, Y., Nakagawa, N., Kuramitsu, S., and Masui, R. (2007) Analysis of a nuclease activity of catalytic domain of Thermus thermophilus MutS2 by high-accuracy mass spectrometry. Nucleic Acids Res., 35(15), e100

  57. Kosaka, H., Hoseki, J., Nakagawa, N., Kuramitsu, S., and Masui, R. (2007) Crystal structure of family 5 uracil-DNA glycosylase bound to DNA. J. Mol. Biol., 373(4), 839–850

  58. Kondo, N., Nakagawa, N., Ebihara, A., Chen, L., Liu, ZJ., Wang, BC., Yokoyama, S., Kuramitsu, S., and Masui, R. (2007) Structure of dNTP-inducible dNTP triphosphohydrolase: insight into broad specificity for dNTPs and triphosphohydrolase-type hydrolysis. Acta Crystallogr., D63(3), 230–239

  59. Mitani, Y., Lezhava, A., Kawai, Y., Kikuchi, T., Oguchi-Katayama, A., Kogo, Y., Itoh, M., Miyagi, T., Takakura, H., Hoshi, K., Kato, C., Arakawa, T., Shibata, K., Fukui, K., Masui, R., Kuramitsu, S., Kiyotani, K., Chalk, A., Tsunekawa, K., Murakami, M., Kamataki, T., Oka, T., Shimada, H., Cizdziel, P. E., and Hayashizaki, Y. (2007) Rapid SNP diagnostics using asymmetric isothermal amplification and a new mismatch-suppression technology. Nat. Methods, 4(3), 257–262

  60. Yoshikawa, S., Arai, R., Kinoshita, Y., Uchikubo-Kamo, T., Wakamatsu, T., Akasaka, R., Masui, R., Terada, T., Kuramitsu, S., Shirouzu, M., and Yokoyama, S. (2007) Structure of archaeal glyoxylate reductase from Pyrococcus horikoshii OT3 complexed with nicotinamide adenine dinucleotide phosphate. Acta Crystallogr., D63(3), 357–365

  61. Ito, A., Okamura, TA., Masui, K., Kaneko, M., Masui, R., Ake, K., Kuramitsu, S., Yamaguchi, M., Kuyama, H., Ando, E., Norioka, S., Nakazawa, T., Tsunasawa, S., Yamamoto, H., and Ueyama, N. (2007) High sequence-coverage detection of proteolytic peptides using a bis(terpyridine)ruthenium(II) complex. Analyst, 132(4), 358–364

  62. Ito, A., Okamura, TA., Yamamoto, H., Ueyama, N., Yamaguchi, M., Kuyama, H., Ando, E., Tsunasawa, S., Ake, K., Masui, R., Kuramitsu, S., Nakazawa, T., and Norioka, S. (2007) Simultaneous detection of N-terminal fragment ions in a protein mixture using a ruthenium(II) complex. Rapid. Commun. Mass Spectrom., 21(16), 2647–2653

    63. [2006]
  63. Ishikawa, H., Nakagawa, N., Kuramitsu, S., and Masui, R. (2006) Crystal structure of TTHA0252 from Thermus thermophilus HB8, a RNA degradation protein of the metallo-β-lactamase superfamily. J. Biochem., 140(4), 535–542

  64. Ebihara, A., Yao, M., Masui, R., Tanaka, I., Yokoyama, S., and Kuramitsu, S. (2006) Crystal structure of hypothetical protein TTHB192 from Thermus thermophilus HB8 reveals a new protein family with an RNA recognition motif-like domain. Protein Sci., 15(6), 1494–1499

    65. [2005]
  65. Ooga, T., Yoshiba, S., Nakagawa, N., Kuramitsu, S., and Masui, R. (2005) Molecular mechanism of the Thermus thermophilus ADP-ribose pyrophosphatase from mutational and kinetic studies. Biochemistry, 44(26), 9320–9329

  66. Tanaka, Y., Nakagawa, N., Kuramitsu, S., Yokoyama, S., and Masui, R. (2005) Novel reaction mechanism of GTP cyclohydrolase I. High-resolution X-ray crystallography of Thermus thermophilus HB8 enzyme complexed with a transition state analogue, the 8-oxoguanine derivative. J. Biochem., 138(1), 263–275

  67. Nishikubo, T., Nakagawa, N., Kuramitsu, S., and Masui, R. (2005) Improved heterologous gene expression in Escherichia coli by optimization of the AT-content of codons immediately downstream of the initiation codon. J. Biotechnol., 120(4), 341–346

  68. Nakai, T., Nakagawa, N., Maoka, N., Masui, R., Kuramitsu S., and Kamiya, N. (2005) Structure of P-protein of the glycine cleavage system: implications for nonketotic hyperglycinemia. EMBO J., 24(8), 1523–1536

  69. Ebihara, A., Okamoto, A., Kousumi, Y., Yamamoto, H., Masui, R., Ueyama, N., Yokoyama, S., and Kuramitsu, S. (2005) Structure-based functional identification of a novel heme-binding protein from Thermus thermophilus HB8. J. Struct. Funct. Genomics, 6(1), 21-32

  70. Mokhonov, V., Mokhonova, E., Yoshihara, E., Masui, R., Sakai, M., Akama, H., and Nakae, T. (2005) Multidrug transporter MexB of Pseudomonas aeruginosa: overexpression, purification, and initial structural characterization. Protein Expr. Purif., 40(1), 91–100

  71. Kato, M., Yamamoto, H., Okamura, T., Maoka, N., Masui, R., Kuramitsu, S., and Ueyama, N. (2005) Inhibition of Thermus thermophilus HB8 thioredoxin activity by platinum(II). Dalton Trans., 6, 1023–1026

  72. Kimura, S., Ide, K., Kashihara, A., Kano, M., Hatakeyama, M., Masui, R., Nakagawa, N., Yokoyama, S., Kuramitsu, S., and Konagaya, A. (2005) Inference of S-system models of genetic networks using a cooperative coevolutionary algorithm. Bioinformatics, 21(7), 1154-1163

  73. Yoshinari, S., Fujita, S., Masui, R., Kuramitsu, S., Yokobori, S., Kita, K., and Watanabe, Y. (2005) Functional reconstitution of a crenarchaeal splicing endonuclease in vitro. Biochem. Biophys. Res. Commun., 334(4), 1254–1259

  74. Ito, A., Okamura, T., Yamamoto, H., Ueyama, N., Ake, K., Masui, R., Kuramitsu, S., and Tsunasawa, S. (2005) Distinction of Leu and Ile using a ruthenium(II) complex by MALDI-LIFT-TOF/TOF-MS analysis. Anal. Chem., 77(20), 6618–6624

    75. [2004]
  75. Fukui, K., Masui, R., and Kuramitsu, S. (2004) Thermus thermophilus MutS2, a MutS paralogue, possesses an endonuclease activity effected by MutL. J. Biochem., 135(3), 375–384

  76. Iwai, T., Kuramitsu, S., and Masui, R. (2004) The Nudix hydrolase Ndx1 from Thermus thermophilus HB8 is a diadenosine hexaphosphate hydrolase with a novel activity. J. Biol. Chem., 279(21), 21732–21739

  77. Yoshiba, S., Ooga, T., Nakagawa, N., Shibata, T., Inoue, Y., Yokoyama, S., Kuramitsu, S., and Masui, R. (2004) Structural insights into the Thermus thermophilus ADP-ribose pyrophosphatase mechanism via crystal structures with the bound substrate and metal. J. Biol. Chem., 279(35), 37163–37174

  78. Kondo, N., Kuramitsu, S., and Masui, R. (2004) Biochemical characterization of TT1383 from Thermus thermophilus identifies a novel dNTP triphosphohydrolase activity stimulated by dATP and dTTP. J. Biochem., 136(5), 221–231

  79. Nakai, T., Nakagawa, N., Maoka, N., Masui, R., Kuramitsu, S., and Kamiya, N. (2004) Ligand-induced conformational changes and a reaction intermediate in branched-chain 2-oxo acid dehydrogenase (E1) from Thermus thermophilus HB8, as revealed by X-ray crystallography. J. Mol. Biol., 337(4), 1011–1033

  80. Kaneko, M., Masui, R., Ake, K., Kousumi, Y., Kuramitsu, S., Yamaguchi, M., Kuyama, H., Ando, E., Norioka, S., Nakazawa, T., Okamura, TA., Yamamoto, H., and Ueyama, N. (2004) Rapid and sensitive amino-acid sequencing of cloning Thermus thermophilus HB8 ferredoxin by proteomics. J. Proteome Res., 3(5), 983–987

  81. Suno, R., Taguchi, H., Masui, R., Odaka, M., and Yoshida, M. (2004) Trigger factor from Thermus thermophilus is a Zn2+-dependent chaperone. J. Biol. Chem., 279(8), 6380–6384

  82. Shimamura, T., Koike-Takeshita, A., Yokoyama, K., Masui, R., Murai, N., Yoshida, M., Taguchi, H., and Iwata, S. (2004) Crystal structure of the native chaperonin complex from Thermus thermophilus revealed unexpected asymmetry at the cis-cavity. Structure, 12(8), 1471–1480

  83. Kobayashi, S., Masui, R., Yokoyama, S., Kuramitsu, S., and Takagi, H. (2004) A novel metal-activated L-serine O-acetyltransferase from Thermus thermophilus HB8. J. Biochem., 136(5), 629–634

    84. [2003]
  84. Hoseki, J., Okamoto, A., Masui, R., Shibata, T., Inoue, Y., Yokoyama, S., and Kuramitsu, S. (2003) Crystal structure of a family 4 uracil-DNA glycosylase from Thermus thermophilus HB8. J. Mol. Biol., 333(3), 515–526

  85. Yoshiba, S., Nakagawa, N., Masui, R., Shibata, T., Inoue, Y., Yokoyama, S., and Kuramitsu, S. (2003) Overproduction, crystallization and preliminary diffraction data of ADP-ribose pyrophosphatase from Thermus thermophilus HB8. Acta Crystallogr., D59(10), 1840–1842

  86. Takeishi, S., Nakagawa, N., Maoka, N., Kihara, M., Moriguchi, M., Masui, R., and Kuramitsu, S. (2003) Crystallization and preliminary X-ray diffraction studies of nucleoside diphosphate kinase from Thermus thermophilus HB8. Acta Crystallogr., D59(10), 1843–1845

  87. Nakai, T., Nakagawa, N., Maoka, N., Masui, R., Kuramitsu, S., and Kamiya, N. (2003) Coexpression, purification, crystallization and preliminary X-ray characterization of glycine decarboxylase (P-protein) of the glycine-cleavage system from Thermus thermophilus HB8. Acta Crystallogr., D59(3), 554–557

  88. Nakai, T., Ishijima, J., Masui, R., Kuramitsu, S., and Kamiya, N. (2003) Structure of Thermus thermophilus HB8 H-protein of the glycine-cleavage system, resolved by a six-dimensional molecular-replacement method. Acta Crystallogr., D59(9), 1610–1618

  89. Mori, H., Tsukazaki, T., Masui, R., Kuramitsu, S., Yokoyama, S., Johnson, AE., Kimura, Y., Akiyama, Y., and Ito, K. (2003) Fluorescence resonance energy transfer analysis of protein translocase. SecYE from Thermus thermophilus HB8 forms a constitutive oligomer in membranes. J. Biol. Chem., 278(16), 14257–14264

    90. [2002]
  90. Yamagata, A., Kakuta, Y., Masui, R., and Fukuyama, K. (2002) The crystal structure of exonuclease RecJ bound to Mn2+ ion suggests how its characteristic motifs are involved in exonuclease activity. Proc. Natl. Acad. Sci. U. S. A., 99(9), 5908–5912

  91. Shimomura, Y., Sumiguchi-Agari, K., Masui, R., Kuramitsu, S., and Fukuyama, K. (2002) Overproduction, crystallization and preliminary X-ray diffraction analysis of a quinone oxidoreductase from Thermus thermophilus HB8. Acta Crystallogr., D58(8), 1365-1367

    92. [2001]
  92. Yamagata, A., Masui, R., Kakuta, Y., Kuramitsu, S., and Fukuyama, K. (2001) Overexpression, purification and characterization of RecJ protein from Thermus thermophilus HB8 and its core domain. Nucleic Acids Res., 29(22), 4617–4624

  93. Komori, H., Tsujiuchi, H., Masui, R., Kuramitsu, S., Yokoyama, S., Shibata, T., Inoue, Y., and Miki, K. (2001) Crystallization and preliminary X-ray studies of a thermostable DNA photolyase from Thermus thermophilus HB8. Curr. Pharm. Des., 8(6), 495–498

  94. Komori, H., Masui, R., Kuramitsu, S., Yokoyama, S., Shibata, T., Inoue, Y., and Miki, K. (2001) Crystal structure of thermostable DNA photolyase: Pyrimidine-dimer recognition mechanism. Proc. Natl. Acad. Sci. U. S. A., 98(24), 13560–13565

  95. Shimizu, H., Yamagata, S., Masui, R., Inoue, Y., Shibata, T., Yokoyama, S., Kuramitsu, S., and Iwama, T. (2001) Cloning and overexpression of the oah1 gene encoding O-acetyl-L-homoserine sulfhydrylase of Thermus thermophilus HB8 and characterization of the gene product. Biochim. Biophys. Acta, 1549(1), 61–72

    96. [2000]
  96. Kil, Y., Baitin, D. M., Masui, R., Bonch-Osmolovskaya, E. A., Kuramitsu, S., and Lanzov, V. (2000) Efficient strand transfer by the RadA recombinase from the hyperthermophilic archaeon Desulfurococcus amylolyticus. J. Bacteriol., 182(1), 130–134

  97. Spies, M., Kil, Y., Masui, R., Kato, R., Kujo, C., Ohshima, T., Kuramitsu, S., and Lanzov, V. (2000) The RadA protein from a hyperthermophilic archaeon Pyrobaculum islandicum is a DNA-dependent ATPase that shows two disparate catalytic modes, with a transition termperature at 75°C. Eur. J. Biochem., 267(4), 1125–1137

  98. Yamagata, A., Masui, R., Kato, R., Nakagawa, N., Ozaki, H., Sawai, H., Kuramitsu, S. and Fukuyama, K. (2000) Interaction of UvrA and UvrB proteins with a fluorescent single-stranded DNA. Implication for slow conformational change upon interaction of UvrB with DNA. J. Biol. Chem., 275(18), 13235-13242

  99. Isaev-Ivanov, V. V., Kozlov, M. G., Baitin, D. M., Masui, R., Kuramitsu, S., and Lanzov, V. A. (2000) Fluorescence and excitation Escherichia coli RecA protein spectra analyzed separatedly for tyrosine and tryptophan residues. Arch. Biochem. Biophys., 376(1), 124–140

  100. Kato, R., Kataoka, M., Mikawa, T., Masui, R., Nakagawa, N., Kamikubo, H., and Kuramitsu, S. (2000) Observation of RecA protein monomer by small angle X-ray scattering with synchrotron radiation. FEBS Lett., 482(1-2), 159–162

    101. [1999]
  101. Shibata, A., Nakagawa, N., Sugahara, M., Masui, R., Kato, R., Kuramitsu, S., and Fukuyama, K. (1999) Crystallization and preliminary X-ray diffraction studies of a DNA excision repair enzyme, UvrB, from Thermus thermophilus HB8. Acta Crystallogr., D55(3), 704–705

  102. Nakagawa, N., Sugahara, M., Masui, R., Kato, R., Fukuyama, K., and Kuramitsu, S. (1999) Crystal structure of Thermus thermophilus HB8 UvrB protein, a key enzyme of nucleotide excision repair. J. Biochem., 126(6), 986–990

  103. Nakano, M., Morita, T., Yamamoto, T., Sano, S., Ashiuchi, M., Masui, R., Kuramitsu, S., and Yagi, T. (1999) Purification, molecular cloning, and catalytic activity of Schizosaccharomyces pombe pyridoxal reductase. A possible additional family in the aldo-keto reductase superfamily. J. Biol. Chem., 274(33), 23185–23190

    104. [1998]
  104. Mikawa, T., Masui, R., and Kuramitsu, S. (1998) RecA protein has extremely high cooperativity for substrate in its ATPase activity. J. Biochem., 123(3), 450–457

  105. Masui, R. and Kuramitsu, S (1998) Probing of DNA-binding site of Escherichia coli RecA protein by utilizing 1-anilinonaphthalene-8-sulfonic acid. Biochemistry, 37(35), 12133–12143

  106. Masui, R., Mikawa, T., Kato, R., and Kuramitsu, S. (1998) Characterization of the oligomeric states of RecA protein: monomeric RecA protein can form a nucleoprotein filament. Biochemistry, 37(42), 14788–14797

  107. Tachiki, H., Kato, R., Masui, R., Hasegawa, K., Itakura, H., Fukuyama, K., and Kuramitsu, S. (1998) Domain organization and functional analysis of Thermus thermophilus MutS protein. Nucleic Acids Res., 26(18), 4153–4159

    108. [1997]
  108. Nakagawa, N., Masui, R., Kato, R., and Kuramitsu, S. (1997) Domain structure of Thermus thermophilus UvrB protein. Similarity in domain structure to a helicase. J. Biol. Chem., 272(36), 22703–22713

  109. Masui, R., Mikawa, T., and Kuramitsu, S. (1997) Local folding of the N-terminal domain of Escherichia coli RecA controls protein-protein interaction. J. Biol. Chem., 272(44), 27707–27715

    110. [1996]
  110. Okamoto, A., Kato, R., Masui, R., Yamagishi, A., Oshima, T. and Kuramitsu, S. (1996) An aspartate aminotransferase from an extremely thermophilic bacterium, Thermus thermophilus HB8. J. Biochem., 119(1), 135–144

    111. [1995]
  111. Mikawa, T., Masui, R., Ogawa, T., Ogawa, H., and Kuramitsu, S. (1995) N-Terminal 33 amino acid residues of Escherichia coli RecA protien contribute to its self-assembly. J. Mol. Biol., 250(4), 471–483

    112. [1994]
  112. Watanabe, R., Masui, R., Mikawa, T., Takamatsu, S., Kato, R., and Kuramitsu, S. (1994) Interaction of RecA protein with ATP and its analogues. J. Biochem., 116(5), 960–966

    113. [1992]
  113. Wada, K., Sakai, H., Masui, R., Ihara, M., and Matsubara, H. (1992) Amino acid sequences of ferredoxins from Alocasia macrorrhiza Schott in Papua New Guinea. Protein Seq. Data Anal., 5(1), 13–19

  114. Nagata, Y., Masui, R., and Akino, T. (1992) The presence of free D-serine, D-alanine, and D-proline in human plasma. Experientia, 48(3), 986–988

    115. [1991]
  115. Masui, R., Wakabayashi, R., Matsubara, H., and Hatefi, Y. (1991) The amino acid sequences of two 13kDa polypeptides and partial amino acid sequence of 30kDa polypeptide of complex I from bovine heart mitochondria: Possible location of iron-sulfur clusters. J. Biochem., 109(4), 534–543

  116. Masui, R., Wakabayashi, S., Matsubara, H., and Hatefi. Y. (1991) The amino acid sequences of the 9kDa polypeptide and partial amino acid sequence of the 20kDa polypeptide of mitochondrial NADH:ubiquinone oxidoreductase. J. Biochem., 110(4), 575–582

    117. [1988]
  117. Wada, K., Masui, R., Matsubara, H., and Rogers, L. J. (1988) Properties and structure of the ferredoxin from Synechococcus 6301 (Anacystis nidulans). Biochem. J., 252(2), 571–575

  118. Masui, R., Wada, K., Matsubara, H., Williams, M. M., and Rogers, L, J. (1988) Characterization, amino acid sequence and phylogenetic considerations regarding the ferredoxin from Ochromonas danica. Phytochemistry, 27(9), 2817–2820

  119. Masui, R., Wada, K., Matsubara, H., and Rogers, L. J. (1988) Properties and amino acid sequence of the ferredoxin from the unicellular cyanobacterium Synechococcus 6307. Phytochemistry, 27(9), 2821–2826



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