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Items: 1 to 50 of 110

1.

Crystal structure and substrate recognition mechanism of Aspergillus oryzae isoprimeverose-producing enzyme.

Matsuzawa T, Watanabe M, Nakamichi Y, Fujimoto Z, Yaoi K.

J Struct Biol. 2019 Jan 1;205(1):84-90. doi: 10.1016/j.jsb.2018.11.005. Epub 2018 Nov 13.

PMID:
30445155
2.

GH30 Glucuronoxylan-Specific Xylanase from Streptomyces turgidiscabies C56.

Maehara T, Yagi H, Sato T, Ohnishi-Kameyama M, Fujimoto Z, Kamino K, Kitamura Y, St John F, Yaoi K, Kaneko S.

Appl Environ Microbiol. 2018 Jan 31;84(4). pii: e01850-17. doi: 10.1128/AEM.01850-17. Print 2018 Feb 15.

3.

Carbohydrate-binding architecture of the multi-modular α-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces α-1,6-glucosyl-α-glucosaccharides from starch.

Fujimoto Z, Suzuki N, Kishine N, Ichinose H, Momma M, Kimura A, Funane K.

Biochem J. 2017 Aug 7;474(16):2763-2778. doi: 10.1042/BCJ20170152.

PMID:
28698247
4.

Isomaltooligosaccharide-binding structure of Paenibacillus sp. 598K cycloisomaltooligosaccharide glucanotransferase.

Fujimoto Z, Kishine N, Suzuki N, Suzuki R, Mizushima D, Momma M, Kimura K, Funane K.

Biosci Rep. 2017 Apr 28;37(2). pii: BSR20170253. doi: 10.1042/BSR20170253. Print 2017 Apr 30.

5.

Paenibacillus sp. 598K 6-α-glucosyltransferase is essential for cycloisomaltooligosaccharide synthesis from α-(1 → 4)-glucan.

Ichinose H, Suzuki R, Miyazaki T, Kimura K, Momma M, Suzuki N, Fujimoto Z, Kimura A, Funane K.

Appl Microbiol Biotechnol. 2017 May;101(10):4115-4128. doi: 10.1007/s00253-017-8174-z. Epub 2017 Feb 21.

PMID:
28224195
6.

Crystal structure of metagenomic β-xylosidase/ α-l-arabinofuranosidase activated by calcium.

Matsuzawa T, Kaneko S, Kishine N, Fujimoto Z, Yaoi K.

J Biochem. 2017 Sep 1;162(3):173-181. doi: 10.1093/jb/mvx012.

PMID:
28204531
7.

Structural similarities and differences in H-NS family proteins revealed by the N-terminal structure of TurB in Pseudomonas putida KT2440.

Suzuki-Minakuchi C, Kawazuma K, Matsuzawa J, Vasileva D, Fujimoto Z, Terada T, Okada K, Nojiri H.

FEBS Lett. 2016 Oct;590(20):3583-3594. doi: 10.1002/1873-3468.12425. Epub 2016 Oct 6.

8.

Autophosphorylation of Specific Threonine and Tyrosine Residues in Arabidopsis CERK1 is Essential for the Activation of Chitin-Induced Immune Signaling.

Suzuki M, Shibuya M, Shimada H, Motoyama N, Nakashima M, Takahashi S, Suto K, Yoshida I, Matsui S, Tsujimoto N, Ohnishi M, Ishibashi Y, Fujimoto Z, Desaki Y, Kaku H, Kito K, Shibuya N.

Plant Cell Physiol. 2016 Nov;57(11):2312-2322. Epub 2016 Aug 26.

PMID:
27565204
9.

Optimized inhibition assays reveal different inhibitory responses of hydroxylamine oxidoreductases from beta- and gamma-proteobacterial ammonium-oxidizing bacteria.

Nishigaya Y, Fujimoto Z, Yamazaki T.

Biochem Biophys Res Commun. 2016 Jul 29;476(3):127-33. doi: 10.1016/j.bbrc.2016.05.041. Epub 2016 May 10.

PMID:
27173879
10.

The Sorghum Gene for Leaf Color Changes upon Wounding (P) Encodes a Flavanone 4-Reductase in the 3-Deoxyanthocyanidin Biosynthesis Pathway.

Kawahigashi H, Kasuga S, Sawada Y, Yonemaru J, Ando T, Kanamori H, Wu J, Mizuno H, Momma M, Fujimoto Z, Hirai MY, Matsumoto T.

G3 (Bethesda). 2016 May 3;6(5):1439-47. doi: 10.1534/g3.115.026104.

11.

Crystal structure of thermophilic dextranase from Thermoanaerobacter pseudethanolicus.

Suzuki N, Kishine N, Fujimoto Z, Sakurai M, Momma M, Ko JA, Nam SH, Kimura A, Kim YM.

J Biochem. 2016 Mar;159(3):331-9. doi: 10.1093/jb/mvv104. Epub 2015 Oct 21.

PMID:
26494689
12.

Molecular engineering of cycloisomaltooligosaccharide glucanotransferase from Bacillus circulans T-3040: structural determinants for the reaction product size and reactivity.

Suzuki R, Suzuki N, Fujimoto Z, Momma M, Kimura K, Kitamura S, Kimura A, Funane K.

Biochem J. 2015 Apr 15;467(2):259-70. doi: 10.1042/BJ20140860.

PMID:
25649478
13.

Crystallization and preliminary X-ray diffraction analyses of the redox-controlled complex of terminal oxygenase and ferredoxin components in the Rieske nonhaem iron oxygenase carbazole 1,9a-dioxygenase.

Matsuzawa J, Aikawa H, Umeda T, Ashikawa Y, Suzuki-Minakuchi C, Kawano Y, Fujimoto Z, Okada K, Yamane H, Nojiri H.

Acta Crystallogr F Struct Biol Commun. 2014 Oct;70(Pt 10):1406-9. doi: 10.1107/S2053230X14018779. Epub 2014 Sep 25.

14.

Lectin structures: classification based on the 3-D structures.

Fujimoto Z, Tateno H, Hirabayashi J.

Methods Mol Biol. 2014;1200:579-606. doi: 10.1007/978-1-4939-1292-6_46. Review.

PMID:
25117265
15.

Basic procedure of x-ray crystallography for analysis of lectin-sugar interactions.

Fujimoto Z.

Methods Mol Biol. 2014;1200:481-90. doi: 10.1007/978-1-4939-1292-6_39. Review.

PMID:
25117258
16.

Structural elucidation of the cyclization mechanism of α-1,6-glucan by Bacillus circulans T-3040 cycloisomaltooligosaccharide glucanotransferase.

Suzuki N, Fujimoto Z, Kim YM, Momma M, Kishine N, Suzuki R, Suzuki S, Kitamura S, Kobayashi M, Kimura A, Funane K.

J Biol Chem. 2014 Apr 25;289(17):12040-51. doi: 10.1074/jbc.M114.547992. Epub 2014 Mar 10.

17.

Structural basis of the divergent oxygenation reactions catalyzed by the rieske nonheme iron oxygenase carbazole 1,9a-dioxygenase.

Inoue K, Usami Y, Ashikawa Y, Noguchi H, Umeda T, Yamagami-Ashikawa A, Horisaki T, Uchimura H, Terada T, Nakamura S, Shimizu K, Habe H, Yamane H, Fujimoto Z, Nojiri H.

Appl Environ Microbiol. 2014 May;80(9):2821-32. doi: 10.1128/AEM.04000-13. Epub 2014 Feb 28.

18.

Niemann-Pick type C2 protein mediating chemical communication in the worker ant.

Ishida Y, Tsuchiya W, Fujii T, Fujimoto Z, Miyazawa M, Ishibashi J, Matsuyama S, Ishikawa Y, Yamazaki T.

Proc Natl Acad Sci U S A. 2014 Mar 11;111(10):3847-52. doi: 10.1073/pnas.1323928111. Epub 2014 Feb 24.

19.

Crystal structure and characterization of the glycoside hydrolase family 62 α-L-arabinofuranosidase from Streptomyces coelicolor.

Maehara T, Fujimoto Z, Ichinose H, Michikawa M, Harazono K, Kaneko S.

J Biol Chem. 2014 Mar 14;289(11):7962-72. doi: 10.1074/jbc.M113.540542. Epub 2014 Jan 30.

20.

Evidence for cycloisomaltooligosaccharide production from starch by Bacillus circulans T-3040.

Funane K, Ichinose H, Araki M, Suzuki R, Kimura K, Fujimoto Z, Kobayashi M, Kimura A.

Appl Microbiol Biotechnol. 2014 May;98(9):3947-54. doi: 10.1007/s00253-014-5515-z. Epub 2014 Jan 26.

PMID:
24463763
21.

Crystallization and preliminary X-ray diffraction studies of the reduced form of the terminal oxygenase component of the Rieske nonhaem iron oxygenase system carbazole 1,9a-dioxygenase.

Matsuzawa J, Umeda T, Aikawa H, Suzuki C, Fujimoto Z, Okada K, Yamane H, Nojiri H.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Nov;69(Pt 11):1284-7. doi: 10.1107/S1744309113026754. Epub 2013 Oct 30.

22.

Crystallization and preliminary X-ray crystallographic analysis of cycloisomaltooligosaccharide glucanotransferase from Bacillus circulans T-3040.

Suzuki N, Kim YM, Momma M, Fujimoto Z, Kobayashi M, Kimura A, Funane K.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Aug;69(Pt 8):946-9. doi: 10.1107/S174430911301991X. Epub 2013 Jul 27.

23.
24.

Expression, crystallization and preliminary X-ray analysis of rice L-galactose dehydrogenase.

Momma M, Fujimoto Z.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Jul;69(Pt 7):809-11. doi: 10.1107/S1744309113016692. Epub 2013 Jun 30.

25.

The structure of a Streptomyces avermitilis α-L-rhamnosidase reveals a novel carbohydrate-binding module CBM67 within the six-domain arrangement.

Fujimoto Z, Jackson A, Michikawa M, Maehara T, Momma M, Henrissat B, Gilbert HJ, Kaneko S.

J Biol Chem. 2013 Apr 26;288(17):12376-85. doi: 10.1074/jbc.M113.460097. Epub 2013 Mar 13.

26.

Crystal structure of silkworm Bombyx mori JHBP in complex with 2-methyl-2,4-pentanediol: plasticity of JH-binding pocket and ligand-induced conformational change of the second cavity in JHBP.

Fujimoto Z, Suzuki R, Shiotsuki T, Tsuchiya W, Tase A, Momma M, Yamazaki T.

PLoS One. 2013;8(2):e56261. doi: 10.1371/journal.pone.0056261. Epub 2013 Feb 20.

27.

Characterization of an α-L-Rhamnosidase from Streptomyces avermitilis.

Ichinose H, Fujimoto Z, Kaneko S.

Biosci Biotechnol Biochem. 2013;77(1):213-6. Epub 2013 Jan 7.

28.

Studies on crenarchaeal tyrosylation accuracy with mutational analyses of tyrosyl-tRNA synthetase and tyrosine tRNA from Aeropyrum pernix.

Iwaki J, Endo K, Ichikawa T, Suzuki R, Fujimoto Z, Momma M, Kuno A, Nishimura S, Hasegawa T.

J Biochem. 2012 Dec;152(6):539-48. doi: 10.1093/jb/mvs114. Epub 2012 Sep 29.

PMID:
23024156
29.
30.

Bacteroides thetaiotaomicron VPI-5482 glycoside hydrolase family 66 homolog catalyzes dextranolytic and cyclization reactions.

Kim YM, Yamamoto E, Kang MS, Nakai H, Saburi W, Okuyama M, Mori H, Funane K, Momma M, Fujimoto Z, Kobayashi M, Kim D, Kimura A.

FEBS J. 2012 Sep;279(17):3185-91. doi: 10.1111/j.1742-4658.2012.08698.x. Epub 2012 Aug 2.

31.

Structural insight into the substrate- and dioxygen-binding manner in the catalytic cycle of rieske nonheme iron oxygenase system, carbazole 1,9a-dioxygenase.

Ashikawa Y, Fujimoto Z, Usami Y, Inoue K, Noguchi H, Yamane H, Nojiri H.

BMC Struct Biol. 2012 Jun 24;12:15. doi: 10.1186/1472-6807-12-15.

32.

Biochemical characterization of a novel cycloisomaltooligosaccharide glucanotransferase from Paenibacillus sp. 598K.

Suzuki R, Terasawa K, Kimura K, Fujimoto Z, Momma M, Kobayashi M, Kimura A, Funane K.

Biochim Biophys Acta. 2012 Jul;1824(7):919-24. doi: 10.1016/j.bbapap.2012.04.001. Epub 2012 Apr 14.

PMID:
22542750
33.

Novel dextranase catalyzing cycloisomaltooligosaccharide formation and identification of catalytic amino acids and their functions using chemical rescue approach.

Kim YM, Kiso Y, Muraki T, Kang MS, Nakai H, Saburi W, Lang W, Kang HK, Okuyama M, Mori H, Suzuki R, Funane K, Suzuki N, Momma M, Fujimoto Z, Oguma T, Kobayashi M, Kim D, Kimura A.

J Biol Chem. 2012 Jun 8;287(24):19927-35. doi: 10.1074/jbc.M111.339036. Epub 2012 Mar 29.

34.

Structural and biochemical characterization of glycoside hydrolase family 79 β-glucuronidase from Acidobacterium capsulatum.

Michikawa M, Ichinose H, Momma M, Biely P, Jongkees S, Yoshida M, Kotake T, Tsumuraya Y, Withers SG, Fujimoto Z, Kaneko S.

J Biol Chem. 2012 Apr 20;287(17):14069-77. doi: 10.1074/jbc.M112.346288. Epub 2012 Feb 24.

35.

Structural mechanism of JH delivery in hemolymph by JHBP of silkworm, Bombyx mori.

Suzuki R, Fujimoto Z, Shiotsuki T, Tsuchiya W, Momma M, Tase A, Miyazawa M, Yamazaki T.

Sci Rep. 2011;1:133. doi: 10.1038/srep00133. Epub 2011 Oct 28.

36.

Structural elucidation of dextran degradation mechanism by streptococcus mutans dextranase belonging to glycoside hydrolase family 66.

Suzuki N, Kim YM, Fujimoto Z, Momma M, Okuyama M, Mori H, Funane K, Kimura A.

J Biol Chem. 2012 Jun 8;287(24):19916-26. doi: 10.1074/jbc.M112.342444. Epub 2012 Feb 15.

37.

Crystallization and preliminary crystallographic analysis of dextranase from Streptococcus mutans.

Suzuki N, Kim YM, Fujimoto Z, Momma M, Kang HK, Funane K, Okuyama M, Mori H, Kimura A.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Dec 1;67(Pt 12):1542-4. doi: 10.1107/S1744309111038425. Epub 2011 Nov 25.

38.

Crystal structure of bacteriophage ϕNIT1 zinc peptidase PghP that hydrolyzes γ-glutamyl linkage of bacterial poly-γ-glutamate.

Fujimoto Z, Kimura K.

Proteins. 2012 Mar;80(3):722-32. doi: 10.1002/prot.23229. Epub 2011 Nov 22.

PMID:
22105902
39.

Truncation of N- and C-terminal regions of Streptococcus mutans dextranase enhances catalytic activity.

Kim YM, Shimizu R, Nakai H, Mori H, Okuyama M, Kang MS, Fujimoto Z, Funane K, Kim D, Kimura A.

Appl Microbiol Biotechnol. 2011 Jul;91(2):329-39. doi: 10.1007/s00253-011-3201-y. Epub 2011 Apr 9.

40.

Crystallization and preliminary crystallographic analysis of the glycoside hydrolase family 115 α-glucuronidase from Streptomyces pristinaespiralis.

Fujimoto Z, Ichinose H, Biely P, Kaneko S.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Jan 1;67(Pt 1):68-71. doi: 10.1107/S1744309110043721. Epub 2010 Dec 22.

41.

Deletion analysis of regions at the C-terminal part of cycloisomaltooligosaccharide glucanotransferase from Bacillus circulans T-3040.

Funane K, Kawabata Y, Suzuki R, Kim YM, Kang HK, Suzuki N, Fujimoto Z, Kimura A, Kobayashi M.

Biochim Biophys Acta. 2011 Mar;1814(3):428-34. doi: 10.1016/j.bbapap.2010.12.009. Epub 2010 Dec 28.

PMID:
21193067
42.

Crystallization and preliminary X-ray diffraction studies of a terminal oxygenase of carbazole 1,9a-dioxygenase from Novosphingobium sp. KA1.

Umeda T, Katsuki J, Ashikawa Y, Usami Y, Inoue K, Noguchi H, Fujimoto Z, Yamane H, Nojiri H.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Nov 1;66(Pt 11):1480-3. doi: 10.1107/S1744309110034949. Epub 2010 Oct 28.

43.

Crystallographic analysis reveals a unique conformation of the ADP-bound novel rice kinesin K16.

Tanaka K, Umeki N, Mitsui T, Fujimoto Z, Maruta S.

Biochem Biophys Res Commun. 2010 Oct 15;401(2):251-6. doi: 10.1016/j.bbrc.2010.09.043. Epub 2010 Sep 16.

PMID:
20849820
44.
45.

Crystallization and preliminary X-ray diffraction studies of a ferredoxin reductase component of carbazole 1,9a-dioxygenase from Novosphingobium sp. KA1.

Umeda T, Katsuki J, Ashikawa Y, Usami Y, Inoue K, Noguchi H, Fujimoto Z, Yamane H, Nojiri H.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Jun 1;66(Pt 6):712-4. doi: 10.1107/S1744309110014491. Epub 2010 May 29.

46.

Crystallization of selenomethionyl exo-beta-1,3-galactanase from the basidiomycete Phanerochaete chrysosporium.

Ishida T, Fujimoto Z, Ichinose H, Igarashi K, Kaneko S, Samejima M.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Dec 1;65(Pt 12):1274-6. doi: 10.1107/S1744309109043395. Epub 2009 Nov 27.

47.

The tetramer structure of the glycoside hydrolase family 27 alpha-galactosidase I from Umbelopsis vinacea.

Fujimoto Z, Kaneko S, Kim WD, Park GG, Momma M, Kobayashi H.

Biosci Biotechnol Biochem. 2009 Oct;73(10):2360-4. Epub 2009 Oct 7.

48.

Crystallization and preliminary crystallographic analysis of poly-gamma-glutamate hydrolase from bacteriophage PhiNIT1.

Fujimoto Z, Shiga I, Itoh Y, Kimura K.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Sep 1;65(Pt 9):913-6. doi: 10.1107/S1744309109029881. Epub 2009 Aug 22.

49.

NMR assignments of juvenile hormone binding protein in complex with JH III.

Suzuki R, Tase A, Fujimoto Z, Shiotsuki T, Yamazaki T.

Biomol NMR Assign. 2009 Jun;3(1):73-6. doi: 10.1007/s12104-009-9144-x. Epub 2009 Jan 23.

PMID:
19636950
50.

Specific Interactions between the ferredoxin and terminal oxygenase components of a class IIB Rieske nonheme iron oxygenase, carbazole 1,9a-dioxygenase.

Inoue K, Ashikawa Y, Umeda T, Abo M, Katsuki J, Usami Y, Noguchi H, Fujimoto Z, Terada T, Yamane H, Nojiri H.

J Mol Biol. 2009 Sep 18;392(2):436-51. doi: 10.1016/j.jmb.2009.07.029. Epub 2009 Jul 17.

PMID:
19616558

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