Tomida S - Search Results

1

Long-distance perturbation on Schiff base-counterion interactions by His30 and the extracellular Na⁺-binding site in Krokinobacter rhodopsin 2.

Shigeta A , Ito S , Kaneko R , Tomida S , Inoue K , Kandori H , Kawamura I . Shigeta A , et al. Among authors: tomida s. Phys Chem Chem Phys. 2018 Mar 28;20(13):8450-8455. doi: 10.1039/c8cp00626a. Phys Chem Chem Phys. 2018. PMID: 29537054

2

Hydrogen-bonding network at the cytoplasmic region of a light-driven sodium pump rhodopsin KR2.

Tomida S, Ito S, Inoue K, Kandori H. Tomida S, et al. Biochim Biophys Acta Bioenerg. 2018 Sep;1859(9):684-691. doi: 10.1016/j.bbabio.2018.05.017. Epub 2018 May 28. Biochim Biophys Acta Bioenerg. 2018. PMID: 29852143 Free article.

3

A distinct abundant group of microbial rhodopsins discovered using functional metagenomics.

Pushkarev A, Inoue K, Larom S, Flores-Uribe J, Singh M, Konno M, Tomida S, Ito S, Nakamura R, Tsunoda SP, Philosof A, Sharon I, Yutin N, Koonin EV, Kandori H, Béjà O. Pushkarev A, et al. Among authors: tomida s. Nature. 2018 Jun;558(7711):595-599. doi: 10.1038/s41586-018-0225-9. Epub 2018 Jun 20. Nature. 2018. PMID: 29925949

4

Red-shifting mutation of light-driven sodium-pump rhodopsin.

Inoue K, Del Carmen Marín M, Tomida S, Nakamura R, Nakajima Y, Olivucci M, Kandori H. Inoue K, et al. Among authors: tomida s. Nat Commun. 2019 Apr 30;10(1):1993. doi: 10.1038/s41467-019-10000-x. Nat Commun. 2019. PMID: 31040285 Free PMC article.

5

Crystal structure of heliorhodopsin.

Shihoya W, Inoue K, Singh M, Konno M, Hososhima S, Yamashita K, Ikeda K, Higuchi A, Izume T, Okazaki S, Hashimoto M, Mizutori R, Tomida S, Yamauchi Y, Abe-Yoshizumi R, Katayama K, Tsunoda SP, Shibata M, Furutani Y, Pushkarev A, Béjà O, Uchihashi T, Kandori H, Nureki O. Shihoya W, et al. Among authors: tomida s. Nature. 2019 Oct;574(7776):132-136. doi: 10.1038/s41586-019-1604-6. Epub 2019 Sep 25. Nature. 2019. PMID: 31554965

6

Infrared spectroscopic analysis on structural changes around the protonated Schiff base upon retinal isomerization in light-driven sodium pump KR2.

Tomida S, Ito S, Mato T, Furutani Y, Inoue K, Kandori H. Tomida S, et al. Biochim Biophys Acta Bioenerg. 2020 Jul 1;1861(7):148190. doi: 10.1016/j.bbabio.2020.148190. Epub 2020 Mar 17. Biochim Biophys Acta Bioenerg. 2020. PMID: 32194062 Free article.

7

Schizorhodopsins: A family of rhodopsins from Asgard archaea that function as light-driven inward H⁺ pumps.

Inoue K, Tsunoda SP, Singh M, Tomida S, Hososhima S, Konno M, Nakamura R, Watanabe H, Bulzu PA, Banciu HL, Andrei AŞ, Uchihashi T, Ghai R, Béjà O, Kandori H. Inoue K, et al. Among authors: tomida s. Sci Adv. 2020 Apr 10;6(15):eaaz2441. doi: 10.1126/sciadv.aaz2441. eCollection 2020 Apr. Sci Adv. 2020. PMID: 32300653 Free PMC article.

8

Mechanism of Inward Proton Transport in an Antarctic Microbial Rhodopsin.

Harris A, Lazaratos M, Siemers M, Watt E, Hoang A, Tomida S, Schubert L, Saita M, Heberle J, Furutani Y, Kandori H, Bondar AN, Brown LS. Harris A, et al. Among authors: tomida s. J Phys Chem B. 2020 Jun 18;124(24):4851-4872. doi: 10.1021/acs.jpcb.0c02767. Epub 2020 Jun 5. J Phys Chem B. 2020. PMID: 32436389

9

Inverse Hydrogen-Bonding Change Between the Protonated Retinal Schiff Base and Water Molecules upon Photoisomerization in Heliorhodopsin 48C12.

Tomida S, Kitagawa S, Kandori H, Furutani Y. Tomida S, et al. J Phys Chem B. 2021 Aug 5;125(30):8331-8341. doi: 10.1021/acs.jpcb.1c01907. Epub 2021 Jul 22. J Phys Chem B. 2021. PMID: 34292728

10

Covalent Bond between the Lys-255 Residue and the Main Chain Is Responsible for Stable Retinal Chromophore Binding and Sodium-Pumping Activity of Krokinobacter Rhodopsin 2.

Ochiai S, Ichikawa Y, Tomida S, Furutani Y. Ochiai S, et al. Among authors: tomida s. Biochemistry. 2023 Jun 20;62(12):1849-1857. doi: 10.1021/acs.biochem.3c00168. Epub 2023 May 27. Biochemistry. 2023. PMID: 37243673

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