papers

Publications from Molecular Physiology Lab

Blow is a list of pepers published on the research carried out in our lab.

We have provided links to PubMed, a data base of articles on life science and biomedical topics. You can read the abstract in PubMed and download a pdf version by following the links in PubMed. For more information or for questions about the articles contact the authors by email

2019

Elementary response triggered by transducin in retinal rods.
Yue WWS, Silverman D, Ren X, Frederiksen R, Sakai K, Yamashita T, Shichida Y, Cornwall MC, Chen J, Yau KW.
Proc Natl Acad Sci U S A. 2019 Feb 22. pii: 201817781. doi: 10.1073/pnas.1817781116.

 

2018

Pinopsin evolved as the ancestral dim-light visual opsin in vertebrates.
Sato K, Yamashita T, Kojima K, Sakai K, Matsutani Y, Yanagawa M, Yamano Y, Wada A, Iwabe N, Ohuchi H, Shichida Y.
Commun Biol. 2018 Oct 1;1:156. doi: 10.1038/s42003-018-0164-x.
Single-molecule diffusion-based estimation of ligand effects on G protein-coupled receptors.
Yanagawa M, Hiroshima M, Togashi Y, Abe M, Yamashita T, Shichida Y, Murata M, Ueda M, Sako Y.
Sci Signal. 2018 Sep 18;11(548). pii: eaao1917. doi: 10.1126/scisignal.aao1917.
Red-Tuning of Channelrhodopsin Spectrum Using Long-Conjugated Retinal Analogues.
Shen YC, Sasaki T, Matsuyama T, Yamashita T, Shichida Y, Okitsu T, Yamano Y, Wada A, Ishizuka T, Yawo H, Imamoto Y.
Biochemistry. 2018 Aug 28. doi: 10.1021/acs.biochem.8b00583.
Genotype determination of the OPN1LW/OPN1MW genes: novel disease-causing mechanisms in Japanese patients with blue cone monochromacy.
Katagiri S, Iwasa M, Hayashi T, Hosono K, Yamashita T, Kuniyoshi K, Ueno S, Kondo M, Ueyama H, Ogita H, Shichida Y, Inagaki H, Kurahashi H, Kondo H, Ohji M, Hotta Y, Nakano T.
Sci Rep. 2018 Jul 31;8(1):11507. doi: 10.1038/s41598-018-29891-9.
Shift in Conformational Equilibrium Induces Constitutive Activity of G-Protein-Coupled Receptor, Rhodopsin.
Maeda R, Hiroshima M, Yamashita T, Wada A, Sako Y, Shichida Y, Imamoto Y.
J Phys Chem B. 2018 May 10;122(18):4838-4843. doi: 10.1021/acs.jpcb.8b02819. Epub 2018 Apr 27.
Opn5L1 is a retinal receptor that behaves as a reverse and self-regenerating photoreceptor.
Sato K, Yamashita T, Ohuchi H, Takeuchi A, Gotoh H, Ono K, Mizuno M, Mizutani Y, Tomonari S, Sakai K, Imamoto Y, Wada A, Shichida Y.
Nat Commun. 2018 Mar 28;9(1):1255. doi: 10.1038/s41467-018-03603-3.

 

2017

Chimeric microbial rhodopsins for optical activation of Gs-proteins.
Yoshida K, Yamashita T, Sasaki K, Inoue K, Shichida Y, Kandori H.
Biophys Physicobiol. 2017 Dec 19;14:183-190. doi: 10.2142/biophysico.14.0_183. eCollection 2017.
Drosophila melanogaster rhodopsin Rh7 is a UV-to-visible light sensor with an extraordinarily broad absorption spectrum.
Sakai K, Tsutsui K, Yamashita T, Iwabe N, Takahashi K, Wada A, Shichida Y.
Sci Rep. 2017 Aug 4;7(1):7349. doi: 10.1038/s41598-017-07461-9.
Evolutionary steps involving counterion displacement in a tunicate opsin.
Kojima K, Yamashita T, Imamoto Y, Kusakabe TG, Tsuda M, Shichida Y.
Proc Natl Acad Sci U S A. 2017 Jun 6;114(23):6028-6033.
Adaptation of cone pigments found in green rods for scotopic vision through a single amino acid mutation.
Kojima K, Matsutani Y, Yamashita T, Yanagawa M, Imamoto Y, Yamano Y, Wada A, Hisatomi O, Nishikawa K, Sakurai K, Shichida Y.
Proc Natl Acad Sci U S A. 2017 May 23;114(21):5437-5442.
Alternative Formation of Red-Shifted Channelrhodopsins: Noncovalent Incorporation with Retinal-Based Enamine-Type Schiff Bases and Mutated Channelopsin.
Okitsu T, Matsuyama T, Yamashita T, Ishizuka T, Yawo H, Imamoto Y, Shichida Y, Wada A.
Chem Pharm Bull. 2017 Nov 65(4):356-358.

 

2016

Two Opsin 3-Related Proteins in the Chicken Retina and Brain: A TMT-Type Opsin 3 Is a Blue-Light Sensor in Retinal Horizontal Cells, Hypothalamus, and Cerebellum
Kato M, Sugiyama T, Sakai K, Yamashita T, Fujita H, Sato K, Tomonari S, Shichida Y, Ohuchi H
PLoS One. 2016 Nov 18;11(11):e0163925.
Two UV-Sensitive Photoreceptor Proteins, Opn5m and Opn5m2 in Ray-Finned Fish with Distinct Molecular Properties and Broad Distribution in the Retina and Brain
Sato K, Yamashita T, Haruki Y, Ohuchi H, Kinoshita M, Shichida Y
PLoS One. 2016 May 11;11(5):e0155339.

 

2015

Diversity of Active States in TMT Opsins
Sakai K, Yamashita T, Imamoto Y, Shichida Y
PLoS One. 2015 Oct 22;10(10):e0141238.
Diversification of non-visual photopigment parapinopsin in spectral sensitivity for diverse pineal functions
Koyanagi M, Wada S, Kawano-Yamashita E, Hara Y, Kuraku S, Kosaka S, Kawakami K, Tamotsu S, Tsukamoto H, Shichida Y, Terakita A
BMC Biol. 2015 Sep 15;13(1):73.
Helical rearrangement of photoactivated rhodopsin in monomeric and dimeric forms probed by high-angle X-ray scattering.
Imamoto Y, Kojima K, Oka T, Maeda R, Shichida Y
Photochem Photobiol Sci. 2015 Oct 28;14(11):1965-73.
Origin of the low thermal isomerization rate of rhodopsin chromophore
Yanagawa M, Kojima K, Yamashita T, Imamoto Y, Matsuyama T, Nakanishi K, Yamano Y, Wada A, Sako Y, Shichida Y
Sci Rep. 2015 Jun 10;5:11081.

 

2014

Contribution of Glutamic Acid in the Conserved E/DRY Triad to the Functional Properties of Rhodopsin
Sato K, Yamashita T, Shichida Y
Biochemistry 2014 Jul 1
Intramolecular Interactions That Induces Helical Rearrangement upon Rhodopsin Activation: Light-Induced Structural Changes in Metarhodopsin IIa Probed by Cysteine S-H Stretching Vibrations
Yamazaki Y, Nagata T, Terakita A, Kandori H, Shichida Y, Imamoto Y.
J Biol Chem 2014 Apr 1
Chimeric proton-pumping rhodopsins containing the cytoplasmic loop of bovine rhodopsin
Sasaki K, Yamashita T, Yoshida K, Inoue K, Shichida Y, Kandori H
PLoS One 2014 Mar 12;9(3):e91323.
Single-Molecule Observation of the Ligand-Induced Population Shift of Rhodopsin, A G-Protein-Coupled Receptor
Maeda R, Hiroshima M, Yamashita†a T, Wada A, Nishimura S, Sako S, Shichida Y, Imamoto Y
Biophysical Journal Vol. 106, 4 (2014) p. 915-924
Mapping of the local environmental changes in proteins by cysteine scanning
Yamazaki Y, Nagata T, Terakita A, Kandori H, Shichida Y, Imamoto Y
BIOPHYSICS Vol. 10 (2014) p. 1-7
Evolution of mammalian Opn5 as a specialized UV-absorbing pigment by a single amino acid mutation
Yamashita T, Ono K, Ohuchi H, Yumoto A, Gotoh H, Tomonari S, Sakai K, Fujita H, Imamoto Y, Noji S, Nakamura K, Shichida Y
J Biol Chem 2014 Jan 8 epub

 

2013

Rod Visual Pigment Optimizes Active State to Achieve Efficient G protein Activation as Compared to Cone Visual Pigments
Kojima K, Imamoto Y, Maeda R, Yamashita T, Shichida Y
J Biol Chem 2013 Dec 27 epub
Ultrafast carbonyl motion of the photoactive yellow protein chromophore probed by femtosecond circular dichroism.
Mendonca L, Hache F, Changenet-Barret P, Plaza P, Chosrowjan H, Taniguchi S, Imamoto Y.
J. Am. Chem. Soc.2013 Oct 2;135(39):14637-43.
Cone visual pigments
Imamoto Y, Shichida Y
Biochim Biophys Acta 2013 Sep 7. pii: S0005-2728(13)00146-1
Ultrafast time-resolved pump-probe spectroscopy of PYP by a sub-8 fs pulse laser at 400 nm.
Liu J, Yabushita A, Taniguchi S, Chosrowjan H, Imamoto Y, Sueda K, Miyanaga N, Kobayashi T.
J. Phys. Chem. B. 2013 May 2;117(17):4818-26.
Efficiencies of Activation of Transducin by Cone and Rod Visual Pigments
Imamoto Y, Seki I, Yamashita T, Shichida Y
Biochemistry 2013 Apr 9
Glutamate acts as a partial inverse agonist to metabotropic glutamate receptor with a single amino acid mutation in the transmembrane domain
Yanagawa M, Yamashita T, Shichida Y
J Biol Chem 2013 Apr 5;288(14):9593-601
Chloride-dependent spectral tuning mechanism of L-group cone visual pigments
Yamashita T, Nakamura S, Tsutsui K, Morizumi T, Shichida Y
Biochemistry 2013 Feb 19;52(7):1192-7

 

2012

Morizumi T, Sato K, Shichida Y. (2012) Spectroscopic Analysis of Chloride Effect on the Active Intermediates of Primate L group Cone Visual Pigment. Biochemistry 2012 Dec 18;51(50):10017-23.
Matsuyama T, Yamashita T, Imamoto Y, Shichida Y. (2012) Photochemical properties of mammalian melanopsin. Biochemistry 2012 Jul 10;51(27):5454-62.
Sato K, Yamashita T, Imamoto Y, Shichida Y. (2012) Comparative studies on the late bleaching processes of four kinds of cone visual pigments and rod visual pigment. Biochemistry 2012 May 29;51(21):4300-8.
Kimata N, Yamashita T, Matsuyama T, Imamoto Y, Shichida Y. (2012) The C-terminus of G protein a subunit controls the affinity of nucleotides. Biochemistry 2012 Apr 3;51(13):2768-74.
Ohuchi H, Yamashita T, Tomonari S, Fujita-Yanagibayashi S, Sakai K, Noji S, Shichida Y. (2012) A non-mammalian type opsin 5 functions dually in the photoreceptive and non-photoreceptive organs of birds. PLoS One 2012;7(2):e31534.
Sakai K, Imamoto Y, Su CY, Tsukamoto H, Yamashita T, Terakita A, Yau KW, Shichida Y. (2012) Photochemical Nature of Parietopsin. Biochemistry 2012 Mar 6;51(9):1933-41.
Nagata T, Koyanagi M, Tsukamoto H, Saeki, Isono K, Shichida Y, Tokunaga F, Kinoshita M, Arikawa K, Terakita A. (2012) Depth perception from image defocus in a jumping spider. Science 2012 Jan 27;335(6067):469-71.

 

2011

Sato K, Yamashita T, Ohuchi H, Shichida Y. (2011) Vertebrate Ancient-Long Opsin Has Molecular Properties Intermediate between Those of Vertebrate and Invertebrate Visual Pigments. Biochemistry 2011 Dec 6;50(48):10484-90.
Yanagawa M, Yamashita T, Shichida Y. (2011) Comparative fluorescence resonance energy transfer analysis of metabotropic glutamate receptors: Implications about the dimeric arrangement and rearrangement upon ligand bindings. J Biol Chem. 2011 Jul 1;286(26):22971-81.
Nakatsuma A, Yamashita T, Sasaki K, Kawanabe A, Inoue K, Furutani Y, Shichida Y, Kandori H. (2011) Chimeric microbial rhodopsins containing the third cytoplasmic loop of bovine rhodopsin. Biophys J. 2011 Apr 20;100(8):1874-82.
Kawano-Yamashita E, Koyanagi M, Shichida Y, Oishi T, Tamotsu S, Terakita A. (2011) Beta-arrestin functionally regulates the non-bleaching pigment parapinopsin in lamprey pineal. PLoS One. 2011 Jan 31;6(1):e16402.

 

2010

Yamashita T, Ohuchi H, Tomonari S, Ikeda K, Sakai K, Shichida Y. (2010) Opn5 is a UV-sensitive bistable pigment that couples with Gi subtype of G protein. Proc Natl Acad Sci U S A. 2010 Dec 21;107(51):22084-9. Epub 2010 Dec 6.
Tsutsui K, Shichida Y (2010) Photosensitivities of Rhodopsin Mutants with a Displaced Counterion. Biochemistry 2010 Nov 30;49(47):10089-97. Epub 2010 Nov 8.
Wakakuwa M, Terakita A, Koyanagi M, Stavenga DG, Shichida Y, Arikawa K. (2010) Evolution and mechanism of spectral tuning of blue-absorbing visual pigments in butterflies. PLoS One. 2010 Nov 24;5(11):e15015.
Sakai K, Imamoto Y, Yamashita T, Shichida Y (2010) Functional analysis of the second extracellular loop of rhodopsin by characterizing split variants. Photochem Photobiol Sci. 2010 Nov 28;9(11):1490-7. Epub 2010 Oct 1.
Matsuyama T, Yamashita T, Imai H, Shichida Y (2009) Covalent bond between ligand and receptor required for efficient activation in rhodopsin. J Biol Chem. 2010 Mar 12;285(11):8114-21. Epub 2009 Dec 30.
Tsukamoto H, Terakita A, Shichida Y (2010) A pivot between helices V and VI near the retinal binding site is necessary for activation in rhodopsins. J Biol Chem. 2010 Mar 5;285(10):7351-7. Epub 2010 Jan 6.
Sato K, Morizumi T, Yamashita T, Shichida Y (2009) Direct observation of pH-dependent equilibrium between metarhodopsin I and II and pH-independent interaction of metarhodopsin II with Transducin C-terminal peptide. Biochemistry Feb 2;49(4):736-41. Epub 2009 Dec 23.

 

2009

Yanagawa M, Yamashita T, Shichida Y (2009) Activation switch in the transmembrane domain of metabotropic glutamate receptor. Mol Pharmacol. 2009, Jul;76(1):201-7. Epub 2009 Apr 27.
Morizumi T, Kimata N, Terakita A, Imamoto Y, Yamashita T, Shichida Y (2009) G Protein Subtype Specificity of Rhodopsin Intermediates Metarhodopsin Ib and Metarhodopsin II. Photochem Photobiol. 2009, 85:57-62

 

2008

Tsutsui K, Imai H, Shichida Y (2008) E113 is required for the efficient photoisomerization of the unprotonated chromophore in a UV-absorbing visual pigment. Biochemistry 2008 Oct 14;47(41):10829-33. Epub 2008 Sep 20
Yamashita T, Terakita A, Kai T, Shichida Y (2008) Conformational change of the transmembrane helices II and IV of metabotropic glutamate receptor involved in G protein activation. J Neurochem. 2008 Jul;106(2):850-9. Epub 2008 Apr 28.
Terakita A, Tsukamoto H, Koyanagi M, Sugahara M, Yamashita T, Shichida Y (2008) Expression and comparative characterization of Gq-coupled invertebrate visual pigments and melanopsin. J Neurochem. 2008 May;105(3):883-90. Epub 2007 Dec 13
Yasushi Imamoto and Yoshinori Shichida.(2008) Thermal Recovery of Iodopsin from Photobleaching Intermediates. Photochem Photobiol. 2008 Jul-Aug;84(4):941-8. Epub 2008 Apr 9.
Kamikubo H, Koyama T, Hayashi M, Shirai K, Yamazaki Y, Imamoto Y, Kataoka M.(2008) The Photoreaction of the Photoactive Yellow Protein Domain in the Light Sensor Histidine Kinase Ppr is Influenced by the C-terminal Domains. Photochem Photobiol. 2008 Jul-Aug;84(4):895-902. Epub 2008 Mar 12.
Takahiro Yamashita, Koji Tose and Yoshinori Shichida.(2008) First Cytoplasmic Loop of Glucagon-like Peptide-1 Receptor Can Function at the Third Cytoplasmic Loop Position of Rhodopsin. Photochem Photobiol. 2008 Jul-Aug;84(4):931-6. Epub 2008 Mar 18.
Hoshihara Y, Imamoto Y, Kataoka M, Tokunaga F, Terazima M.(2008) Conformational changes in the N-terminal region of photoactive yellow protein: a time-resolved diffusion study. Biophys J. 2008 Mar 15;94(6):2187-93. Epub 2007 Nov 16.
Imamoto Y, Tatsumi S, Harigai M, Yamazaki Y, Kamikubo H, Kataoka M.(2008) Diverse Roles of Glycine Residues Conserved in Photoactive Yellow Proteins. Biophys J. 2008 Jan 28 (in press).

 

2007

Shigekazu Kawai, Takuya Nakashima, Kazuhiko Atsumi, Toshiyuki Sakai, Miki Harigai, Yasushi Imamoto, Hironari Kamikubo, Mikio Kataoka, and Tsuyoshi Kawai.(2007) Novel Photochromic Molecules Based on 4,5-Dithienyl Thiazole with Fast Thermal Bleaching Rate. Chem. Mater. 19 (14), 3479 -3483.
Shirai K, Yamazaki Y, Kamikubo H, Imamoto Y, Kataoka M.(2007) Attempt to simplify the amino-acid sequence of photoactive yellow protein with a set of simple rules. Proteins. 2007 Jun 1;67(4):821-33.
Kamikubo H, Shimizu N, Harigai M, Yamazaki Y, Imamoto Y, Kataoka M.(2007) Characterization of the solution structure of the M intermediate of photoactive yellow protein using high-angle solution x-ray scattering. Biophys J. 2007 May 15;92(10):3633-42. Epub 2007 Feb 16.
Yamaguchi S, Kamikubo H, Shimizu N, Yamazaki Y, Imamoto Y, Kataoka M.(2007) Preparation of large crystals of photoactive yellow protein for neutron diffraction and high resolution crystal structure analysis. Photochem Photobiol. 83(2):336-8.
Morishita T, Harigai M, Yamazaki Y, Kamikubo H, Kataoka M, Imamoto Y.(2007) Array of aromatic amino acid side chains located near the chromophore of photoactive yellow protein. Photochem Photobiol. 83(2):280-5.
Pascale Changenet-Barreta, Pascal Plaza, Monique M. Martin, Haik Chosrowjan, Seiji Taniguchi, Noboru Mataga, Yasushi Imamoto and Mikio Kataoka.(2007) Role of arginine 52 on the primary photoinduced events in the PYP photocycle. Chem. Phys. Lett. 434 (4-6), 320-325.
Kawano-Yamashita E, Terakita A, Koyanagi M, Shichida Y, Oishi T, Tamotsu S.(2007) Immunohistochemical characterization of a parapinopsin-containing photoreceptor cell involved in the ultraviolet/green discrimination in the pineal organ of the river lamprey Lethenteron japonicum. J Exp Biol. 2007 Nov 1;210(Pt 21):3821-9.
Torii M, Kojima D, Okano T, Nakamura A, Terakita A, Shichida Y, Wada A, Fukada Y. (2007) Two isoforms of chicken melanopsins show blue light sensitivity. FEBS lett. 2007 Nov 13;581(27):5327-31.
Imafuku M, Shimizu I, Imai H, Shichida Y. (2007) Sexual Diference in Color Sense in a Lycaenid Butterfly, Narathura japonica. Zoolog Sci. 2007 Jun;24(6):611-3.
Sakurai K, Onishi A, Imai H, Chisaka O, Ueda Y, Usukura J, Nakatani K, Shichida Y. (2007) Physiological Properties of Rod Photoreceptor Cells in Green-sensitive Cone Pigment Knock-in Mice. J. Gen. Physiol. 2007 130: 21-40. A commentary on this issue: Cornwall MC, Ala-Laurila P.(2007) A perfect marriage: molecular genetics ties the knot with electrophysiology in studies of visual transduction. J Gen Physiol. 2007 Jul;130(1):7-10.
Tsutsui K, Imai H, Shichida Y. (2007) Photoisomerization Efficiency in UV-Absorbing Visual Pigments: Protein-Directed Isomerization of an Unprotonated Retinal Schiff Base. Biochemistry.46(21);6437 - 6445.
Imai H, Kefalov V, Sakurai K, Chisaka O, Ueda Y, Onishi A,Morizumi T, Fu Y, Ichikawa K, Nakatani K, Honda Y, Chen J, Yau KW, Shichida Y. (2006) Molecular properties of rhodopsin and rod function. J Biol Chem. 2007 Mar 2;282(9):6677-84. Epub 2006 Dec 28

 

2006

Terai Y, Seehausen O, Sasaki T, Takahashi K, Mizoiri S, Sugawara T, Sato T, Watanabe M, Konijnendijk N, Mrosso HD, Tachida H,Imai H, Shichida Y, Okada N. (2006) Divergent Selection on Opsins Drives Incipient Speciation in Lake Victoria Cichlids. PLoS Biol. 2006 Dec 5;4(12):e433
Su CY, Luo DG, Terakita A, Shichida Y, Liao HW, Kazmi MA, Sakmar TP, Yau KW. (2006) Parietal-eye phototransduction components and their potential evolutionary implications. Science. 311(5767):1617-21.
Ota T, Furutani Y, Terakita A, Shichida Y, Kandori H. (2006) Structural Changes in the Schiff Base Region of Squid Rhodopsin upon Photoisomerization Studied by Low-Temperature FTIR Spectroscopy. Biochemistry. 45(9):2845-2851.
Ueda Y, Tammitsu N, Imai H, Honda Y, Shichida Y (2006) Recovery of rod-mediated a-wave during light-adaptation in mGluR6-deficient mice. Vision Res. 46(10): 1655-64. Epub 2005 Oct 21.
Hirano T, Fujioka N, Imai H, Kandori H, Wada A, Ito M, Shichida Y (2006) Assignment of the Vibrational Modes of the Chromophores of Iodopsin and Bathoiodopsin: Low-Temperature Fourier Transform Infrared Spectroscopy of (13)C- and (2)H-Labeled Iodopsins. Biochemistry. 45(4): 1285-94.

 

2005

Onishi A, Hasegawa J, Imai H, Chisaka O, Ueda Y, Honda Y, Tachibana M, Shichida Y (2005) Generation of Knock-in Mice Carrying Third Cones with Spectral Sensitivity Different from S and L Cones. Zoolog Sci. 22(10): 1145-56.
Kassai H, Aiba A, Nakao K, Nakamura K, Katsuki M, Xiong WH, Yau KW, Imai H, Shichida Y, Satomi Y, Takao T, Okano T, Fukada Y (2005) Farnesylation of Retinal Transducin Underlies Its Translocation during Light Adaptation. Neuron. 47(4): 529-39.
Morizumi T, Imai H, Shichida Y (2005) Direct Observation of the Complex Formation of GDP-Bound Transducin with the Rhodopsin Intermediate Having a Visible Absorption Maximum in Rod Outer Segment Membranes. Biochemistry. 44(29): 9936-43.
Kodama T, Imai H, Doi T, Chisaka O, Shichida Y, Fujiyoshi Y (2005) Expression and localization of an exogenous G protein-coupled receptor fused with the rhodopsin C-terminal sequence in the retinal rod cells of knockin mice. Exp Eye Res. 80(6): 859-69.
Koyanagi M, Kubokawa K, Tsukamoto H, Shichida Y, Terakita A (2005) Cephalochordate melanopsin: evolutionary linkage between invertebrate visual cells and vertebrate photosensitive retinal ganglion cells. Curr Biol. 15(11): 1065-9.
Furutani Y, Terakita A, Shichida Y, Kandori H (2005) FTIR studies of the photoactivation processes in squid retinochrome. Biochemistry. 44(22): 7988-97.
Tsukamoto H, Terakita A, Shichida Y (2005) A rhodopsin exhibiting binding ability to agonist all-trans-retinal. Proc Natl Acad Sci U S A. 102(18): 6303-8.
Sugawara T, Terai Y, Imai H, Turner GF, Koblmuller S, Sturmbauer C, Shichida Y, Okada N (2005) Parallelism of amino acid changes at the RH1 affecting spectral sensitivity among deep-water cichlids from Lakes Tanganyika and Malawi. Proc Natl Acad Sci U S A. 102(15): 5448-53.
Terao K, Mikami A, Saito A, Itoh S, Ogawa H, Takenaka G, Sakai T, Onishi A, Teramoto M, Udono T, Emi Y, Kobayashi H, Imai H, Shichida Y, Koike S (2005) Identification of a protanomalous chimpanzee by molecular genetic and electroretinogram analyses. Vision Res. 45(10): 1225-35.
Kuwayama S, Imai H, Morizumi T, Shichida Y (2005) Amino acid residues responsible for the meta-III decay rates in rod and cone visual pigments. Biochemistry. 44(6): 2208-15.

 

2004

Yamashita T, Kai T, Terakita A, Shichida Y (2004) A novel constitutive active mutation in the second cytoplasmic loop of metabotropic glutamate receptor. J. Neurochem. 91(2): 484-92.
Ueyama H, Kuwayama S, Imai H, Oda S, Nishida Y, Tanabe S, Shichida Y, Yamade S (2004) Analysis of L-cone/M-cone visual pigment gene arrays in Japanese males with protan color-vision deficiency. Vision Res. 44(19): 2241-52.
Koyanagi M, Kawano E, Kinugawa Y, Oishi T, Shichida Y, Tamotsu S, Terakita A (2004) Bistable UV pigment in the lamprey pineal. Proc. Natl. Sci. U. S. A. 101(17); 6687-91
Terakita A, Koyanagi M, Tsukamoto H, Yamashita T, Miyata T, Shichida Y (2004) Counterion displacement in the molecular evolution of the rhodopsin family. Nat. Struct. Mol. Biol. 11(3); 284-9

 

2003

Hirano T, Imai H, Shichida Y (2003) Effect of anion binding on the thermal reverse reaction of bathoiodopsin: anion stabilizes two forms of iodopsin. Biochemistry. 42(43): 12700-7.
Morizumi T, Imai H, Shichida Y (2003) Two-Step Interaction of Rhodopsin Intermediates with the C-Terminal Region of the Transducin alpha-Subunit. J. Biochem. (Tokyo) 134(2): 259-67.
Furutani Y, Shichida Y, Kandori H (2003) Structural changes of water molecules during the photoactivation processes in bovine rhodopsin. Biochemistry. 42(32): 9619-25.
Furutani Y, Shichida Y, Kandori H (2003) Structural changes in lumirhodopsin and metarhodopsin I studied by their photoreactions at 77K. Biochemistry. 42(28): 8494-500.
Nakashima Y, Kusakabe T, Kusakabe R, Terakita A, Shichida Y, Tsuda M (2003) Origin of the vertebrate visual cycle: genes encoding retinal photoisomerase and two putative visual cycle proteins are expressed in whole brain of a primitive chordate. J Comp. Neurol. 460(2): 180-90.

 

2002

Hirano T, Lim IT, Kim DM, Zheng XG, Yoshihara K, Oyama Y, Imai H, Shichida Y, Ishiguro M (2002) Constraints of opsin structure on the ligand-binding site: studies with ring-fused retinals. Photochem. Photobiol. 76(6): 606-15
Kuwayama S, Imai H, Hirano T, Terakita A, Shichida Y (2002) Conserved proline residue at position 189 in cone visual pigments as a determinant of molecular properties different from rhodopsins. Biochemistry. 41(51): 15245-52
Koyanagi M, Terakita A, Kubokawa K, Shichida Y (2002) Amphioxus homologs of Go-coupled rhodopsin and peropsin having 11-cis- and all-trans-retinals as their chromophores. FEBS Lett. 531(3): 525-8.
Ueyama H, Kuwayama S, Imai H, Tanabe S, Oda S, Nishida Y, Wada A, Shichida Y, Yamade S (2002) Novel missense mutations in red/green opsin genes in congenital color-vision deficiencies. Biochem. Biophys. Res. Commun. 294(2): 205-9.
Okada T, Fujiyoshi Y, Silow M, Navarro J, Landau EM, Shichida Y (2002) Functional role of internal water molecules in rhodopsin revealed by X-ray crystallography. Proc. Natl. Acad. Sci. USA. 99(9): 5982-7.
Nagata T, Oura T, Terakita A, Kandori H, Shichida Y (2002) Isomer-specific interaction of the retinal chromophore with threonine-118 in rhodopsin. J. Phys. Chem. 106(10): 1969-75.
Onishi A, Koike S, Ida-Hosonuma M, Imai H, Shichida Y, Takenaka O, Hanazawa A, Komatsu H, Mikami A, Goto S, Suryobroto B, Farajallah A, Varavudhi P, Eakavhibata C, Kitahara K, Yamamori T (2002) Variations in long- and middle-wavelength-sensitive opsin gene loci in crab-eating monkeys. Vision Res. 42(3): 281-92.
Terakita A, Yamashita T, Nimbari N, Kojima D, Shichida Y (2002) Functional interaction between bovine rhodopsin and G protein transducin. J. Biol. Chem. 277(1): 40-6.

 

2001

Kandori H, Furutani Y, Shimono K, Shichida Y, Kamo N (2001) Internal water molecules of pharaonis phoborhodopsin studied by low-temperature infrared spectroscopy. Biochemistry. 40(51): 15693-8
Wada A, Tsutsumi M, Inatomi Y, Imai H, Shichida Y, Ito M (2001) Retionids and related compounds. Part 26. Synthesis of (11-Z)-8, 18-propano- and methano-retinals and conformational study of the rhodopsin choromophore J. Chem. Soc., Trans, 1(19): 2430-9.
Kandori H, Shimono K, Sudo Y, Iwamoto M, Shichida Y, Kamo N (2001) Structural changes of pharaonis phoborhodopsin upon photoisomerization of the retinal chromophore: Infrared spectral comparison with bacteriorhodopsin. Biochemistry. 40(31): 9238-46.
Yamashita T, Terakita A, Shichida Y (2001) The second cytoplasmic loop of metabotropic glutamate receptor functions at the third loop position of rhodopsin. J Biochem (Tokyo). 130(1): 149-55.
Katagiri N, Terakita A, Shichida Y, Katagiri Y (2001) Demonstration of a rhodopsin-retinochrome system in the stalk eye of a marine gastropod immunohistochemistry. J.Comp. Neurology. 433(3): 380-9.
Kandori H, Yamazaki Y, Shichida Y, Raap J, Lugtenburg J, Belenky M, Herzfeld J (2001) Tight Asp85-Thr89 association during the pump switch of bacteriorhodopsin. Proc. Natl.Acad. Sci. USA. 98(4): 1571-6.
Kandori H, Furutani Y, Nishimura S, Shichida Y, Chosrowjan H, Shibata Y, Mataga N (2001) Excited state dynamics of rhodopsin probed by femtosecondfluorescence spectroscopy. Chem. Phys. Lett. 334 (4-6): 271-6.
Nakamura A, Kojima D, Okano T, Imai H, Terakita A, Shichida Y, Fukada Y (2001) Regulatory mechanism for stability of meta II intermediate of pinopsin. J. Biochem (Tokyo). 129(2): 329-34.
Imai H, Hirano T, Kandori H, Terakita A, Shichida Y (2001) Difference in molecular structure of rod and cone visual pigments studied by Fouriertransform infrared spectroscopy. Biochemistry. 40(9): 2879-86.
Hirano T, Imai H, Kandori H, Shichida Y (2001) Chloride effect on iodopsin studied by low-temperature visible and infrared spectroscopies. Biochemistry. 40(5): 1385-92.

 

Reviews and Other Publications

Yanagawa M, Shichida Y (2011) Dimerization of G protein-coupled receptors: molecular mechanism of the interprotomer communication. Seikagaku 83(10):949-956.
Tsutsui K, Shichida Y (2010) Multiple functions of Schiff base counterion in rhodopsins. Photochem Photobiol Sci. 2010 Nov 28;9(11):1426-34. Epub 2010 Sep 14.
Shichida Y, Matsuyama T (2009) Evolution of opsins and phototransduction. Philos Trans R Soc Lond B Biol Sci. 2009, Oct 12;364(1531):2881-95.
Shichida Y, Morizumi T. (2006) Mechanism of G-protein Activation by Rhodopsin. Photochem Photobiol. Preprint
Imai H, Kuwayama S, Onishi A, Morizumi T, Chisaka O, Shichida Y (2005) Molecular properties of rod and cone visual pigments from purified chicken cone pigments to mouse rhodopsin in situ. Photochem Photobiol Sci. 4(9): 667-74.
Terakita A (2005) The opsins. Genome Biol. 6(3): 213.
Shichida Y, Yamashita T (2003) Diversity of visual pigments from the viewpoint of G protein activation--comparison with other G protein-coupled receptors. Photochem Photobiol Sci Dec; 2(12): 1237-46.
Terakita A (2002) Insight into Rhodopsin Diversity from Viewpoint of Counterion. Journal of photoscience. 9(2): 33-6.
Kandori H, Shichida Y, Yoshizawa T (2001) Photoisomerization in rhodopsin. Biochemistry (Moscow) 66(11):1197-209.