Institute for Protein Research, Osaka University   Biomolecular Recognition (Takara-Bio) Endowed Division   Assistant Professor

2005.10 - 2008.9

Biomolecular Engineering Research Institute   Department of Structural Biology   Senior Researcher

2005.4 - 2005.9

Biomolecular Engineering Research Institute   Department of Structural Biology   Researcher

2001.4 - 2005.3

Biomolecular Engineering Research Institute   Department of Structural Biology   Post Doctral Fellow

1999.4 - 2001.3

生体分子構造データのグラフによる統一の試み

2013.4 - 2016.3

クランプによるレプリソームの制御機構の構造機能相関の研究

2012.4 - 2016.3

Crystal structures of human peroxisome proliferator-activated receptor δ ligand-binding domain in complexes with phenylpropanoic acid derivatives and a pyridine carboxylic acid derivative Reviewed Major achievement

Oyama T, Takiguchi K, Miyachi H.

Acta Crystallographica Section F-Structural Biology Communications   78 ( 2 )   81 - 87   2022.2( ISSN：2053-230X )

Family D DNA polymerase interacts with GINS to promote CMG-helicase in the archaeal replisome Reviewed Major achievement

Keisuke Oki, Mariko Nagata, Takeshi Yamagami, Tomoyuki Numata, Sonoko Ishino, Takuji Oyama, Yoshizumi Ishino

NUCLEIC ACIDS RESEARCH   2021.9( ISSN：0305-1048 )

Structural basis for anti-non-alcoholic fatty liver disease and diabetic dyslipidemia drug saroglitazar as a PPAR α/γ dual agonist Reviewed Major achievement

Honda A, Kamata S, Satta C, Machida Y, Uchii K, Terasawa K, Nemoto A, Oyama T, Ishii I

BIOLOGICAL & PHARMACEUTICAL BULLETIN   44 ( 9 )   1210 - 1219   2021.9( ISSN：0918-6158 )

Crystal structures of the human peroxisome proliferator-activated receptor (PPAR)α ligand-binding domain in complexes with a series of phenylpropanoic acid derivatives generated by a ligand-exchange soaking method Reviewed Major achievement

Oyama T, Kamata S, Ishii I, Miyachi H

BIOLOGICAL & PHARMACEUTICAL BULLETIN   44 ( 9 )   1202 - 1209   2021.9( ISSN：0918-6158 )

Preparation of co-crystals of human PPARα-LBD and ligand for high-resolution X-ray crystallography Reviewed Major achievement

Kamata S, Oyama T, Ishii I

　   2 ( 1 )   2021.3( ISSN：2666-1667 )

PPARα Ligand-Binding Domain Structures with Endogenous Fatty Acids and Fibrates Reviewed Major achievement

Kamata S, Oyama T, Saito K, Honda A, Yamamoto Y, Suda K, Ishikawa R, Itoh T, Watanabe Y, Shibata T, Uchida K, Suematsu M, Ishii I

iScience   23 ( 11 )   101727   2020.11( ISSN：2589-0042 )

A crystallization and preliminary X-ray diffraction study of the Arabidopsis thaliana proliferating cell nuclear antigen (PCNA2) alone and in a complex with a PIP-box peptide from Flap endonuclease 1 Reviewed Major achievement

Ewa Kowalska, Wojciech Strzalka, Takuji Oyama

ACTA BIOCHIMICA POLONICA   67 ( 1 )   49 - 52   2020.3( ISSN：0001-527X )

Direct visualization of DNA baton pass between replication factors bound to PCNA Reviewed Major achievement

Mayanagi K, Ishino S, Shirai T, Oyama T, Kiyonari S, Kohda D, Morikawa K, Ishino Y

Scientific Reports   8 ( 1 )   2018.11( ISSN：2045-2322 )

Atomic structure of an archaeal GAN suggests its dual roles as an exonuclease in DNA repair and a CMG component in DNA replication Reviewed Major achievement

NUCLEIC ACIDS RESEARCH   44 ( 19 )   9505 - 9517   2016.9( ISSN：0305-1048 )

Structural analysis of "dynein", a huge molecular motor working in the cells Major achievement

J. Jpn. Soc. Synchrotron Rad.   29 ( 2 )   2016.4

Integrated molecular mechanism directing nucleosome reorganization by human FACT Reviewed Major achievement

GENES & DEVELOPMENT   30 ( 6 )   673 - 686   2016.3( ISSN：0890-9369 )

Peroxisome proliferator-activated receptor gamma has multiple binding points that accommodate ligands in various conformations: Structurally similar PPARgamma partial agonists bind to PPARgamma LBD in different conformations Reviewed Major achievement

BIOORGANIC & MEDICINAL CHEMISTRY LETTERS   25 ( 14 )   2758 - 2762   2015.7( ISSN：0960-894X )

Different structures of the two peroxisome proliferator-activated receptor gamma (PPARgamma) ligand-binding domains in homodimeric complex with partial agonist, but not full agonist. Reviewed Major achievement

BIOORGANIC & MEDICINAL CHEMISTRY LETTERS   25 ( 13 )   2639 - 2644   2015.4( ISSN：0960-894X )

Modification of Chimeric (2S, 3S)-butanediol dehydrogenase based on structural information Reviewed Major achievement

PROTEIN AND PEPTIDE LETTERS   22 ( 3 )   226 - 233   2015.3( ISSN：0929-8665 )

Disordered interdomain region of Gins is important for functional tetramer formation to stimulate MCM helicase in Thermoplasma acidophilum Reviewed Major achievement

BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY   79 ( 3 )   432 - 438   2015.3( ISSN：0916-8451 )

Structural design and synthesis of arylalkynyl amide-type peroxisome proliferator-Activated Receptor gamma (PPARgamma)-selective antagonists based on the helix12-folding inhibition hypothesis Reviewed Major achievement

EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY   90   53 - 67   2015.1( ISSN：0223-5234 )

Structure of the entire stalk region of the dynein motor domain Reviewed Major achievement

JOURNAL OF MOLECULAR BIOLOGY   426 ( 19 )   3232 - 3245   2014.9( ISSN：0022-2836 )

Molecular dynamics study-guided identification of cyclic amine structures as novel hydrophobic tail components of hPPARgamma agonists Reviewed Major achievement

Tanaka Y.,Gamo K.,Oyama T.,Ohashi M.,Waki M.,Matsuno K.,Matsuura N.,Tokiwa H.,Miyachi H.

BIOORGANIC & MEDICINAL CHEMISTRY   24 ( 16 )   4001 - 4005   2014.8( ISSN：0968-0896 )

Purification and characterization of a protease from Isaria cicadae Reviewed Major achievement

Takekawa C.,Nakamura K.,Homma H.,Oyama T.

Mushroom Science and Biotechnology   22 ( 2 )   74 - 78   2014.7

Crystallization and preliminary X-ray diffraction analysis of domain chimeric L-(2S, 3S)-butanediol dehydrogenase. Reviewed Major achievement

Shimegi T.,Oyama T.,Ohtsuki T.,Kurisu G.,Kusunoki M.,Ui S.

Acta Crystallographica Section F-Structural Biology and Crystallization Communications   70 ( 4 )   461 - 463   2014.4( ISSN：1744-3091 )

Mutational and structural analyses of Caldanaerobius polysaccharolyticus Man5B reveal novel active site residues for family 5 glycoside hydrolases Reviewed Major achievement

Oyama T.,Schmitz G.E.,Dodd D.,Han Y.,Burnett A.,Nagasawa N.,Mackie R.I.,Nakamura H.,Morikawa K.,Cann I.K.

PLoS One   8 ( 11 )   e80448   2013.10( ISSN：1932-6203 )

Crystal structures of copper-depleted and copper-bound fungal pro-tyrosinase: Insights into endogenous cysteine-dependent copper incorporation. Reviewed Major achievement

Fujieda N,Yabuta S,Ikeda T,Oyama T,Muraki N,Kurisu G,Itoh S

JOURNAL OF BIOLOGICAL CHEMISTRY   288 ( 30 )   22128 - 22140   2013.6( ISSN：0021-9258 )

Design and synthesis of a series of alpha-benzyl phenylpropanoic acid-type peroxisome proliferator-activated receptor (PPAR) gamma partial agonists with improved aqueous solubility Reviewed Major achievement

Ohashi M,Oyama T,Putranto EW,Waku T,Nobusada H,Takaoka K,Matsuno K,Yashiro M,Morikawa K,Huh NH,Miyachi H

BIOORGANIC & MEDICINAL CHEMISTRY   21 ( 8 )   2319 - 2332   2013.4( ISSN：0968-0896 )

Bidirectional fluorescence properties of pyrene-based peroxisome proliferator-activated receptor (PPAR) α/δ dual agonist. Reviewed Major achievement

Ban S,Oyama T,Kasuga JI,Ohgane K,Nishio Y,Morikawa K,Hashimoto Y,Miyachi H

BIOORGANIC & MEDICINAL CHEMISTRY   20 ( 11 )   3460 - 3464   2012.4( ISSN：0968-0896 )

The 2.8 Å crystal structure of the dynein motor domain. Reviewed Major achievement

Kon T,Oyama T,Shimo-Kon R,Imamula K,Shima T,Sutoh K,Kurisu G

NATURE   484 ( 7394 )   345 - 350   2012.4( ISSN：0028-0836 )

CENP-T-W-S-X forms a unique centromeric chromatin structure with a histone-like fold. Reviewed Major achievement

CELL   148 ( 3 )   487 - 501   2012.2( ISSN：0092-8674 )

Peroxisome proliferator-activated receptors (PPARs) have multiple binding points that accommodate ligands in various conformations: phenylpropanoic acid-type PPAR ligands bind to PPAR in different conformations, depending on the subtype. Reviewed Major achievement

Kuwabara N,Oyama T,Tomioka D,Ohashi M,Yanagisawa J,Shimizu T,Miyachi H

JOURNAL OF MEDICINAL CHEMISTRY   55 ( 2 )   331 - 341   2012.1( ISSN：0022-2623 )

Architectures of archaeal GINS complexes, essential DNA replication initiation factors. Reviewed Major achievement

Oyama T,Ishino S,Fujino S,Ogino H,Shirai T,Mayanagi K,Saito M,Nagasawa N,Ishino Y,Morikawa K

BMC BIOLOGY   9   28 - 28   2011.4( ISSN：1741-7007 )

Detecting structural similarity of ligand interactions in the lipid metabolic system including enzymes, lipid-binding proteins and nuclear receptors. Reviewed Major achievement

Shionyu-Mitsuyama C,Waku T,Shiraki T,Oyama T,Shirai T,Morikawa K.

PROTEIN ENGINEERING DESIGN & SELECTION   24 ( 4 )   397 - 403   2011.4( ISSN：1741-0126 )

Design, synthesis, and structural analysis of phenylpropanoic acid-type PPARγ-selective agonists: discovery of reversed stereochemistry-activity relationship. Reviewed Major achievement

Ohashi M,Oyama T,Nakagome I,Satoh M,Nishio Y,Nobusada H,Hirono S,Morikawa K,Hashimoto Y,Miyachi H

JOURNAL OF MEDICINAL CHEMISTRY   54 ( 1 )   331 - 341   2011.1( ISSN：0022-2623 )

The nuclear receptor PPARγ individually responds to serotonin- and fatty acid-metabolites. Reviewed Major achievement

EMBO JOURNAL   29 ( 19 )   3395 - 3407   2010.10( ISSN：0261-4189 )

Structural determinant for switching between the polymerase and exonuclease modes in the PCNA-replicative DNA polymerase complex. Reviewed Major achievement

Proc. Natl. Acad. Sci. USA   106 ( 49 )   20693 - 20698   2009.12

Adaptability and selectivity of human peroxisome proliferator-activated receptor (PPAR) pan agonists revealed from crystal structures. Reviewed Major achievement

Acta Crystallogr. D Biol. Crystallogr.   65 ( 8 )   786 - 795   2009.8

Design and synthesis of peroxisome proliferator-activated receptor (PPAR) delta agonists and its implication to the driving force to elicit PPAR delta selectivity. Reviewed Major achievement

Yakugaku Zasshi   129 ( 6 )   709 - 718   2009.6

Crystal structures of the Arabidopsis thaliana proliferating cell nuclear antigen 1 and 2 proteins complexed with the human p21 C-terminal segment. Reviewed Major achievement

Protein Sci.   18 ( 5 )   1072 - 1080   2009.5

Atomic structures and functional implications of the archaeal RecQ-like helicase Hjm. Reviewed Major achievement

BMC Struct. Biol.   9   2 - 2   2009.1

Structural insight into PPARgamma activation through covalent modification with endogenous fatty acids. Reviewed Major achievement

J. Mol. Biol.   385 ( 1 )   188 - 199   2009.1

Atomic structure of mutant PPARgamma LBD complexed with 15d-PGJ2: novel modulation mechanism of PPARgamma/RXRalpha function by covalently bound ligands. Reviewed Major achievement

FEBS Lett.   583 ( 2 )   320 - 324   2009.1

Determination of the critical amino acids involved in the peroxisome proliferator-activated receptor (PPAR) delta selectivity of phenylpropanoic acid-derived agonists. Reviewed Major achievement

Kasuga J,Oyama T,Nakagome I,Makishima M,Hirono S,Morikawa K,Hashimoto Y,Miyachi H

ChemMedChem   3 ( 11 )   1662 - 1666   2008.11

Structure-based design and synthesis of fluorescent PPARalpha/delta co-agonist and its application as a probe for fluorescent polarization assay of PPARdelta ligands. Reviewed Major achievement

Araya Y,Kasuga J,Toyota K,Hirakawa Y,Oyama T,Makishima M,Morikawa K,Hashimoto Y,Miyachi H

Chem. Pharm. Bull. (Tokyo)   56 ( 9 )   1357 - 1359   2008.9

Improvement of the transactivation activity of phenylpropanoic acid-type peroxisome proliferator-activated receptor pan agonists: effect of introduction of fluorine at the linker part. Reviewed Major achievement

Kasuga J,Oyama T,Hirakawa Y,Makishima M,Morikawa K,Hashimoto Y,Miyachi H

Bioorg. Med. Chem. Lett.   18 ( 16 )   4525 - 4528   2008.8

Structural insights into the PIP2 recognition by syntenin-1 PDZ domain. Reviewed Major achievement

Sugi T,Oyama T,Morikawa K,Jingami H

Biochem. Biophys. Res. Commun.   366 ( 2 )   373 - 378   2008.2

Crystallization and preliminary crystallographic study of DNA polymerase from Pyrococcus furiosus. Reviewed Major achievement

Protein Pept. Lett.   14 ( 4 )   403 - 405   2007.5

Crystal structures of autoinhibitory PDZ domain of Tamalin: implications for metabotropic glutamate receptor trafficking regulation. Reviewed Major achievement

EMBO J.   26 ( 8 )   2192 - 2205   2007.4

Mechanism to load the clamp onto DNA: seeing vivid structures by single particle analysis. Reviewed Major achievement

Hirofumi Suzuki, Tomoko Miyata, Kouta Mayanagi, Yoshizumi Ishino, Takuji Oyama, Kosuke Morikawa

Seibutsu Butsuri   46 ( 6 )   345 - 348   2006.12

Open, set, and close: DNA clamp loading mechanism revealed by electron microscopy. Major achievement

Tanpakushitsu Kakusan Koso   51 ( 2 )   155 - 161   2006.2

Crystallization and preliminary X-ray analysis of the Pax6 paired domain bound to the Pax6 gene enhancer. Reviewed Major achievement

Ito M,Oyama T,Okazaki K,Morikawa K

Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun.   61 ( 11 )   1009 - 1012   2005.11

Open clamp structure in the clamp-loading complex visualized by electron microscopic image analysis. Reviewed Major achievement

Miyata T,Suzuki H,Oyama T,Mayanagi K,Ishino Y,Morikawa K

Proc. Natl. Acad. Sci. USA   102 ( 39 )   13795 - 13800   2005.9

Purification, crystallization and preliminary X-ray analysis of the ligand-binding domain of human lectin-like oxidized low-density lipoprotein receptor 1 (LOX-1). Reviewed Major achievement

Ishigaki T,Ohki I,Oyama T,Machida S,Morikawa K,Tate S

Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun.   61 ( 5 )   524 - 527   2005.5

Detection of subunit interfacial modifications by tracing the evolution of clamp-loader complex. Reviewed Major achievement

Saito M,Oyama T,Shirai T

Protein Eng. Des. Sel.   18 ( 3 )   139 - 145   2005.5

Crystal structure of human lectin-like, oxidized low-density lipoprotein receptor 1 ligand binding domain and its ligand recognition mode to OxLDL. Reviewed Major achievement

Ohki I,Ishigaki T,Oyama T,Matsunaga S,Xie Q,Ohnishi-Kameyama M,Murata T,Tsuchiya D,Machida S,Morikawa K,Tate S

Structure   13 ( 6 )   905 - 917   2005.1

Domain architectures and characterization of an RNA-binding protein, TLS. Reviewed Major achievement

Iko Y,Kodama TS,Kasai N,Oyama T,Morita EH,Muto T,Okumura M,Fujii R,Takumi T,Tate S,Morikawa K

J. Biol. Chem.   279 ( 43 )   44834 - 44840   2004.10

The clamp-loading complex for processive DNA replication. Reviewed Major achievement

Miyata T,Oyama T,Mayanagi K,Ishino S,Ishino Y,Morikawa K

Nat. Struct. Mol. Biol.   11 ( 7 )   632 - 636   2004.7

Structural basis for channelling mechanism of a fatty acid beta-oxidation multienzyme complex. Reviewed Major achievement

Ishikawa M,Tsuchiya D,Oyama T,Tsunaka Y,Morikawa K

EMBO J.   23 ( 14 )   2745 - 2754   2004.7

Mutational analysis of Pyrococcus furiosus replication factor C based on the three-dimensional structure. Reviewed Major achievement

Ishino S,Oyama T,Yuasa M,Morikawa K,Ishino Y

Extremophiles   7 ( 3 )   169 - 175   2003.6

Crystal structures of beta-amylase from Bacillus cereus var mycoides in complexes with substrate analogs and affinity-labeling reagents. Reviewed Major achievement

Oyama T,Miyake H,Kusunoki M,Nitta Y

J. Biochem.   133 ( 4 )   467 - 474   2003.4

Crystal structure of the RuvA-RuvB complex: a structural basis for the Holliday junction migrating motor machinery. Reviewed Major achievement

Yamada K,Miyata T,Tsuchiya D,Oyama T,Fujiwara Y,Ohnishi T,Iwasaki H,Shinagawa H,Ariyoshi M,Mayanagi K,Morikawa K

Mol. Cell   10 ( 3 )   671 - 681   2002.9

Structural biology for the initial stages of DNA replication Major achievement

Tanpakushitsu Kakusan Koso   47 ( 8 Suppl. )   919 - 925   2002.6

Atomic structure of the clamp loader small subunit from Pyrococcus furiosus. Reviewed Major achievement

Oyama T,Ishino Y,Cann IK,Ishino S,Morikawa K

Molecular Cell   8 ( 2 )   455 - 463   2001.8

Structural and functional studies of MinD ATPase: implications for the molecular recognition of the bacterial cell division apparatus. Reviewed Major achievement

Hayashi I,Oyama T,Morikawa K

EMBO J.   20 ( 8 )   1819 - 1828   2001.4

Three-dimensional electron microscopy of the clamp loader small subunit from Pyrococcus furiosus. Reviewed Major achievement

J. Struct. Biol.   134 ( 1 )   35 - 45   2001.4

Crystal structure of beta-amylase from Bacillus cereus var. mycoides at 2.2 A resolution. Reviewed Major achievement

J. Biochem.   125 ( 6 )   1120 - 1130   1999.6

Crystallization and preliminary X-ray analysis of beta-amylase from Bacillus cereus var. mycoides. Reviewed Major achievement

Oyama T,Kusunoki M,Kishimoto Y,Takasaki Y,Nitta Y

Protein Pept. Lett.   5 ( 6 )   349 - 354   1998.12

Properties of Taka-amylase A with Glu230 or Asp297 of the catalytic residue replaced by the corresponding amine. Reviewed Major achievement

Biosci. Biotech. Biochem.   60 ( 8 )   1351 - 1352   1996.10

Research on Bioscience A

2023Year

Seminar on Bioscience A

2023Year

Advanced Structural Biology Major achievement

2023Year

国立情報学研究所主催のサイバーシンポジウムで講演

山梨大学  トップページトピックス  山梨大学トピックス  2020.9

国立情報学研究所サイバーシンポジウム（2020年第16回）での講演

Role(s)： Lecturer

国立情報学研究所  2020年第16回サイバーシンポジウム  国立情報学研究所サイバーシンポジウム  2020.9

大学における新型コロナウイルス感染症対策の好事例について

文部科学省  HPトピックス  文部科学省ウェブページ  2020.8

タンパク質：構造が機能を物語る

Role(s)： Lecturer

（株）フロムページ  夢ナビライブ201９東京  東京ビッグサイト  2019.6

タンパク質：構造が機能を物語る

Role(s)： Lecturer

（株）フロムページ  夢ナビライブ201８名古屋  ポートメッセ名古屋  2018.7

タンパク質：構造が機能を物語る

Role(s)： Lecturer

（株）フロムページ  夢ナビライブ201８東京  東京ビッグサイト  2018.7

タンパク質：構造が機能を物語る

Role(s)： Lecturer

（株）フロムページ  夢ナビライブ2017東京  東京ビッグサイト  2017.7

山梨大学Future seed ライブ

Role(s)： Appearance

FM FUJI  山梨大学Future seed ライブ  FM FUJI スタジオ  2016.8

タンパク質：構造が機能を物語る

Role(s)： Lecturer

（株）フロムページ  夢ナビライブ2016東京  東京ビッグサイト  2016.7