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1

Structure of Novel Enzyme in Mannan Biodegradation Process 4-O-β-d-Mannosyl-d-Glucose Phosphorylase MGP

Nakae, Setsu, Ito, Shigeaki, Higa, Mariko, Senoura, Takeshi, Wasaki, Jun, Hijikata, Atsushi, Shionyu, Masafumi, Ito, Susumu, Shirai, Tsuyoshi

Journal:

Journal of Molecular Biology

Year:

2013

Language:

english

File:

PDF, 1.53 MB

english, 2013

2

Ridaifen-F conjugated with cell-penetrating peptides inhibits intracellular proteasome activities and induces drug-resistant cell death

Tanaka, Makoto, Zhu, Yunhao, Shionyu, Masafumi, Ota, Nozomi, Shibata, Natsumi, Watanabe, Chihiro, Mizusawa, Akihito, Sasaki, Ryuzo, Mizukami, Tamio, Shiina, Isamu, Hasegawa, Makoto

Journal:

European Journal of Medicinal Chemistry

Year:

2018

Language:

english

File:

PDF, 1.90 MB

english, 2018

3

Chondroitin Sulfate Synthase-2: MOLECULAR CLONING AND CHARACTERIZATION OF A NOVEL HUMAN GLYCOSYLTRANSFERASE HOMOLOGOUS TO CHONDROITIN SULFATE GLUCURONYLTRANSFERASE, WHICH HAS DUAL ENZYMATIC ACTIVITIES

Yada, T., Gotoh, M., Sato, T., Shionyu, M., Go, M., Kaseyama, H., Iwasaki, H., Kikuchi, N., Kwon, Y.-D., Togayachi, A., Kudo, T., Watanabe, H., Narimatsu, H., Kimata, K.

Journal:

Journal of Biological Chemistry

Year:

2003

Language:

english

File:

PDF, 761 KB

english, 2003

4

3P296 Development of an algorithm for modeling of multi-domain proteins(Bioinformatics: Structural genomics,The 48th Annual Meeting of the Biophysical Society of Japan)

Hirako, Satoru, Ishikawa, Hideaki, Shionyu, Masafumi

Journal:

Seibutsu Butsuri

Year:

2010

Language:

english

File:

PDF, 233 KB

english, 2010

5

Domain identification of large proteins

Shionyu, M., Go, M.

Journal:

Seibutsu Butsuri

Year:

2001

File:

PDF, 235 KB

2001

6

1P482 Structural based analysis of protein-sugar binding sites(23. Bioinformatics, genomics and proteomics (I),Poster Session,Abstract,Meeting Program of EABS & BSJ 2006)

Shionyu-Mitsuyama, Clara, Kinoshita, Kengo, Kidera, Akinori, Nakamura, Haruki

Journal:

Seibutsu Butsuri

Year:

2006

Language:

english

File:

PDF, 153 KB

english, 2006

7

1L1145 Observation and Prediction of sugar binding sites.

Shionyu, C. M., Shirai, T., Ishida, H., Yamane, T.

Journal:

Seibutsu Butsuri

Year:

2002

File:

PDF, 225 KB

2002

8

AS-EAST: a functional annotation tool for putative proteins encoded by alternatively spliced transcripts

Shionyu, M., Takahashi, K.-i., Go, M.

Journal:

Year:

2012

Language:

english

File:

PDF, 169 KB

english, 2012

9

DINE: A Novel Score Function for Modeling Multidomain Protein Structures with Domain Linker and Interface Restraints

Hirako, Satoru, Shionyu, Masafumi

Journal:

IPSJ Transactions on Bioinformatics

Year:

2012

Language:

english

File:

PDF, 1010 KB

english, 2012

10

Chondroitin Sulfate Synthase-2/Chondroitin Polymerizing Factor Has Two Variants with Distinct Function

Ogawa, H., Shionyu, M., Sugiura, N., Hatano, S., Nagai, N., Kubota, Y., Nishiwaki, K., Sato, T., Gotoh, M., Narimatsu, H., Shimizu, K., Kimata, K., Watanabe, H.

Journal:

Journal of Biological Chemistry

Year:

2010

Language:

english

File:

PDF, 2.80 MB

english, 2010

11

Knowledgeâbased structural models of SARSâCoVâ2 proteins and their complexes with potential drugs

Hijikata, Atsushi, ShionyuâMitsuyama, Clara, Nakae, Setsu, Shionyu, Masafumi, Ota, Motonori, Kanaya, Shigehiko, Shirai, Tsuyoshi

Journal:

Year:

2020

File:

PDF, 5.34 MB

2020

12

3P307 Detecting structural similarity of ligand interactions in the lipid metabolic system of NRs, lipid binding proteins, and metabolic enzymes(Bioinformatics: Molecular evolution,The 48th Annual Meeting of the Biophysical Society of Japan)

Shionyu-Mitsuyama, Clara, Waku, Tsuyoshi, Shiraki, Takuma, Oyama, Takuji, Shirai, Tsuyoshi, Morikawa, Kosuke

Journal:

Seibutsu Butsuri

Year:

2010

Language:

english

File:

PDF, 231 KB

english, 2010

13

1P059 Typical structure of carbohydrate binding site

Shionyu-Mitsuyama, C., Shirai, T.

Journal:

Seibutsu Butsuri

Year:

2004

File:

PDF, 243 KB

2004

14

1P-239 Prediction of domain-domain interaction sites from interface propensity and known interface positions of homologs(Bioinformatics:Structural genomics, The 47th Annual Meeting of the Biophysical Society of Japan)

Shionyu, Masafumi, Hirako, Satoru, Ishikawa, Hideaki

Journal:

Seibutsu Butsuri

Year:

2009

Language:

english

File:

PDF, 251 KB

english, 2009

15

Splicing Factor 3b Subunit 4 Binds BMPR-IA and Inhibits Osteochondral Cell Differentiation

Watanabe, H., Shionyu, M., Kimura, T., Kimata, K., Watanabe, H.

Journal:

Journal of Biological Chemistry

Year:

2007

Language:

english

File:

PDF, 1.73 MB

english, 2007

16

Fluctuation of Rac1 activity is associated with the phenotypic and transcriptional heterogeneity of glioma cells

Yukinaga, H., Shionyu, C., Hirata, E., Ui-Tei, K., Nagashima, T., Kondo, S., Okada-Hatakeyama, M., Naoki, H., Matsuda, M.

Journal:

Journal of Cell Science

Year:

2014

Language:

english

File:

PDF, 2.51 MB

english, 2014

17

The Role of the Prod1 Membrane Anchor in Newt Limb Regeneration

Nomura, Kaoru, Tanimoto, Yasushi, Hayashi, Fumio, Harada, Erisa, Shan, Xiao-Yuan, Shionyu, Masafumi, Hijikata, Atsushi, Shirai, Tsuyoshi, Morigaki, Kenichi, Shimamoto, Keiko

Journal:

Angewandte Chemie

Year:

2017

Language:

english

File:

PDF, 3.67 MB

english, 2017

18

Structures of jacalin-related lectin PPL3 regulating pearl shell biomineralization

Nakae, Setsu, Shionyu, Masafumi, Ogawa, Tomohisa, Shirai, Tsuyoshi

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2018

Language:

english

File:

PDF, 1.56 MB

english, 2018

19

Alternative Splicing at NAGNAG Acceptor Sites Shares Common Properties in Land Plants and Mammals

Iida, K., Shionyu, M., Suso, Y.

Journal:

Molecular Biology and Evolution

Year:

2008

Language:

english

File:

PDF, 457 KB

english, 2008

20

2PT127 Development of a functional and structural annotation tool of novel protein isoforms produced by alternative splicing(The 50th Annual Meeting of the Biophysical Society of Japan)

Shionyu, Masafumi, Takahashi, Ken-ichi, Go, Mitiko

Journal:

Seibutsu Butsuri

Year:

2012

Language:

english

File:

PDF, 210 KB

english, 2012

21

2P268 A protein-protein docking prediction method not relying on the shape complementarity(22A. Bioinformatics:Structural genomics,Poster)

Hijikata, Atsushi, Shionyu, Masafumi, Shirai, Tsuyoshi

Journal:

Seibutsu Butsuri

Year:

2014

Language:

english

File:

PDF, 694 KB

english, 2014

22

Structure based studies of the adaptive diversification process of congerins

Tsuyoshi Shirai, Clara Shionyu-Mitsuyama, Tomohisa Ogawa, Koji Muramoto

Journal:

Molecular Diversity

Year:

2006

Language:

english

File:

PDF, 315 KB

english, 2006

23

Empirical Sugar Binding Site Prediction

Shionyu, C., Shrai, T.

Journal:

Seibutsu Butsuri

Year:

2001

File:

PDF, 223 KB

2001

24

Curcumin Derivatives Verify the Essentiality of ROS Upregulation in Tumor Suppression

Nakamae, Ikuko, Morimoto, Tsumoru, Shima, Hiroki, Shionyu, Masafumi, Fujiki, Hisayo, Yoneda-Kato, Noriko, Yokoyama, Takashi, Kanaya, Shigehiko, Kakiuchi, Kiyomi, Shirai, Tsuyoshi, Meiyanto, Edy, Kato,

Journal:

Year:

2019

Language:

english

File:

PDF, 7.17 MB

english, 2019

25

Corrigendum to “Affinity labeling of the proteasome by a belactosin A derived inhibitor” [Bioorg. Med. Chem. Lett. 18 (2008) 5668]

Makoto Hasegawa, Kazuhiro Kinoshita, Chika Nishimura, Umechiyo Matsumura, Masafumi Shionyu, Shun-ichi Ikeda, Tamio Mizukami

Journal:

Bioorganic & Medicinal Chemistry Letters

Year:

2009

Language:

english

File:

PDF, 102 KB

english, 2009

26

Alternative splicing in human transcriptome: Functional and structural influence on proteins

Kei Yura, Masafumi Shionyu, Kei Hagino, Atsushi Hijikata, Yoshinori Hirashima, Taku Nakahara, Tatsuya Eguchi, Kazuki Shinoda, Akihiro Yamaguchi, Ken-ichi Takahashi, Takeshi Itoh, Tadashi Imanishi, Tak

Journal:

Year:

2006

Language:

english

File:

PDF, 801 KB

english, 2006

27

S08I6 Alternative Splicing and Its Influence on Protein Conformation(Bioinformatics in the Era of Structural Proteomics)

Go, Mitiko, Yura, Kei, Shionyu, Masafumi

Journal:

Seibutsu Butsuri

Year:

2007

Language:

english

File:

PDF, 209 KB

english, 2007

28

Repetitive use of a phosphate-binding module in DNA polymerase β, Oct-1 POU domain and phage repressors

Yura, K., Shionyu, M., Kawatani, K., Gō, M.

Journal:

Cellular and Molecular Life Sciences

Year:

1999

Language:

english

File:

PDF, 1.13 MB

english, 1999

29

The Role of the Prod1 Membrane Anchor in Newt Limb Regeneration

Nomura, Kaoru, Tanimoto, Yasushi, Hayashi, Fumio, Harada, Erisa, Shan, Xiao-Yuan, Shionyu, Masafumi, Hijikata, Atsushi, Shirai, Tsuyoshi, Morigaki, Kenichi, Shimamoto, Keiko

Journal:

Angewandte Chemie International Edition

Year:

2016

Language:

english

File:

PDF, 2.15 MB

english, 2016

30

The crystal structure of the mutant of conger eel galectin, congerinII with increased Thermostability

Shionyu, C., Miwa, Y., Shirai, T., Yamane, T., Ito, Y., Ogawa, T., Muramoto, K.

Journal:

Seibutsu Butsuri

Year:

2003

File:

PDF, 251 KB

2003

31

Curcumin Derivatives Verify the Essentiality of ROS Upregulation in Tumor Suppression

Nakamae, Ikuko, Morimoto, Tsumoru, Shima, Hiroki, Shionyu, Masafumi, Fujiki, Hisayo, Yoneda-Kato, Noriko, Yokoyama, Takashi, Kanaya, Shigehiko, Kakiuchi, Kiyomi, Shirai, Tsuyoshi, Meiyanto, Edy, Kato,

Journal:

Year:

2019

File:

PDF, 7.17 MB

2019

32

1P292 Structural based analysis and classification of protein-carbohydrate interactions

Shionyu-Mitsuyama, C., Kinoshita, K., Kidera, A., Nakamura, H.

Journal:

Seibutsu Butsuri

Year:

2005

File:

PDF, 273 KB

2005

33

1P268 Evaluation of functional significance of splicing isoforms(22A. Bioinformatics: Structural genomics,Poster)

Shionyu, Masafumi, Ikeda, Shiori, Takahashi, Ken-ichi

Journal:

Seibutsu Butsuri

Year:

2013

Language:

english

File:

PDF, 692 KB

english, 2013

34

2P-299 Searching for the binding-sites for common-substructures of ligands among lipid-signaling proteins(The 46th Annual Meeting of the Biophysical Society of Japan)

Shionyu, Clara, Waku, Tsuyoshi, Oyama, Takuji, Shiraki, Takuma, Shirai, Tsuyoshi, Morikawa, Kosuke

Journal:

Seibutsu Butsuri

Year:

2008

Language:

english

File:

PDF, 289 KB

english, 2008

35

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

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

Journal:

Protein Engineering Design and Selection

Year:

2011

Language:

english

File:

PDF, 253 KB

english, 2011

36

Classification of ligand molecules in PDB with graph match-based structural superposition

Clara Shionyu-Mitsuyama,Atsushi Hijikata…

Journal:

Journal of Structural and Functional Genomics

Year:

2016

Language:

english

File:

PDF, 1.20 MB

english, 2016

37

2SE02 Roles of alternative splicing for diversification of protein structure and function

Shionyu, M., Yura, K, Hijikata, A., Nakahara, T., Shinoda, K., Yamaguchi, A., Takahashi, K., Go, M.

Journal:

Seibutsu Butsuri

Year:

2005

File:

PDF, 261 KB

2005

38

Module organization and origin of myoglobin

Shionyu, M., Yura, K., Go, M.

Journal:

Seibutsu Butsuri

Year:

2001

File:

PDF, 250 KB

2001

39

Variable Subunit Contact and Cooperativity of Hemoglobins

Masafumi Shionyu, Ken-ichi Takahashi, Mitiko Gō

Journal:

Journal of Molecular Evolution

Year:

2001

Language:

english

File:

PDF, 2.83 MB

english, 2001

40

A novel tamoxifen derivative, ridaifen-F, is a nonpeptidic small-molecule proteasome inhibitor

Hasegawa, Makoto, Yasuda, Yukari, Tanaka, Makoto, Nakata, Kenya, Umeda, Eri, Wang, Yanwen, Watanabe, Chihiro, Uetake, Shoko, Kunoh, Tatsuki, Shionyu, Masafumi, Sasaki, Ryuzo, Shiina, Isamu, Mizukami,

Journal:

European Journal of Medicinal Chemistry

Year:

2014

Language:

english

File:

PDF, 2.43 MB

english, 2014

41

2P005 Structure of novel enzyme 4-O-β-D-mannosyl-D-glucose phosphorylase MGP(01A. Protein: Structure,Poster)

Nakae, Setsu, Ito, Shigeaki, Higa, Mariko, Senoura, Takeshi, Wasaki, Jun, Hijikata, Atsushi, Shionyu, Masafumi, Ito, Susumu, Shirai, Tsuyoshi

Journal:

Seibutsu Butsuri

Year:

2013

Language:

english

File:

PDF, 728 KB

english, 2013

42

1P261 Prediction of 3D structures of multidomain proteins composed of more than two domains(22A. Bioinformatics:Structural genomics,Poster,The 52nd Annual Meeting of the Biophysical Society of Japan(BSJ2014))

Shionyu, Masafumi, Hijikata, Atsushi, Shirai, Tsuyoshi

Journal:

Seibutsu Butsuri

Year:

2014

Language:

english

File:

PDF, 694 KB

english, 2014

43

2P-293 Development of a method for predicting domain-domain interface(The 46th Annual Meeting of the Biophysical Society of Japan)

Shionyu, Masafumi, Ishikawa, Hideaki, Hirako, Satoru

Journal:

Seibutsu Butsuri

Year:

2008

Language:

english

File:

PDF, 297 KB

english, 2008

44

Affinity labeling of the proteasome by a belactosin A derived inhibitor

Makoto Hasegawa, Kazuhiro Kinoshita, Chika Nishimura, Umechiyo Matsumura, Masashi Shionyu, Shun-ichi Ikeda, Tamio Mizukami

Journal:

Bioorganic & Medicinal Chemistry Letters

Year:

2008

Language:

english

File:

PDF, 428 KB

english, 2008

45

Pentagamavunon-1 (PGV-1) inhibits ROS metabolic enzymes and suppresses tumor cell growth by inducing M phase (prometaphase) arrest and cell senescence

Lestari, Beni, Nakamae, Ikuko, Yoneda-Kato, Noriko, Morimoto, Tsumoru, Kanaya, Shigehiko, Yokoyama, Takashi, Shionyu, Masafumi, Shirai, Tsuyoshi, Meiyanto, Edy, Kato, Jun-ya

Journal:

Scientific Reports

Year:

2019

File:

PDF, 6.92 MB

2019

46

The speciation of conger eel galectins by rapid adaptive evolution

Tomohisa Ogawa, Tsuyoshi Shirai, Clara Shionyu-Mitsuyama, Takashi Yamane, Hisao Kamiya, Koji Muramoto

Journal:

Glycoconjugate Journal

Year:

2002

Language:

english

File:

PDF, 221 KB

english, 2002

47

Stochastic ERK Activation Induced by Noise and Cell-to-Cell Propagation Regulates Cell Density-Dependent Proliferation

Aoki, Kazuhiro, Kumagai, Yuka, Sakurai, Atsuro, Komatsu, Naoki, Fujita, Yoshihisa, Shionyu, Clara, Matsuda, Michiyuki

Journal:

Year:

2013

Language:

english

File:

PDF, 2.54 MB

english, 2013

48

In Vitro Evolutionary Thermostabilization of Congerin II: A Limited Reproduction of Natural Protein Evolution by Artificial Selection Pressure

Clara Shionyu-Mitsuyama, Yoshimaro Ito, Ayumu Konno, Yukiko Miwa, Tomohisa Ogawa, Koji Muramoto, Tsuyoshi Shirai

Journal:

Journal of Molecular Biology

Year:

2005

Language:

english

File:

PDF, 732 KB

english, 2005

49

AS-ALPS: a database for analyzing the effects of alternative splicing on protein structure, interaction and network in human and mouse

Shionyu, M., Yamaguchi, A., Shinoda, K., Takahashi, K.-i., Go, M.

Journal:

Nucleic Acids Research

Year:

2009

Language:

english

File:

PDF, 6.34 MB

english, 2009

50

Crystal Structure of a Conger Eel Galectin (Congerin II) at 1.45 Å Resolution: Implication for the Accelerated Evolution of a New Ligand-binding Site Following Gene Duplication

Tsuyoshi Shirai, Yuuka Matsui, Clara Shionyu-Mitsuyama, Takashi Yamane, Hisao Kamiya, Chihiro Ishii, Tomohisa Ogawa, Koji Muramoto

Journal:

Journal of Molecular Biology

Year:

2002

Language:

english

File:

PDF, 596 KB

english, 2002

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