article  review   
l 2015 _______________________________________________________________
POMGNT1 is glycosylated by mucin-type O-glycans.
Xin Xin, Keiko Akasaka-Manya, Hiroshi Manya, Jun-ichi Furukawa, Naoyuki Kuwahara, Kazue Okada, Hiroki Tsumoto, Nobuaki Higashi, Ryuichi Kato, Yasuro Shinohara, Tatsuro Irimura, and Tamao Endo
Biol. Pharm. Bull. 38, 1389-1394 (2015).
Structure of a BAG6 (Bcl-2-associated Athanogene 6)-Ubl4a (Ubiquitin-like Protein 4a) Complex Reveals a Novel Binding Interface That Functions in Tail-anchored Protein Biogenesis.
Kuwabara N, Minami R, Yokota N, Matsumoto H, Senda T, Kawahara H, Kato R.
J Biol Chem. 2015 Apr 10;290(15):9387-98.
セレン含有糖鎖を用いた糖鎖結合タンパク質の位相決定法
牧尾尚能、加藤龍一
糖鎖の新機能開発・応用ハンドブック、津本浩平 他編 pp272-276
エヌ・ティー・エス 2015.8.12発刊 ISBN978-4-86043-409-0
X-ray Crystallography of Sugar Related Proteins
H. Makyio and R. Kato.
in "Glycoscience: Biology and Medicine" ed. by N. Taniguchi et al. Springer (2015) pp175-182
 
l 2014 _______________________________________________________________

Expanded potential of seleno-carbohydrates as a molecular tool for X-ray structural determination of a carbohydrate–protein complex with single/multi-wavelength anomalous dispersion phasing
Tatsuya Suzuki, Hisayoshi Makyio, Hiromune Ando, Naoko Komura, Masanori Menjo, Yusuke Yamada, Akihiro Imamura, Hideharu Ishida, Soichi Wakatsuki, Ryuichi Kato, Makoto Kiso
Bioorg Med Chem. 2014 Apr 1;22(7):2090-101.

Mechanism underlying IKK activation mediated by the linear ubiquitin chain assembly complex (LUBAC).
Fujita H, Rahighi S, Akita M, Kato R, Sasaki Y, Wakatsuki S, Iwai K.
Mol Cell Biol. 2014 Apr;34(7):1322-35.

Molecular mechanism of strict substrate specificity of an extradiol dioxygenase, DesB, derived from Sphingobium sp. SYK-6.
Keisuke Sugimoto, Miki Senda, Daisuke Kasai, Eiji Masai, Masao Fukuda, Toshiya Senda
PLoS One. 2014 Mar 21;9(3):e92249.

Structural basis of the autophagy-related LC3/Atg13 LIR complex: recognition and interaction mechanism.
Suzuki H, Tabata K, Morita E, Kawasaki M, Kato R, Dobson RC, Yoshimori T, Wakatsuki S.
Structure. 2014 Jan 7;22(1):47-58.

A New Structure Determination Method of Lectins, Using a Selenium-containing Sugar Ligand.
H. Makyio and R. Kato.
in “Lectins / Methods in Molecular Biology 1200” ed. by J. Hirabayashi et al. Humana Press (2014) pp491-499

 
l 2013 _______________________________________________________________

Conformational change of a unique sequence in a fungal galectin from Agrocybe cylindracea controls glycan ligand-binding specificity.
Kuwabara N, Hu D, Tateno H, Makyio H, Hirabayashi J, Kato R.
FEBS Lett. 2013 Nov 15;587(22):3620-5.

Improvement of an Automated Protein Crystal Exchange System PAM for High-throughput Data Collection.
Masahiko Hiraki, Yusuke Yamada, Leonard M. G. Chavas, Soichi Wakatsuki and Naohiro Matsugaki
J Synchrotron Radiat. 2013 Nov;20(Pt 6):890-3.

Improvements toward highly accurate diffraction experiments at the macromolecular micro-crystallography beamline BL-17A.
Yusuke Yamada, Leonard M. G. Chavas, Noriyuki Igarashi, Masahiko Hiraki, Soichi Wakatsuki and Naohiro Matsugaki
J Synchrotron Radiat. 2013 Nov;20(Pt 6):938-42.

New methodologies at PF AR-NW12A: the implementation of high-pressure macromolecular crystallography.
Leonard M.G. Chavas, Takayuki Nagae, Hiroyuki Yamada, Nobuhisa Watanabe, Yusuke Yamada, Masahiko Hiraki and Naohiro Matsugaki
J Synchrotron Radiat. 2013 Nov;20(Pt 6):838-42.

Structural basis for phosphorylation-triggered autophagic clearance of Salmonella.
Rogov VV, Suzuki H, Fiskin E, Wild P, Kniss A, Rozenknop A, Kato R, Kawasaki M, McEwan DG, Löhr F, Güntert P, Dikic I, Wakatsuki S, Dötsch V.
Biochem J. 2013 Sep 15;454(3):459-66.

Structural basis of preferential binding of fucose-containing saccharide by the Caenorhabditis elegans galectin LEC-6.
Makyio H, Takeuchi T, Tamura M, Nishiyama K, Takahashi H, Natsugari H, Arata Y, Kasai K, Yamada Y, Wakatsuki S, Kato R.
Glycobiology. 2013 Jul;23(7):797-805.

Direct metal recognition by guanine nucleotide exchange factor in the initial step of exchange reaction.
Tamami Uejima, Kentaro Ihara, Mariko Sunada, Masato Kawasaki, Takashi Ueda, Ryuichi Kato, Akihiko Nakano and Soichi Wakatsuki,
Acta Crystallogr D Biol Crystallogr. 2013 Mar;69(Pt 3):345-51.

Data Management System at the Photon Factory Macromolecular Crystallography Beamline
Y Yamada, N Matsugaki, L M G Chavas, M Hiraki, N Igarashi and S Wakatsuki
2013 J. Phys.: Conf. Ser. 425 012017

Current status and future prospects of an automated sample exchange system PAM for protein crystallography
M Hiraki, Y Yamada, L M G Chavas, N Matsugaki, N Igarashi and S Wakatsuki
2013 J. Phys.: Conf. Ser. 425 012014

10 years of protein crystallography at AR-NW12A beamline
Chavas LM, Matsugaki N, Yamada Y, Hiraki M, Igarashi N, Suzuki M, Wakatsuki S.
2013 J. Phys.: Conf. Ser. 425 012008

 
l 2012 _______________________________________________________________

Structural basis for membrane binding specificity of the Bin/Amphiphysin/Rvs(BAR) domain of Arfaptin-2 determined by Arl1 GTPase.
Nakamura K, Man Z, Xie Y, Hanai A, Makyio H, Kawasaki M, Kato R, Shin HW, Nakayama K, Wakatsuki S.
J Biol Chem. 2012 Jul 20;287(30):25478-89.

Beamline AR-NW12A: high-throughput beamline for macromolecular crystallography at the Photon Factory Chavas LM, Matsugaki N, Yamada Y, Hiraki M, Igarashi N, Suzuki M, Wakatsuki S.
J Synchrotron Radiat. 2012 May;19(Pt 3):450-4.

S-SAD phasing study of death receptor 6 and its solution conformation revealed by SAXS
Heng Ru, Lixia Zhao, Wei Ding, Lianying Jiao, Neil Shaw, Wenguang Liang, Liguo Zhang, Li-Wei Hung, Naohiro Matsugaki, Soichi Wakatsuki and Zhi-Jie Liu
Acta Crystallogr D Biol Crystallogr. 2012 May;68(Pt 5):521-30.

Structural basis for Arf6–MKLP1 complex formation on the Flemming body responsible for cytokinesis Makyio H, Ohgi M, Takei T, Takahashi S, Takatsu H, Katoh Y, Hanai A, Ueda T, Kanaho Y, Xie Y, Shin HW, Kamikubo H, Kataoka M, Kawasaki M, Kato R, Wakatsuki S, Nakayama K.
EMBO J. 2012 Apr 20;31(11):2590-603. doi: 10.1038/emboj.2012.89.

High-pressure-induced water penetration into 3-isopropylmalage dehydrogenase
T. Nagae, T. Kawamura, L.M.G. Chavas, K. Niwa, M. Hasegawa, C. Kato and N. Watanabe
Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):300-9.

Structural basis of the strict phospholipid binding specificity of the pleckstrin homology domain of human evectin-2
S. Okazaki, R. Kato, Y. Uchida, T. Taguchi, H. Arai and S. Wakatsuki
Acta Crystallogr D Biol Crystallogr. 2012 Feb;68(Pt 2):117-23.

Structure of a compact conformation of linear diubiquitin
A. Rohaim, M. Kawasaki, R. Kato, I. Dikic and S. Wakatsuki
Acta Crystallogr D Biol Crystallogr. 2012 Feb;68(Pt 2):102-8.

Fully Automated Data Collection and Processing System on Macromolecular Crystallography Beamlines at the PF
Yusuke YAMADA, Masahiko HIRAKI, Naohiro MATSUGAKI, Leonard M. G. Chavas, Noriyuki IGARASHI, Soichi WAKATSUKI
J. Cryst. Soc. Jpn., 54(6), 359-363 (2012)
Structural Insights into the Phospholipid Binding Specificity of Human Evectin-2
Seiji OKAZAKI, Ryuichi KATO, Soichi WAKATSUK , Yasunori UCHIDA, Tomohiko TAGUCHI, Hiroyuki ARAI
J. Cryst. Soc. Jpn., 54(2), 101-106 (2012)
 
l 2011 _______________________________________________________________

Intracellular phosphatidylserine is essential for retrograde membrane traffic through endosomes
Uchida Y, Hasegawa J, Chinnapen D, Inoue T, Okazaki S, Kato R, Wakatsuki S, Misaki R, Koike M, Uchiyama Y, Iemura S, Natsume T, Kuwahara R, Nakagawa T, Nishikawa K, Mukai K, Miyoshi E, Taniguchi N, Sheff D, Lencer WI, Taguchi T, Arai H.
Proc Natl Acad Sci U S A. 2011 Sep 20;108(38):15846-51.

UV LED lighting for automated crystal centring
Chavas LM, Yamada Y, Hiraki M, Igarashi N, Matsugaki N, Wakatsuki S.
J Synchrotron Radiat. 2011 Jan;18(1):11-5.

Improved Inactivation Effect of Bacteria: Fabrication of Mesoporous Anatase Films with Fine Ag Nanoparticles Prepared by Coaxial Vacuum Arc Deposition
Oveisi H, Rahighi S, Jiang X, Agawa Y, Beitollahi A, Wakatsuki S, Yamauchi Y
Chem. Lett. 2011;40(4):420-422.

Selective binding of linear ubiquitin chains to NEMO in NF-kB activation
Ikeda F, Rahighi S, Wakatsuki S, Dikic I
Adv Exp Med Biol. 2011;691:107-14.

 
l 2010 _______________________________________________________________
GDP-bound and nucleotide-free intermediates of the guanine nucleotideexchange in the Rab5/Vps9 system
Uejima T,Ihara K,Goh T,Ito E,Sunada M,Ueda T,Nakano A,Wakatsuki S
J Biol Chem. 2010 Nov 19;285(47):36689-97.
Crystallization of small proteins assisted by green fluorescent protein
Suzuki N, Hiraki M, Yamada Y, Matsugaki N, Igarashi N, Kato R, Dikic I, Drew D, Iwata S, Wakatsuki S, Kawasaki M. Acta
Crystallogr D Biol Crystallogr. 2010 Oct;66(Pt 10):1059-66.
Crystal structure of cyclic Lys48-linked tetraubiquitin
Satoh T, Sakata E, Yamamoto S, Yamaguchi Y, Sumiyoshi A, Wakatsuki S, Kato K
Biochem Biophys Res Commun. 2010 Sep 24;400(3):329-33.
Unusual antibacterial property of mesoporous titania films: drastic improvement by controlling surface area and crystallinity
Oveisi H, Rahighi S, Jiang X, Nemoto Y, Beitollahi A, Wakatsuki S, Yamauchi Y
Chem Asian J. 2010 Sep 3;5(9):1978-83.
Molecular basis for defect in Alix-binding by alternatively spliced isoform of ALG-2 (ALG-2DeltaGF122) and structural roles of F122 intarget recognition
Inuzuka T, Suzuki H, Kawasaki M, Shibata H, Wakatsuki S, Maki M
BMC Struct Biol. 2010 Aug 6;10:25.
GMF is an evolutionarily developed ADF/cofilin-super family protein involved in the Arp2/3 complex-mediated organization of the actin cytoskeleton
Nakano K, Kuwayama H, Kawasaki M, Numata O, Takaine M
Cytoskeleton. 2010 Jun;67(6):373-82.
Complexity in influenza virus targeted drug design: interaction with human sialidases
Chavas LM, Kato R, Suzuki N, von Itzstein M, Mann MC, Thomson RJ, Dyason JC, McKimm-Breschkin J, Fusi P, Tringali C, Venerando B, Tettamanti G, Monti E, Wakatsuki S
J Med Chem. 2010 Apr 8;53(7):2998-3002.
Crystal structures of the CERT START domain with inhibitors provide insights into the mechanism of ceramide transfer
Norio Kudo, Keigo Kumagai, Ryosuke Matsubara, Shu Kobayashi, Kentaro Hanada, Soichi Wakatsuki, Ryuichi Kato.
J Mol Biol. 2010 Feb 19;396(2):245-51.
Crystal Structure of UbcH5b-Ubiquitin Intermediate: Insight into the Formation of the Self-Assembled E2-Ub Conjugates
Eri Sakata, Tadashi Satoh, Shunsuke Yamamoto, Yoshiki Yamaguchi, Maho Yagi-Utsumi, Eiji Kurimoto, Keiji Tanaka, Soichi Wakatsuki, and Koichi Kato
Structure. 2010 Jan 13;18(1):138-47.
Advancement of Synchrotron Radiation Protein Crystallography Aimed by the Targeted Protein Research Program: Beamline Developments at the Photon Factory
S. Wakatsuki, Y. Yamada, L. M. G. Chavas, N. Igarashi, M. Kawasaki, R. Kato, M. Hiraki, and N. Matsugaki
YAKUGAKU ZASSHI, Vol.130, No.5 631-640 (2010)
The Protein Micro-Crystallography Beamlines for Targeted Proteins Research Program
Kunio HIRATA, Masaki YAMAMOTO, Naohiro MATSUGAKI, Soichi WAKATSUKI
J. Cryst. Soc. Jpn., 52(1), 43-47 (2010)
 
l 2009 _______________________________________________________________
AR-NE3A, a New Macromolecular Crystallography Beamline for Pharmaceutical Applications at the Photon Factory
Yusuke Yamada, Masahiko Hiraki, Kumiko Sasajima, Naohiro Matsugaki, Noriyuki Igarashi, Yasushi Amano, Masaichi Warizaya, Hitoshi Sakashita, Takashi Kikuchi, Takeharu Mori, Akio Toyoshima, Shunji Kishimoto and Soichi Wakatsuki
AIP Conf. Proc, 1234, 415-418 (2009)
Fully Automated Data Collection Using PAM and the Development of PAM/SPACE Reversible Cassettes
Masahiko Hiraki, Shokei Watanabe, Leonard M. G. Chavas, Yusuke Yamada, Naohiro Matsugaki, Noriyuki Igarashi, Soichi Wakatsuki, Masahiro Fujihashi, Kunio Miki, Seiki Baba, Go Ueno, Masaki Yamamoto, Mamoru Suzuki, Atsushi Nakagawa, Nobuhisa Watanabe, and Isao Tanaka
AIP Conf. Proc, 1234, 673-676 (2009)
Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation
Rahighi S, Ikeda F, Kawasaki M, Akutsu M, Suzuki N, Kato R, Kensche T, Uejima T, Bloor S, Komander D, Randow F, Wakatsuki S, Dikic I
Cell. 2009 Mar 20;136(6):1098-109.
Structural analysis of the recognition mechanism of poly-N-acetyllactosamine by the human galectin-9 N-terminal carbohydrate recognition domain
Masamichi Nagae, Nozomu Nishi, Takeomi Murata, Taichi Usui, Takanori, Nakamura, Soichi Wakatsuki, and Ryuichi Kato
Glycobiology. 2009 Feb;19(2):112-7.
Structural Insights into Rab27 Recruitment by its Effectors
Chavas Leonard M.G., Ihara Kentaro, Kawasaki Masato, Wakatsuki Soichi
J. Cryst. Soc. Jpn., 51(6), 334-339 (2009)
The mechanism of Ca2+-dependent recognition of Alix by ALG-2: insights from X-ray crystal structures
Suzuki H, Kawasaki M, Inuzuka T, Okumura M, Kakiuchi T, Shibata H, Wakatsuki S, Maki M
Biochem Soc Trans. 2009 Feb;37(Pt 1):190-4.
 
l 2008 _______________________________________________________________
Nucleotide-Dependent Conformational Changes and Assembly of the AAA ATPase SKD1/VPS4B
Michio Inoue, Hironari Kamikubo, Mikio Kataoka, Ryuichi Kato, Tamotsu Yoshimori, Soichi Wakatsuki, Masato Kawasaki
Traffic. 2008 Dec;9(12):2180-9.
Crystallization and X-ray diffraction analysis of N-terminally truncated human ALG-2
Suzuki H, Kawasaki M, Kakiuchi T, Shibata H, Wakatsuki S, Maki M
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2008 Nov 1;64(Pt 11):974-7.
1,2-alpha-l-Fucosynthase: A glycosynthase derived from an inverting alpha-glycosidase with an unusual reaction mechanism
Wada J, Honda Y, Nagae M, Kato R, Wakatsuki S, Katayama T, Taniguchi H, Kumagai H, Kitaoka M, Yamamoto K.
FEBS Lett. 2008 Nov 12;582(27):3739-43.
Structural basis for Ca2+ -dependent formation of ALG-2/Alix peptide complex: Ca2+/EF3-driven arginine switch mechanism
Suzuki H, Kawasaki M, Inuzuka T, Okumura M, Kakiuchi T, Shibata H, Wakatsuki S, Maki M
Structure. 2008 Oct 8;16(10):1562-73.
Elucidation of Rab27 Recruitment by Its Effectors: Structure of Rab27a Bound to Exophilin4/Slp2-a
Leonard M.G. Chavas, Kentaro Ihara, Masato Kawasaki, Seiji Torii, Tamami Uejima, Ryuichi Kato, Tetsuro Izumi and Soichi Wakatsuki.
Structure. 2008 Oct 8;16(10):1468-77.
Purification, crystallization and preliminary X-ray crystallographic analysis of Rab27a GTPase in complex with exophilin4/Slp2-a effector
Chavas LM, Ihara K, Kawasaki M, Kato R, Izumi T, Wakatsuki S
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2008 Jul 1;64(Pt 7]:599-601.
Structural basis for tropomyosin overlap in thin (actin) filaments and the generation of a molecular swivel by troponin-T
Murakami K, Stewart M, Nozawa K, Tomii K, Kudou N, Igarashi N, Shirakihara Y, Wakatsuki S, Yasunaga T, Wakabayashi T
Proc Natl Acad Sci U S A. 2008 May 20;105(20):7200-5.
Miranda cargo-binding domain forms an elongated coiled-coil homodimer in solution: implications for asymmetric cell division in Drosophila
Yousef MS, Kamikubo H, Kataoka M, Kato R, Wakatsuki S
Protein Sci. 2008 May;17(5):908-17.
Development of an X-ray HARP–FEA detector system for high-throughput protein crystallography
Miyoshi T, Igarashi N, Matsugaki N, Yamada Y, Hirano K, Hyodo, K, Tanioka K, Egami N, Namba M, Kubota M, Kawai T and Wakatsuki S
J Synchrotron Radiat. 2008 May;15(Pt 3):281-4.
X-ray beam stabilization at BL-17A, the protein microcrystallography beamline of the Photon Factory
Igarashi N, Ikuta K, Miyoshi T, Matsugaki N, Yamada Y, Yousef M S.and Wakatsuki S
J Synchrotron Radiat. 2008 May;15(Pt 3):292-5.
Implementation of remote monitoring and diffraction evaluation systems at the Photon Factory macromolecular crystallography beamlines
Yamada Y, Honda N, Matsugaki N, Igarashi N, Hiraki M and Wakatsuki S
J Synchrotron Radiat. 2008 May;15(Pt 3):296-9.
High-throughput operation of sample-exchange robots with double tongs at the Photon Factory beamlines
Hiraki M, Watanabe S, Honda N, Yamada Y, Matsugaki N, Igarashi N, Gaponov Y and Wakatsuki S
J Synchrotron Radiat. 2008 May;15(Pt 3):300-3.
Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide
Kudo N, Kumagai K, Tomishige N, Yamaji T, Wakatsuki S, Nishijima M, Hanada K, Kato R
Proc Natl Acad Sci U S A. 2008 Jan 15;105(2):488-93.
Structural Analysis of the Human Galectin-9 N-terminal Carbohydrate Recognition Domain Reveals Unexpected Properties that Differ from the Mouse Orthologue
Nagae M, Nishi N, Nakamura-Tsuruta S, Hirabayashi J, Wakatsuki S, Kato R
J Mol Biol. 2008 Jan 4;375(1):119-35.
Biophysical methods: structure, function and dynamics studies of macromolecular assemblies using electrons, lasers, neutrons and X-rays.
Hasnain SS, Wakatsuki S
Curr Opin Struct Biol. 2008 Oct;18(5):577-80.
Structural Analysis on the Catalytic Reaction Mechanism of AfcA Fucosidase from Bifidobacterium Bifidum
Masamichi NAGAE, Atsuko TSUCHIYA, Takane KATAYAMA, Kenji YAMAMOTO, Soichi WAKATSUKI and Ryuichi KATO
J. Cryst. Soc. Jpn., 50(2), 138-143 (2008)
 
l 2007 _______________________________________________________________
Design and Construction of the High-speed Network Connecting All the Protein Crystallography Beam Lines at the Photon Factory
Matsugaki N, Yamada Y, Igarashi N and Wakatsuki S
AIP Conf. Proc., 879, 1936-1939 (2007)
Automated Sample Exchange Robots for the Structural Biology Beam Lines at the Photon Factory
Hiraki M, Watanabe S, Yamada Y, Matsugaki N, Igarashi N, Gaponov Y and Wakatsuki S
AIP Conf. Proc., 879, 1924-1927 (2007)
Development of Control Applications for High-Throughput Protein Crystallography Experiments
Gaponov Y. A, Matsugaki N, Honda N, Sasajima K, Igarashi N, Hiraki M, Yamada Y and Wakatsuki S
AIP Conf. Proc., 879, 1932-1935 (2007)
BL-17A, A New Protein Micro-Crystallography Beam Line of the Photon Factory
Igarashi N, Matsugaki N, Yamada Y, Hiraki M, Koyama A, Hirano K, Miyoshi T and Wakatsuki S
AIP Conf. Proc., 879, 812-815 (2007)
Design of Disulfide-linked Thioredoxin Dimers and Multimers Through Analysis of Crystal Contacts
Das M, Kobayashi M, Yamada Y, Sreeramulu S, Ramakrishnan C, Wakatsuki S, Kato R, Varadarajan R
J Mol Biol. 2007 Oct 5;372(5):1278-92.
Structural Basis for Recognition of High Mannose Type Glycoproteins by Mammalian Transport Lectin VIP36
Satoh T, Cowieson NP, Hakamata W, Ideo H, Fukushima K, Kurihara M, Kato R, Yamashita K, Wakatsuki S
J Biol Chem. 2007 Sep 21;282(38):28246-28255.
Structure of the small GTPase Rab27b shows an unexpected swapped dimer
Chavas LM, Torii S, Kamikubo H, Kawasaki M, Ihara K, Kato R, Kataoka M, Izumi T, Wakatsuki S
Acta Crystallogr D Biol Crystallogr. 2007 Jul;63(Pt 7):769-79.
Molecular Basis for Autoregulatory Interaction Between GAE Domain and Hinge Region of GGA1
Inoue M, Shiba T, Ihara K, Yamada Y, Hirano S, Kamikubo H, Kataoka M, Kawasaki M, Kato R, Nakayama K, Wakatsuki S
Traffic. 2007 Jul;8(7):904-13.
Structural basis on the catalytic reaction mechanism of novel 1,2-alpha-L-fucosidase (AFCA) from Bifidobacterium bifidum
Nagae M, Tsuchiya A, Katayama T, Yamamoto K, Wakatsuki S, Kato R
J Biol Chem. 2007 Jun 22;282(25):18497-509.
X-ray phase imaging of biological soft tissue using a direct-sensing x-ray HARP tube camera
Hirano K, Miyoshi T, Igarashi N, Takeda T, Wu J, Lwin TT, Kubota M, Egami N, Tanioka K, Kawai T, Wakatsuki S
Phys Med Biol. 2007 May 7;52(9):2545-52.
Automation in Structural Biology Beamlines of the Photon Factory
Noriyuki IGARASHI1, Masahiko HIRAKI, Naohiro MATSUGAKI, Yusuke YAMADA and Soichi WAKATSUKI
J. Cryst. Soc. Jpn., 49(6), 359-363 (2007)
Studies for Recognition Mechanism of Small GTPase Rab11 by FIP3
Tomoo SHIBA, Hiroshi KOGA, Hye-Won SHIN, Masato KAWASAKI, Ryuichi KATO, Kazuhisa NAKAYAMA and Soichi WAKATSUKI
J. Cryst. Soc. Jpn., 49(4), 231-237 (2007)
 
l 2006 _______________________________________________________________
Structural basis of ubiquitin recognition by mammalian Eap45 GLUE domain
Hirano S, Suzuki N, Slagsvold T, Kawasaki M, Trambaiolo D, Kato R, Stenmark H, Wakatsuki S
Nat Struc Mol Biol. 2006 Nov;13(11):1031-2.
Monoubiquitylation of GGA3 by hVPS18 regulates its ubiquitin-binding ability
Yogosawa S, Kawasaki M, Wakatsuki S, Kominami E, Shiba Y, Nakayama K, Kohsaka S, Akazawa C.
Biochem Biophys Res Commun. 2006 Nov 10;350(1):82-90.
Crystal structure of the galectin-9 N-terminal carbohydrate recognition domain from Mus musculus reveals the basic mechanism of carbohydrate recognition
Nagae M, Nishi N, Murata T, Usui T, Nakamura T, Wakatsuki S, Kato R
J Biol Chem. 2006 Nov 24;281(47):35884-93.
Crystal structure of GlcAT-S, a human glucuronyltransferase, involved in the biosynthesis of the HNK-1 carbohydrate epitope
Shiba T, Kakuda S, Ishiguro M, Morita I, Oka S, Kawasaki T, Wakatsuki S, Kato R
Proteins. 2006 Nov 1;65(2):499-508.
Structural basis for Rab11-dependent membrane recruitment of a family of Rab11-interacting protein 3 (FIP3)/Arfophilin-1
Shiba T, Koga H, Shin HW, Kawasaki M, Kato R, Nakayama K, Wakatsuki S
Proc Natl Acad Sci USA. 2006 Oct. 17;103(42):15416-21.
Development of an automated large-scale protein-crystallization and monitoring system for high-throughput protein-structure analyses
Hiraki M, Kato R, Nagai M, Satoh T, Hirano S, Ihara K, Kudo N, Nagae M, Kobayashi M, Inoue M, Uejima T, Oda S, Chavas LM, Akutsu M, Yamada Y, Kawasaki M, Matsugaki N, Igarashi N, Suzuki M, Wakatsuki S
Acta Crystallogr D Biol Crystallogr. 2006 Sep;62(Pt 9):1058-65.
Structural Basis of Carbohydrate Transfer Activity by Human UDP-GalNAc: Polypeptide alpha-N-Acetylgalactosaminyltransferase (pp-GalNAc-T10)
Kubota T, Shiba T, Sugioka S, Furukawa S, Sawaki H, Kato R, Wakatsuki S, Narimatsu H
J Mol Biol. 2006 Jun 9;359(3):708-27.
Structures of carbohydrate recognition domain of Ca2+ -independent cargo receptors Emp46p and Emp47p
Satoh T, Sato K, Kanoh A, Yamashita K, Yamada Y, Igarashi N, Kato R, Nakano A, Wakatsuki S
J Biol Chem. 2006 Apr 14;281(15):10410-9.
Double-sided ubiquitin binding of Hrs-UIM in endosomal protein sorting
Hirano S, Kawasaki M, Ura H, Kato R, Raiborg C, Stenmark H, Wakatsuki S
Nat Struct Mol Biol. 2006 Mar;13(3):272-7.
 
l 2005 _______________________________________________________________

Structural basis for transcription inhibition by tagetitoxin
Vassylyev DG, Svetlov V, Vassylyeva MN, Perederina A, Igarashi N, Matsugaki N, Wakatsuki S, Artsimovitch I
Nat Struct Mol Biol. 2005 Dec;12(12):1086-93.

Structural basis for recognition of ubiquitinated cargo by Tom1-GAT domain
Akutsu M, Kawasaki M, Katoh Y, Shiba T, Yamaguchi Y, Kato R, Kato K, Nakayama K, Wakatsuki S
FEBS Lett. 2005 Oct 10;579(24):5385-91.
Structural basis of transcription inhibition by antibiotic streptolydigin
Temiakov D, Zenkin N, Vassylyeva MN, Perederina A, Tahirov TH, Kashkina E, Savkina M, Zorov S, Nikiforov V, Igarashi N, Matsugaki N, Wakatsuki S, Severinov K, Vassylyev DG
Mol Cell. 2005 Sep 2;19(5):655-66.
Allosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins
Artsimovitch I, Vassylyeva MN, Svetlov D, Svetlov V, Perederina A, Igarashi N, Matsugaki N, Wakatsuki S, Tahirov TH, Vassylyev DG
Cell. 2005 Aug 12;122(3):351-63.
Structure of the ectodomain of Drosophila peptidoglycan-recognition protein LCa suggests a molecular mechanism for pattern recognition
Chang CI, Ihara K, Chelliah Y, Mengin-Lecreulx D, Wakatsuki S, Deisenhofer J
Proc Natl Acad Sci U S A. 2005 Jul 19;102(29):10279-84.
Molecular mechanism of ubiquitin recognition by GGA3 GAT domain
Kawasaki M, Shiba T, Shiba Y, Yamaguchi Y, Matsugaki N, Igarashi N, Suzuki M, Kato R, Kato K, Nakayama K, Wakatsuki S
Genes Cells. 2005 Jul;10(7):639-54.
Structure determination of GGA-GAE and gamma1-ear in complex with peptides: crystallization of low-affinity complexes in membrane traffi.
Yamada Y, Inoue M, Shiba T, Kawasaki M, Kato R, Nakayama K, Wakatsuki S
Acta Crystallogr D Biol Crystallogr. 2005 Jun;61(Pt 6):731-6.
Eap45 in mammalian ESCRT-II binds ubiquitin via a phosphoinositide-interacting GLUE domain
Slagsvold T, Aasland R, Hirano S, Bache KG, Raiborg C, Trambaiolo D, Wakatsuki S, Stenmark H
J Biol Chem. 2005 May 20;280(20):19600-6.
Crystal structure of the human cytosolic sialidase Neu2. Evidence for the dynamic nature of substrate recognition
Chavas LM, Tringali C, Fusi P, Venerando B, Tettamanti G, Kato R, Monti E, Wakatsuki S
J Biol Chem. 2005 Jan 7;280(1):469-75.
Membrane recruitment of effector proteins by Arf and Rab GTPases
Kawasaki M, Nakayama K, Wakatsuki S.
Curr Opin Struct Biol. 2005 Dec;15(6):681-9.
Synchrotron X-ray Protein Crystallography in the Structural Proteomics Era
Soichi WAKATSUKI
J. Cryst. Soc. Jpn., 47(6), 380-389 (2005).
 
l 2004 _______________________________________________________________
Insights into the phosphoregulation of beta-secretase sorting signal by the VHS domain of GGA1
Shiba T, Kametaka S, Kawasaki M, Shibata M, Waguri S, Uchiyama Y, Wakatsuki S
Traffic. 2004 Jun;5(6):437-48.
Structural basis for acceptor substrate recognition of a human glucuronyltransferase, GlcAT-P, an enzyme critical in the biosynthesis of the carbohydrate epitope HNK-1
Kakuda S, Shiba T, Ishiguro M, Tagawa H, Oka S, Kajihara Y, Kawasaki T, Wakatsuki S, Kato R
J Biol Chem. 2004 May 21;279(21):22693-703.
GAT (GGA and Tom1) domain responsible for ubiquitin binding and ubiquitination
Shiba Y, Katoh Y, Shiba T, Yoshino K, Takatsu H, Kobayashi H, Shin HW, Wakatsuki S, Nakayama K
J Biol Chem. 2004 Feb 20;279(8):7105-11.
Secure UNIX socket-based controlling system for high-throughput protein crystallography experiments
Gaponov Y, Igarashi N, Hiraki M, Sasajima K, Matsugaki N, Suzuki M, Kosuge T, Wakatsuki S
J Synchrotron Radiat. 2004 Jan 1;11(Pt 1):17-20.
ゲノミクス・プロテオミクスの新展開 生物情報の解析と応用 「X線結晶構造解析 タンパク質結晶X線回折実験における自動化」
若槻壮市、平木雅彦、Yurii Gaponov、松垣直宏、五十嵐教之、鈴木守
第2編 618-622、NTS inc. 今中忠行京都大学大学院工学研究科教授監修、2004.4.5発刊。ISBN4-86043-049-2
ゲノミクス・プロテオミクスの新展開 生物情報の解析と応用 「X線結晶構造解析 タンパク質結晶構造解析ビームライン(Photon Factory)」
鈴木守、五十嵐教之、松垣直宏、若槻壮市
第2編 612-617、NTS inc. 今中忠行京都大学大学院工学研究科教授監修、2004.4.5発刊。ISBN4-86043-049-2
「タンパク質の成熟:糖鎖修飾と輸送」
若槻壮市
2004第18回「大学と科学」公開シンポジウム講演収録集 タンパク質のかたちから生命のなぞを解く。生物マシーナリー構造生物学の最前線, 51-65 (2004)
 
l 2003 _______________________________________________________________
Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport
Shiba T, Kawasaki M, Takatsu H, Nogi T, Matsugaki N, Igarashi N, Suzuki M, Kato R, Nakayama K, Wakatsuki S
Nat Struct Biol. 2003 May;10(5):386-93.
The structure and function of GGAs, the traffic controllers at the TGN sorting crossroads
Nakayama K, Wakatsuki S
Cell Struct Funct. 2003 Oct;28(5):431-42.
 
l 2002 _______________________________________________________________
Structural basis for the accessory protein recruitment by the gamma-adaptin ear domain
Nogi T, Shiba Y, Kawasaki M, Shiba T, Matsugaki N, Igarashi N, Suzuki M, Kato R, Takatsu H, Nakayama K, Wakatsuki S
Nat Struct Biol. 2002 Jul;9(7):527-31.
Structural basis for recognition of acidic-cluster dileucine sequence by GGA1
Shiba T, Takatsu H, Nogi T, Matsugaki N, Kawasaki M, Igarashi N, Suzuki M, Kato R, Earnest T, Nakayama K, Wakatsuki S
Nature. 2002 Feb 21;415(6874):937-41.

Last updated: 2015-10-22