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[76]

[77]

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RIKEN Beamlines

[79]

[80]

[81]

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[86]

"Single-Shot Spectrometry for X-Ray Free-Electron Lasers"
M. Yabashi, Jerome B. Hastings, Max S. Zolotorev, H. Mimura, H. Yumoto, S. Matsuyama, K.
Yamauchi, T. Ishikawa
Physical Review Letters, 97, (2006), 084802"Reconstruction of Complex-valued Electron Density with X-ray in-line Holograms"
H. Yamazaki, Y. Kohmura, T. Sakurai, T. Ishikawa
Journal of the Optical Society of America A, 23, (2006), 3171-3176[2007]"Hard X-ray and Soft X-ray Photoemission Study of Vanadium Oxides"
R. Eguchi, Y. Takata, M. Matsunami, K. Horiba, K. Yamamoto, M. Taguchi, A. Chainani, M. Yabashi,
D. Miwa, Y. Nishino, K. Tamasaku, T. Ishikawa, Y. Senba, H. Ohashi, Isao H. Inoue, S. Shin
Journal of Magnetism and Magnetic Materials, 310, (2007), e289-e291"Study of 4p Electronic States Related to Magnetic Phase Transition in Mn3MC (M=Zn and Ga) by
X-ray Magnetic Circular Dichroism"
N. Kawamura, H. Maruyama, M. Suzuki, T. Ishikawa
Journal of the Physical Society of Japan, 76, (2007), 074716"Evaluation of In-Vacuum Imaging Plate Detector for X-Ray Diffraction Microscopy"
Y. Nishino, Y. Takahashi, M. Yamamoto, T. Ishikawa
AIP Conference Proceedings, 879, (2007), 1376-1379"Erratum: Bulk Screening in Core-level Photoemission from Mott-hubbard and Chrge-transfer
Systems [Phys. Rev. B 71, 155102 (2005)]"
M. Taguchi, A. Chainani, N. Kamakura, K. Horiba, Y. Takata, M. Yabashi, K. Tamasaku, Y. Nishino,
D. Miwa, T. Ishikawa, S. Shin, E. Ikenaga, T. Yokoya, K. Kobayashi, T. Mochiku, K. Hirata, K. Motoya
Physical Review B, 76, (2007), 169901(E)"Approach for Three-dimensional Observation of Mesoscopic Precipitates in Alloys by Coherent X-ray
Diffraction Microscopy"
Y. Takahashi, Y. Nishino, T. Ishikawa, E. Matsubara
Applied Physics Letters, 90, (2007), 184105"Electronic Structures of Fe3-xMxO4 (M=Mn,Zn) Spinel Oxide Thin Films Investigated by X-ray
Photoemission Spectroscopy and X-ray Magnetic Circular Dichroism"
J. Takaobushi, M. Ishikawa, S. Ueda, E. Ikenaga, J. Kim, M. Kobata, Y. Takeda, Y. Saitoh, M.
Yabashi, Y. Nishino, D. Miwa, K. Tamasaku, T. Ishikawa, I. Satoh, H. Tanaka, K. Kobayashi, T. Kawai
Physical Review B, 76, (2007), 205108"Present Status of Pin-post Water-cooled Silicon Crystals for Monochromators of SPring-8 X-ray
Undulator Beamlines"
H. Yamazaki, Y. Shimizu, H. Kimura, S. Watanabe, H. Ono, T. Ishikawa
AIP Conference Proceedings, 879, (2007), 946-949[2008]"Nanoscale Imaging of Mineral Crystals inside Biological Composite Materials using X-ray Diffraction
Microscopy"
H. Jiang, B. Amirbekian, Y. Kohmura, Y. Nishino, Y. Takahashi, T. Ishikawa, C. Song, R. Damien, J.
Miao
Physical Review Letters, 100, (2008), 038103"Electric Structure of Semiconducting CeFe4P12: Strong Hybridization and Relevance ofSingle-Impurity Anderson Model"
M. Matsunami, K. Horiba, M. Taguchi, K. Yamamoto, A. Chainani, Y. Takata, Y. Senba, H. Ohashi, M.
Yabashi, K. Tamasaku, Y. Nishino, D. Miwa, T. Ishikawa, E. Ikenaga, K. Kobayashi, H. Sugawara, H.
Sato, H. Harima, S. Shin
Physical Review B, 77, (2008), 165126"Revisiting the Valence-Band and Core-Level Photoemission Spectra of NiO"
M. Taguchi, M. Matsunami, Y. Ishida, R. Eguchi, A. Chainani, Y. Takata, M. Yabashi, K. Tamasaku, Y.
Nishino, T. Ishikawa, Y. Senba, H. Ohashi, S. Shin
Physical Review Letters, 100, (2008), 206401

BL44B2
Refereed Journals[1]

BL44B2[1999]"Crystallization and Preliminary X-Ray Diffraction Analysis of a Recombinant Bacterial Heme
Oxygenase (Hmu O) from Corynebacterium diphtheriae"
Grace C. Chu, S. Park, Y. Shiro, T. Yoshida, M. Ikeda-Saito
Journal of Structural Biology, 126, (1999), 171-174

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[12]

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[14]

[15]

[16]

"Crystallization and Preliminary X-Ray Diffraction Studies of Hyperthermostable Glutamate
Dehydrogenase from Thermococcus profundus"
S. Higuchi, M. Nakasako, T. Kudo
Acta Crystallographica Section D, 55, (1999), 1917-1919"Dynamic Light-Scattering and Preliminary Crystallographic Studies of the Sensor Domain of the
Haem-Based Oxygen Sensor FixL from Rhizobium meliloti "H. Miyatake, M. Kanai, S. Adachi, H. Nakamura, K. Tamura, H. Tanida, T. Tsuchiya, T. Iizuka, Y.
ShiroActa Crystallographica Section D, 55, (1999), 1215-1218"Magnesium(II) and Zinc(II)-Protoporphyrin IX's Stabilize the Lowest Oxygen Affinity State of Human
Hemoglobin Even More Strongly than Deoxyheme"
G. Miyazaki, H. Morimoto, K. Yun, S. Park, A. Nakagawa, H. Minagawa, N. Shibayama
Journal of Molecular Biology, 292, (1999), 1121-1136[2000]"Structural Basis for Double-Sieve Discrimination of L-Valine from L-Isoleucine and L-Threonine byVal
the Complex of tRNA and Valyl-tRNA Synthetase"
S. Fukai, O. Nureki, S. Sekine, A. Shimada, J. Tao, Dmitry G. Vassylyev, S. Yokoyama
Cell, 103, (2000), 793-803"X-Ray Crystal Structure and Catalytic Properties of Thr252Ile Mutant of Cytochrome P450cam:
Roles of Thr252 and Water in the Active Center"
T. Hishiki, H. Shimada, S. Nagano, T. Egawa, Y. Kanamori, R. Makino, S. Park, S. Adachi, Y. Shiro,
Y. Ishimura
The Journal of Biochemistry, 128, (2000), 965-974"How a Protein Generates a Catalytic Radical from Coenzyme B12: X-Ray Structure of a
Diol-Dehydrataze-Adeninylpentylcobalamin Complex"
J. Masuda, N. Shibata, Y. Morimoto, T. Toraya, N. Yasuoka
Structure, 8, (2000), 775-788"Sensory Mechanism of Oxygen Sensor FixL from Rhizobium meliloti: Crystallographic, Mutagenesis
and Resonance Raman Spectroscopic Studies"
H. Miyatake, M. Mukai, S. Park, S. Adachi, K. Tamura, H. Nakamura, K. Nakamura, T. Tsuchiya, T.
Iizuka, Y. Shiro
Journal of Molecular Biology, 301, (2000), 415-431"Mutation Effects of a Conserved Threonine(Thr2243) of Cytochrome P450nor on Its Structure andFunction"
E. Obayashi, H. Shimizu, S. Park, H. Shoun, Y. Shiro
Journal of Inorganic Biochemistry, 82, (2000), 103-111"Crystallization and Preliminary X-Ray Diffraction Analysis of a Cytochrome P450(CYP119) from
Sulfolobus solfataricus"
S. Park, K. Yamane, S. Adachi, Y. Shiro, Kara E. Weiss, Stephen G. Sligar
Acta Crystallographica Section D, 56, (2000), 1173-1175"Crystallization and the Crystal Properties of the Oxygen-Evolving Photosystem II from Synechococcus
vulcanus"
J. Shen, N. Kamiya
Biochemistry, 39, (2000), 14739-14744"Proton Delivery in NO Reduction by Fungal Nitric-Oxide Reductase"
H. Shimizu, E. Obayashi, Y. Gomi, H. Arakawa, S. Park, H. Nakamura, S. Adachi, H. Shoun, Y. Shiro
The Journal of Biological Chemistry, 275-7, (2000), 4816-4826"Crystal Structures of Cytochrome P450nor and Its Mutants (Ser286→Val, Thr) in the Ferric Resting
State at Cryogenic Temperature: a Comparative Analysis with Monooxygenase Cytochrome P450s"
H. Shimizu, S. Park, D. Lee, H. Shoun, Y. Shiro
Journal of Inorganic Biochemistry, 81, (2000), 191-205"Crystallization and Preliminary X-Ray Diffraction Analysis of a Rat Biliverdin Reductase"
D. Sun, M. Sato, T. Yoshida, H. Shimizu, H. Miyatake, S. Adachi, Y. Shiro, A. Kikuchi
Acta Crystallographica Section D, 56, (2000), 1180-1182"Crystal Structures of the Ribonuclease MC1 from Bitter Gourd Seeds, Complexed with 2'-UMP or
3'-UMP, Reveal Structural Basis for Uridine Specificity"
A. Suzuki, M. Yao, I. Tanaka, T. Numata, S. Kikukawa, N. Yamasaki, M. Kimura
Biochemical and Biophysical Research Communications, 275, (2000), 572-576"Crystal Structure of the Calcium Pump of Sarcoplasmic Reticulum at 2.6 Å Resolution"
C. Toyoshima, M. Nakasako, H. Nomura, H. Ogawa
Nature, 405, (2000), 647-655

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[18]

[19]

[20]

RIKEN Beamlines

[21]

[22]

[23]

[24]

[25]

[26]

[27]

[28]

[29]

[30]

[31]

BL44B2"Structure of Cytochrome c6 from the Red Alga Porphyra Yezoensis at 1.57 Å Resolution"
S. Yamada, S. Park, Y. Koshizuka, K. Kadokura, T. Satoh, K. Suruga, M. Ogawa, Y. Isogai, H.
Shimizu, Y. Shiro, T. Oku
Acta Crystallographica Section D, 56, (2000), 1577-1582[2001]"The RIKEN Structural Biology Beamline II (BL44B2) at the SPring-8"
S. Adachi, T. Oguchi, H. Tanida, S. Park, H. Shimizu, H. Miyatake, N. Kamiya, Y. Shiro, Y. Inoue, T.
Ueki, T. Iizuka
Nuclear Instruments and Methods in Physics Research Section A, 467-468, (2001), 711-714"Crystallization and Preliminary X-Ray Analysis of (R)-Specific Enoyl-CoA Hydratase from
Aeromonas caviae Involved in Polyhydroxyalkanoate Biosynthesis"
T. Hisano, T. Fukui, T. Iwata, Y. Doi
Acta Crystallographica Section D, 57, (2001), 145-147"Crystallization and Preliminary X-Ray Analysis of the Archaeosine tRNA-Guanine Transglylase from
Pyrococcus horikoshii "R. Ishitani, O. Nureki, T. Kijimoto, M. Watanabe, H. Kondo, N. Nameki, N. Okada, S. Nishimura, S.
Yokoyama
Acta Crystallographica Section D, 57, (2001), 1659-1662"The Crystal Structure of the ttCsaA Protein: an Export-Related Chaperone from Thermus
thermophilus"
S. Kawaguchi, J. Muller, D. Linde, S. Kuramitsu, T. Shibata, Y. Inoue, Dmitry G. Vassylyev, S.
Yokoyama
The EMBO Journal, 20, (2001), 562-569"Crystal Structure of Rat Biliverdin Reductase"
A. Kikuchi, S. Park, H. Miyatake, D. Sun, M. Sato, T. Yoshida, Y. Shiro
Nature Structural Biology, 8, (2001), 221-225"Crystal Structure of Thermostable DNA Photolyase: Pyrimidine-Dimer Recognition Mechanism"
H. Komori, R. Masui, S. Kuramitsu, S. Yokoyama, T. Shibata, Y. Inoue, K. Miki
Proceedings of the National Academy of Sciences of the United States of America, 98, (2001),
13560-13565"Crystallization and Preliminary X-Ray Studies of a Thermostable DNA Photolyase from Thermus
thermophilus HB8"
H. Komori, H. Tsujiuchi, R. Masui, S. Kuramitsu, S. Yokoyama, T. Shibata, Y. Inoue, K. Miki
Protein and Peptide Letters, 8, (2001), 495-498"A Positively Charged Cluster Formed in the Heme-distal Pocket of Cytochrome P450nor Is Essential
for Interaction with NADH"
T. Kudo, N. Takaya, S. Park, Y. Shiro, H. Shoun
The Journal of Biological Chemistry, 276, (2001), 5020-5026"Crystal Structure of Human AUH Protein, a Single-Stranded RNA Binding Homolog of Enoyl-CoA
Hydratase"
K. Kurimoto, S. Fukai, O. Nureki, S. Yokoyama
Structure, 9, (2001), 1253-1263"Structural Characterization of n-Butyl-Isocyanide Complexes of Cytochromes P450nor and
P450cam"D. Lee, S. Park, K. Yamane, E. Obayashi, H. Hori, Y. Shiro
Biochemistry, 40, (2001), 2669-2677"Crystallization and Preliminary X-Ray Analysis of Aspartate Racemase from Pyrococcus horikoshii
OT3"
L. Liu, K. Iwata, Y. Kawarabayasi, H. Kikuchi, A. Kita, M. Yohda, K. Miki
Acta Crystallographica Section D, 57, (2001), 1674-1676"Large-Scale Domain Movements and Hydration Structure Changes in the Active-Site Cleft ofUnligated Glutamate Dehydrogenase from Thermococcus profundus Studied by Cryogenic X-Ray
Crystal Structure Analysis and Small-Angle X-Ray Scattering"
M. Nakasako, T. Fujisawa, S. Adachi, T. Kudo, S. Higuchi
Biochemistry, 40, (2001), 3069-3079"Large-Scale Networks of Hydration Water Molecules Around Proteins Investigated by Cryogenic
X-Ray Crystallography"
M. Nakasako
Cellular and Molecular Biology, 47, (2001), 767-790"Ribosomal Protein L5 has a Highly Twisted Concave Surface and Flexible Arms Responsible forrRNA Binding"
T. Nakashima, M. Yao, S. Kawamura, K. Iwasaki, M. Kimura, I. Tanaka
RNA, 7, (2001), 692-701

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[34]

[35]

[36]

[37]

[38]

[39]

[40]

[41]

[42]

[43]

[44]

[45]

[46]

"The Functional Similarity and Structural Diversity of Human and Cartilaginous Fish Hemoglobins"
Y. Naoi, K. Chong, K. Yoshimatsu, G. Miyazaki, Jeremy R. H. Tame, S. Park, S. Adachi, H. Morimoto
Journal of Molecular Biology, 307, (2001), 259-270"Crystallization and Preliminary X-Ray Study of Endopolygalacturonase from the Pathogenic Fungus
Stereum purpureum"
T. Shimizu, T. Nakatsu, K. Miyairi, T. Okuno, H. Kato
Acta Crystallographica Section D, 57, (2001), 1171-1173"Crystallization and Preliminary X-Ray Analysis of the C/EBPǪC-Terminal Region in Complex withDNA"
Tahir H. Tahirov, T. Inoue-Bungo, M. Sasaki, A. Fujikawa, K. Kimura, K. Sato, S. Adachi, N. Kamiya,
K. Ogata
Acta Crystallographica Section D, 57, (2001), 854-856"Crystal Structure of the CENP-B Protein-DNA Complex: the DNA-Binding Domains of CENP-B
Induce Kinks in the CENP-B Box DNA"Y. Tanaka, O. Nureki, H. Kurumizaka, S. Fukai, S. Kawaguchi, M. Ikuta, J. Iwahara, T. Okazaki, S.
Yokoyama
The EMBO Journal, 20, (2001), 6612-6618"Crystallization and Preliminary X-Ray Diffraction Analysis of the Light-Harvesting Protein
Phycocyanin from the Thermophilic Cyanobacterium Synechococcus Elongatus"
Y. Toriumi, S. Park, H. Hashimoto, H. Shimizu, M. Hirano, N. Kamiya
Acta Crystallographica Section D, 57, (2001), 1326-1328[2002]"Conformational Strictness Required for Maximum Activity and Stability of Bovine Pancreatic
Ribonuclease A as Revealed by Crystallographic Study of Three Phe120 Mutants at 1.4 Å Resolution"
E. Chatani, R. Hayashi, H. Moriyama, T. Ueki
Protein Science, 11, (2002), 72-81"Crystal Structure of Argininosuccinate Synthetase from Thermus thermophilus HB8"
M. Goto, Y. Nakajima, K. Hirotsu
The Journal of Biological Chemistry, 277, (2002), 15890-15896
2+"The Crystal Structure of Human MRP14 (S100A9), a Ca -Dependent Regulator Protein in
Inflammatory Process"H. Itou, M. Yao, I. Fujita, N. Watanabe, M. Suzuki, J. Nishihira, I. Tanaka
Journal of Molecular Biology, 316, (2002), 265-276"Crystal Structure of the Complex between Calyculin A and the Catalytic Subunit of Protein
Phosphatase 1"
A. Kita, S. Matsunaga, A. Takai, H. Kataiwa, T. Wakimoto, N. Fusetani, M. Isobe, K. Miki
Structure, 10, (2002), 715-724"Crystal Structure of the C-Terminal Half of Tropomodulin and Structural Basis of Actin Filament
Pointed-End Capping"
I. Krieger, A. Kosryukova, A. Yamashita, Y. Nitanai, Y. Maeda
Biophysical Journal, 83, (2002), 2716-2725"Crystallization and Preliminary X-Ray Diffraction Analysis of Fatty-Acid Hydroxylase Cytochrome
P450BSbeta from Bacillus subtilis"
D. Lee, A. Yamada, I. Matsunaga, K. Ichihara, S. Adachi, S. Park, Y. Shiro
Acta Crystallographica Section D, 58, (2002), 687-689"Ultrahigh-Resolution Structure of High-Potential Iron-Sulfur Protein from Thermochromatium
Tepidum"
L. Liu, T. Nogi, M. Kobayashi, T. Nozawa, K. Miki
Acta Crystallographica Section D, 58, (2002), 1085-1091"Structural Insight into Gene Duplication, Gene Fusion and Domain Swapping in the Evolution of
PLP-Independent Amino Acid Racemases"
L. Liu, K. Iwata, M. Youda, K. Miki
FEBS Letters, (2002), 114-118"Crystal Struture of Aspartate Racemase from Pyrococcus Horikoshii OT3 and Its Limplications for
Molecular Mechanism of PLP-Independent Racemization"
L. Liu, K. Iwata, A. Kita, Y. Kawarabayashi, M. Youda, K. Miki
Journal of Molecular Biology, 319, (2002), 479-489"Specific Damage Induced by X-Ray Radiation and Structural Changes in the Primary Photoreactionof Bacteriorhodopsin"
Y. Matsui, K. Sakai, M. Murakami, Y. Shiro, S. Adachi, H. Okumura, T. Kouyama
Journal of Molecular Biology, 324, (2002), 469-481

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[48]

[49]

[50]

RIKEN Beamlines

[51]

[52]

[53]

[54]

[55]

[56]

[57]

[58]

[59]

[60]

[61]

BL44B2"Crystallization of Scytalone Dehydratase F162A Mutant in the Unligated State and a Preliminary
X-Ray Diffraction Study at 37 K"
T. Motoyama, M. Nakasako, I. Yamaguchi
Acta Crystallographica Section D, 58, (2002), 148-150"An Enzyme with a Deep Trefoil Knot for the Active-Site Architecture"
O. Nureki, M. Shirouzu, K. Hashimoto, R. Ishitani, T. Terada, M. Tamakoshi, T. Oshima, M.
Chijimatsu, K. Takio, Dmitry G. Vassylyev, T. Shibata, Y. Inoue, S. Kuramitsu, S. Yokoyama
Acta Crystallographica Section D, 58, (2002), 1129-1137"Structural Studies of the Carbon Monoxide Complex of [NiFe]Hydrogenase from Desulfovibrio
Vulgaris Miyazaki F:Suggestion for the Initial Activation Site for Dehydrogen"
H. Ogata, Y. Mizoguchi, N. Mizuno, K. Miki, S. Adachi, N. Yasuoka, T. Yagi, O. Yamaushi, S. Hirota,
Y. Higuchi
Journal of the American Chemical Society, 124, (2002), 11628-11635"Structure of the Carboxyl-Terminal Src Kinase, Csk"
A. Ogawa, Y. Takayama, H. Sakai, K. Chong, S. Takeuchi, A. Nakagawa, S. Nada, M. Okada, T.
Tsukihara
The Journal of Biological Chemistry, 277, (2002), 14351-14354"Thermophilic Cytochrome P450 (CYP119) from Sulfolobus solfataricus: High Resolution Structure
Functional Properties"
S. Park, K. Yamane, S. Adachi, Y. Shiro, Kara E. Weiss, Shelley A. Maves, Stephen G. Sligar
Journal of Inorganic Biochemistry, 91, (2002), 491-501"Optical Monitoring of Freeze-Trapped Reaction Intermediates in Protein Crystals: A
Microspectrophotometer for Cryogenic Protein Crystallography"
K. Sakai, Y. Matsui, T. Kouyama, Y. Shiro, S. Adachi
Journal of Applied Crystallography, 35, (2002), 270-273"Active-Site Architecture of Endopolygalacturonase I from Stereum Purpureum Revealed by Crystal
Structures in Native and Ligand-Bound Forms at Atomic Resolution"
T. Shimizu, T. Nakatsu, K. Miyairi, T. Okuno, H. Kato
Biochemistry, 41, (2002), 6651-6659"X-Ray Structure of Nitric Oxide Reductase (Cytochrome P450nor) at Atomic Resolution"
H. Shimizu, S. Park, Y. Shiro, S. Adachi
Acta Crystallographica Section D, 58, (2002), 81-89"Overproduction, Crystallization and Preliminary X-ray Diffraction Analysis of a Quinone
Oxidoreductase from Thermus thermophilus HB8"
Y. Shimomura, K. Agari, R. Masui, S. Kuramitsu, K. Fukuyama
Acta Crystallographica Section D, 58, (2002), 1365-1367"Purification, Crystallization and Initial Crystallographic Analysis of RNA Polymerase Holoenzyme
from Thermus thermophilus"
Marina N. Vassylyeva, J. Lee, S. Sekine, O. Laptenko, S. Kuramatsu, T. Shibata, Y. Inoue, Dmitry G.
Vassylyev, S. Yokoyama
Acta Crystallographica Section D, 58, (2002), 1497-1500[2003]"Direct Observation of Photolysis-Induced Tertiary Structural Changes in Hemoglobin"
S. Adachi, S. Park, Jeremy R. H. Tame, Y. Shiro, N. Shibayama
Proceedings of the National Academy of Sciences of the United States of America, 100, (2003),
7039-7044"Expression, Purification and Preliminary X-Ray Characterization of N-Acetyl-ǫ-Glutamyl-Phosphate
Reductase from Thermus Thermophilus HB8"
M. Goto, Y. Agari, R. Omi, I. Miyahara, K. Hirotsu
Acta Crystallographica Section D, 59, (2003), 356-358"Expression, Purification and Preliminary X-Ray Characterization of CTP Synthetase from Thermus
Thermophilus HB8"
M. Goto, R. Omi, J. Hoseki, N. Nakagawa, I. Miyahara, K. Hirotsu
Acta Crystallographica Section D, 59, (2003), 551-553"Crystal Structure of the Conserved Protein TT1542 from Thermus thermophilus HB8"
N. Handa, T. Terada, Y. Kamewari, H. Hamana, J. Tame, S. Park, K. Kinoshita, M. Ota, H. Nakamura,
S. Kuramitsu, M. Shirouzu, S. Yokoyama
Protein Science, 12, (2003), 1621-1632"Crystal Structure of the (R)-Specific Enoyl-CoA Hydratase from Aeromonas Caviae Involved in
Polyhydroxyalkanoate Biosynthesis"
T. Hisano, T. Tsuge, T. Fukui, T. Iwata, K. Miki, Y. Doi
The Journal of Biological Chemistry, 278, (2003), 617-624

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[76]

"Minimization of Cavity Size Ensures Protein Stability and Folding: Structures of Phe46-Replaced
Bovine Pancreatic RNase A"
T. Kadonosono, E. Chatani, R. Hayashi, H. Moriyama, T. Ueki
Biochemistry, 42, (2003), 10651-10658"Crystallization and Preliminary X-Ray Diffraction Analysis of Ribosomal Protein L11
Methyltransferase from Thermus thermophilus HB8"
T. Kaminishi, H. Sakai, C. Takemoto-Hori, T. Terada, N. Nakagawa, N. Maoka, S. Kutimatsu, S.
Yokoyama
Acta Crystallographica Section D, 59, (2003), 930-932"Crystal Structure of the 2'-5' RNA Ligase from Thermus thermophilus HB8"
M. Kato, M. Shirouzu, T. Terada, H. Yamaguchi, K. Murayama, H. Sakai, S. Kuramitsu, S. Yokoyama
Journal of Molecular Biology, 329, (2003), 933-911"Crystallization and Preliminary X-ray Analysis of the Small Component of 4-Hydroxyphenyl-acetate
3-monooxygenase (HpaC) and Its Cofactor Complex from Thermus thermophilus HB8"
S. Kim, H. Miyatake, T. Hisano, N. Ohtani, K. Miki
Acta Crystallographica Section D, 59, (2003), 2275-2278"Structure and Catalytic Mechanism of 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate (MECDP)
Synthase, an Enzyme in the Non-Mevalonate Pathway of Isoprenoid Synthesis"
H. Kishida, T. Wada, S. Unzai, T. Kazuyama, M. Takagi, S. Yokoyama, Jeremy R. H. Tame, S. Park
Acta Crystallographica Section D, 59, (2003), 23-31"Substrate Recognition and Molecular Mechanism of Fatty Acid Hydroxylation by Cytochrome P450
from Bacillus Subtilis"
D. Lee, A. Yamada, H. Sugimoto, I. Matsunaga, H. Ogura, K. Ichihara, S. Adachi, S. Park, Y. Shiro
The Journal of Biological Chemistry, 278, (2003), 9761-9767"Crystal Structure of Dissimilatory Sulfite Reductase D(DsrD) Protein ― Possible Interaction with Band Z-DNA by Its Winged-Helix Motif "N. Mizuno, G. Voordouw, K. Miki, A. Sarai, Y. Higuchi
Structure, 11, (2003), 1133-1140"Infrared Spectroscopic and Mutational Studies on Putidaredoxin-Induced Conformational Changes in
Ferrous CO-P450cam"
S. Nagano, H. Shimada, A. Tarumi, T. Hishiki, Y. Kimata-Ariga, T. Egawa, M. Suematsu, S. Park, S.
Adachi, Y. Shiro, Y. Ishimura
Biochemistry, 42, (2003), 14507-14514"Structure of Thermus thermophilus HB8 H-protein of the Glycine-Cleavage System, Resolved by a
Six-Dimensional Molecular-Replacement Method"
T. Nakai, J. Ishijima, R. Masui, S. Kuramitsu, N. Kamiya
Acta Crystallographica Section D, 59, (2003), 1610-1618"Crystal Structure of Calcium-free ǩ-Amylase from Bacillus sp. Strain KSM-K38 (AmyK38) and Its
Sodium Ion Binding Sites"
T. Nonaka, M. Fujihashi, A. Kita, H. Hagihara, K. Ozaki, S. Ito, K. Miki
The Journal of Biological Chemistry, 278, (2003), 24818-24824"Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP:
Structual Basis for Alterations in Substrate Specificity"
T. Numata, A. Suzuki, Y. Kakuta, K. Kimura, M. Yao, I. Tanaka, Y. Yoshida, T. Ueda, M. Kimura
Biochemistry, 42, (2003), 5270-5278"Crystal Structures of Threonine Synthase from Thermus thermophilus HB8: Conformational Change,
Substrate Recognition, and Mechanism"
R. Omi, M. Goto, I. Miyahara, H. Mizuguchi, H. Hayashi, H. Kagamiyama, K. Hirotsu
The Journal of Biological Chemistry, 278, (2003), 46035-46045"Structure of the Catalytic Domain of Human Phosphodiesterase 5 with Bound Drug Molecules"
S. Park, B. Sung, K. Hwang, Y. Jeon, J. Lee, Y. Heo, J. Kim, J. Moon, J. Yoon, Y. Hyun, E. Kim, S.
Eum, J. Lee, H. Lee, S. Ro, J. Cho
Nature, 425, (2003), 98-102"Crystal Structure of a Lysine Biosynthesis Enzyme, LysX, from Thermus thermophilus HB8"
H. Sakai, M. Vassylyeva, T. Matsuura, S. Sekine, K. Gotoh, M. Nishiyama, T. Terada, M. Shirouzu, S.
Kuramitsu, D. Vassylyev, S. Yokoyama
Journal of Molecular Biology, 332, (2003), 729-740"Crystal Structure of a Hypothetical Protein, TT1725, From Thermus thermophilus HB8 at 1.7 Å
Resolution"
A. Seto, M. Shirouzu, T. Terada, K. Murayama, S. Kuramitsu, S. Yokoyama
Proteins: Structure, Function, and Genetics, 53, (2003), 768-771

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BL44B2"Crystallization and Preliminary Crystallographic Study of the Outer-Membrane Lipoprotein Receptor
LolB, a Member of the Lipoprotein Localization Factors"
K. Takeda, H. Miyatake, N. Yokota, S. Matsuyama, H. Tokuda, K. Miki
Acta Crystallographica Section D, 59, (2003), 1224-1226"Crystal Structures of Bacterial Lipoprotein Localization Factors, LolA and LolB"
K. Takeda, H. Miyatake, N. Yokota, S. Matsuyama, H. Tokuda, K. Miki
The EMBO Journal, 22, (2003), 3199-3209"A Practical Phasing Procedure using the MAD Method without the Aid of XAFS Measurements:
Successful Solution in the Structure Determination of the Outer-Membrane Lipoprotein Carrier LolA"
K. Takeda, H. Miyatake, N. Yokota, S. Matsuyama, H. Tokuda, K. Miki
Acta Crystallographica Section D, 59, (2003), 1440-1446
2+"Structure of the Core Domain of Human Cardiac Troponin in the Ca -Saturated Form"
S. Takeda, A. Yamashita, K. Maeda, Y. Maeda
Nature, 424, (2003), 35-41"Crystal Structure of the Human Centromere Protein B (CENP-B) Dimerization Domain at 1.65-Å
Resolution"
M. Tawaramoto, S. Park, Y. Tanaka, O. Nureki, H. Kurumizaka, S. Yokoyama
The Journal of Biological Chemistry, 278, (2003), 51454-51461"Structure of a Conserved CoA-Binding Protein Synthesized by a Cell-Free System"
T. Wada, M. Shirouzu, T. Terada, Y. Ishizuka, T. Matsuda, T. Kigawa, S. Kuramitsu, S. Park, Jeremy
R. H. Tame, S. Yokoyama
Acta Crystallographica Section D, 59, (2003), 1213-1218"Crystal Structure of 4-(Cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase, an Enzyme in the
Non-mevalonate Pathway of Isoprenoid Synthesis"
T. Wada, T. Kuzuyama, S. Satoh, S. Kuramitsu, S. Yokoyama, S. Unzai, J. Tame, S. ParkThe Journal of Biological Chemistry, 278, (2003), 30022-30027"Crystal Structure of CapZ: Structural Basis for Actin Filament Barbed End Capping"
A. Yamashita, K. Maeda, Y. Maeda
The EMBO Journal, 22, (2003), 1529-1538"Overproduction, Crystallization and Preliminary Diffraction Data of ADP-ribose Pyrophosphatasefrom Thermus thermophilus HB8"
S. Yoshiba, N. Nakagawa, R. Masui, T. Shibata, Y. Inoue, S. Yokoyama, S. Kuramitsu
Acta Crystallographica Section D, 59, (2003), 1840-1842[2004]"Crystal Structure of the PsbP Protein of Photosystem II from Nicotiana tabacum"
K. Ifuku, T. Nakatsu, H. Kato, F. Sato
EMBO Reports, 5, (2004), 362-367"Crystallization and Preliminary X-ray Diffraction Analysis of Homing Endonuclease I-Tsp061I"
T. Imagawa, H. Nakayama, N. Katunuma, H. Sakuraba, T. Ohshima, T. Itoh, Y. Sako, N. Nomura, H.
Tsuge
Acta Crystallographica Section D, 60, (2004), 2006-2008"Crystallization and Preliminary Crystallographic Analysis of 2-keto-3-deoxygluconate Kinase from
Thermus thermophilus"
E. Inagaki, Y. Ukita, M. Kumei, Y. Kajihara, T. Tahirov
Acta Crystallographica Section D, 60, (2004), 761-763"Crystallization and Preliminary X-ray Crystallographic Studies on the Small Form of
Glucose-Inhibited Division Protein A from Thermus thermophilus HB8"
W. Iwasaki, H. Miyatake, A. Ebihara, K. Miki
Acta Crystallographica Section D, 60, (2004), 515-517"Structural Basis for Octameric Ring Formation and DNA Interaction of the Human
Homologous-Pairing Protein Dmc1"
T. Kinebuchi, W. Kagawa, R. Enomoto, K. Tanaka, K. Miyagawa, T. Shibata, H. Kurumizaka, S.
Yokoyama
Molecular Cell, 14, (2004), 363-374"Crystal Structure of a Conserved Hypothetical Protein TT1751 From Thermus thermophilus HB8"
S. Kishishita, A. Tatsuguchi, R. Ushikoshi-Nakayama, T. Terada, S. Kuramitsu, S. Park, J. Tame, M.
Shirouzu, S. Yokoyama
Proteins: Structure, Function, and Bioinformatics, 57, (2004), 883-887"DNA Apophotolyase from Anacystis nidulans: 1.8 Å Structure, 8-HDF Reconstitution and X-ray
Induced FAD-Reduction"
R. Kort, H. Komori, S. Adachi, K. Miki, Andre P. M. Eker
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M. Kukimoto-Niino, K. Murayama, M. Inoue, T. Terada, Jeremy R. H. Tame, S. Kuramitsu, M.
Shirouzu, S. Yokoyama
Journal of Molecular Biology, 337, (2004), 761-770"Chemical Rescue of a Site-Specific Mutant of Bacterial Copper Amine Oxidase for Generation of theTopa Quinone Cofactor"
H. Matsunami, T. Okajima, S. Hirota, H. Yamaguchi, H. Hori, S. Kuroda, M. Mure, K. Tanizawa
Biochemistry, 43, (2004), 2178-2187"Ligand-induced Conformational Changes and a Reaction Intermediate in Branched-chain 2-Oxo Acid
Dehydrogenase (E1) from Thermus thermophilus HB8, as Revealed by X-ray Crystallography"
T. Nakai, N. Nakagawa, N. Maoka, R. Masui, S. Kuramitsu, N. Kamiya
Journal of Molecular Biology, 337, (2004), 1011-1033"The N-Terminal Domain of the Replication Initiator Protein RepE is a Dimerization Domain Forming a
Stable Dimer"
A. Nakamiura, H. Komori, G. Kobayashi, A. Kita, C. Wada, K. Miki
Biochemical and Biophysical Research Communications, 315, (2004), 10-15"The Crystal Structure of an Oxidatively Stable Subtilisin-Like Alkaline Serine Protease, KP-43, with a
C-TerminalǪ-Barrel Domain"
T. Nonaka, M. Fujihashi, A. Kita, K. Saeki, S. Ito, H. Horikoshi, K. Miki
The Journal of Biological Chemistry, 279, (2004), 47344-47351"Structure of Thermus thermophilus 2-Keto-3-deoxygluconate Kinase: Evidence for Recognition of anOpen Chain Substrate"
N. Ohshima, E. Inagaki, K. Yasuike, K. Takio, T. Tahirov
Journal of Molecular Biology, 340, (2004), 477-489"Expression, Purification and Preliminary X-ray Characterization of Histidinol Phosphate
Phosphatase"
R. Omi, M. Goto, N. Nakagawa, I. Miyahara, K. Hirotsu
Acta Crystallographica Section D, 60, (2004), 574-576"Crystal Structure of Human Pirin: An Iron-Bonding Nuclear Protein and Transcription Cofactor"
H. Pang, M. Bartlam, Q. Zeng, H. Miyatake, T. Hisano, K. Miki, L. Wong, George F. Gao, Z. Rao
The Journal of Biological Chemistry, 279, (2004), 1491-1498"Crystallization and Preliminary X-ray Analysis of the Helicase Domains of Vasa Complexed with RNA
and an ATP Analogue"
T. Sengoku, O. Nureki, N. Dohmae, A. Nakamura, S. Yokoyama
Acta Crystallographica Section D, 60, (2004), 320-322"Crystal Structures of the Group II Chaperonin from Thermococcus strain KS-1: Steric Hindrance by the
Substituted Amino Acid, and Inter-subunit Rearrangement between Two Crystal Forms"
Y. Shomura, T. Yoshida, R. Iizuka, T. Maruyama, M. Yohda, K. Miki
Journal of Molecular Biology, 335, (2004), 1265-1278"Structural Basis of Human Cytoglobin for Ligand Binding"
H. Sugimoto, M. Makino, H. Sawai, N. Kawada, K. Yoshizato, Y. Shiro
Journal of Molecular Biology, 339, (2004), 873-885"Crystal Structure of a Novel Zinc-Binding ATP Sulfurylase from Thermus thermophilus HB8"
Y. Taguchi, M. Sugishima, K. Fukuyama
Biochemistry, 43, (2004), 4111-4118"Crystal Structure of the Conserved Hypothetical Protein TT1380 from Thermus Thermophilus HB8"
T. Wada, M. Shirouzu, T. Terada, Y. Kamewari, S. Park, J. Tame, S. Kuramitsu, S. Yokoyama
Proteins: Structure, Function, and Bioinformatics, 55, (2004), 778-780"Crystal Structure of Ribosomal Protein L27 from Thermus thermophilus HB8"
H. Wang, C. Takemoto, K. Murayama, H. Sakai, A. Tatsuguchi, T. Terada, M. Shirouzu, S. Kuramitsu,
S. Yokoyama
Protein Science, 13, (2004), 2806-2810"Structural Insights into the Thermus thermophilus ADP-ribose Pyrophosphatase Mechanism via
Crystal Structures with the Bound Substrate and Metal"
S. Yoshiba, T. Ooga, N. Nakagawa, T. Shibata, Y. Inoue, S. Yokoyama, S. Kuramitsu, R. Masui
The Journal of Biological Chemistry, 279, (2004), 37163-37174[2005]"Structural Determinants for Branched-Chain Aminotransferase Isozyme Specific Inhibition by the
Anticonvulsant Drug Gabapentin"
M. Goto, K. Hirotsu, I. Miyahara, M. Conway, N. Yennawar, Mohammad M. Islam, Susan M. Huston
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BL44B2"Crystal Structure of a Novel Polyisoprenoid-Binding Protein from Thermus Thermophilus HB8"
N. Handa, T. Terada, Y. Doi-Katayama, H. Hirota, Jeremy R. H. Tame, S. Park, S. Kuramitsu, M.
Shirouzu, S. Yokoyama
Protein Science, 14, (2005), 1004-1010"Crystal Structure of the Small Form of Glucose-Inhibited Division Protein A from Thermus thermophilus
HB8"
W. Iwasaki, H. Miyatake, K. Miki
Proteins: Structure, Function, and Bioinformatics, 61, (2005), 1121-1126"A Novel Induced-fit Reaction Mechanism of Asymmetric Hot Dog Thioesterase Paal"
N. Kunishima, Y. Asada, M. Sugahara, J. Ishijima, Y. Nodake, M. Sugahara, M. Miyano, S. Kuramitsu,
S. Yokoyama, M. Sugahara
Journal of Molecular Biology, 352, (2005), 212-228"Crystal Structure of the N-terminal RecA-like Domain of a DEAD-box RNA Helicase, the Dugesia
japonica vasa-like Gene B Protein"
K. Kurimoto, Y. Muto, N. Obayashi, T. Terada, M. Shirouzu, T. Yabuki, M. Aoki, E. Seki, T. Matsuda,
T. Kigawa, H. Okumura, A. Tanaka, N. Shibata, M. Kashikawa, K. Agata, S. Yokoyama
Journal of Structural Biology, 150, (2005), 58-68"Improved Expression, Purification, and Crystallization of a Putative N-acetyl-ǫ-glutamyl-phosphate
Reductase from Rice (Oryza sativa)"
J. Miura-Ohnuma, T. Nonaka, S. Katoh, K. Murata, A. Kita, K. Miki, E. Katoh
Acta Crystallographica Section F, 61, (2005), 1058-1061"Crystal Structure of TT1662 From Thermus thermophilus HB8: A Member of the ǩ/ǪHydrolase Fold
Enzymes"K. Murayama, M. Shirouzu, T. Terada, S. Kuramitsu, S. Yokoyama
Proteins: Structure, Function, and Bioinformatics, 58, (2005), 982-984"Structure of P-protein of the Glycine Cleavage System: Implications for Nonketotic Hyperglycinemia"
T. Nakai, N. Nakagawa, N. Maoka, R. Masui, S. Kuramitsu, N. Kamiya
The EMBO Journal, 24, (2005), 1523-1536"Crystal Structure of Pyruvate Phosphate Dikinnase from Maize Revealed an Alternative
Conformation in the Swiveling-Domain Motion"
T. Nakanishi, T. Nakatsu, M. Matsuoka, K. Sakata, H. Kato
Biochemistry, 44, (2005), 1136-1144"Recent Progress of Structural Biology of tRNA Processing and Modification"
K. Nakanishi, O. Nureki
Molecular Cell, 19, (2005), 157-166"Conformational Changes in the ǩ-Subunit Coupled to Binding of theǪ2-Subunit of Tryptophan
Synthase from Escherichia coli: Crystal Structure of the Tryptophan Synthase ǩ-Subunit Alone"
K. Nishio, Y. Morimoto, M. Ishizuka, K. Ogasahara, T. Tsukihara, K. Yutani
Biochemistry, 44, (2005), 1184-1192"Crystal Structure of Putative N-Acetyl-ǫ-Glutamyl-Phosphate Reductase (AK071544) from Rice(Oryza sativa)"
T. Nonaka, A. Kita, J. Miura-Ohnuma, E. Katoh, N. Inagaki, T. Yamazaki, K. Miki
Proteins: Structure, Function, and Bioinformatics, 61, (2005), 1137-1140"Crystal Structures of the Signal Transducing Protein GlnK from Thermus thermophilus HB8"
H. Sakai, H. Wang, C. Takemoto-Hori, T. Kaminishi, H. Yamaguchi, Y. Kamewari, T. Terada, S.
Kuramitsu, M. Shirouzu, S. Yokoyama
Journal of Structural Biology, 149, (2005), 99-110"Crystallization and Preliminary Crystallographic Analysis of Bacterial Fructosyl Amino Acid Oxidase"
R. Sakaue, T. Nakatsu, Y. Yamaguchi, H. Kato, N. Kajiyama
Acta Crystallographica Section F, 61, (2005), 196-198"ATP-Induced Structural Change of Dephosphocoenzyme A Kinase from Thermus thermophilus HB8"
A. Seto, K. Murayama, M. Toyama, A. Ebihara, N. Nakagawa, S. Kuramitsu, M. Shirouzu, S.
Yokoyama
Proteins: Structure, Function, and Bioinformatics, 58, (2005), 235-242"Crystal Structure of Stilbene Synthase from Arachis hypogaea"
Y. Shomura, I. Torayama, D. Suh, T. Xiang, A. Kita, U. Sankawa, K. Miki
Proteins: Structure, Function, and Bioinformatics, 60, (2005), 803-806"Crystal Structure of Atypical Cytoplasmic ABC-ATPase SufC from Thermus thermophilus HB8"
S. Watanabe, A. Kita, K. Miki
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Protein CHP2 Bound to the Cytoplasmic Region of the Na /H Exchanger NHE1"
B. Youssef, S. Takeda, M. Sugahara, M. Miyano, H. Mori, S. Wakabayashi
Acta Crystallographica Section F, 61, (2005), 956-958[2006]"Crystal Structure of CHP2 Complexed with NHE1-cytosolic Region and an Implication for pH
Regulation"
Y. Ben Ammar, S. Takeda, T. Hisamitsu, H. Mori, S. Wakabayashi
The EMBO Journal, 25, (2006), 2315-2325"Crystal Structure and Peroxidase Activity of Myoglobin Reconstituted with Iron Porphycene"
T. Hayashi, D. Murata, M. Makino, H. Sugimoto, T. Matsuo, H. Sato, Y. Shiro, Y. Hisaeda
Inorganic Chemistry, 45, (2006), 10530-10536"Purification, Crystallization and Preliminary X-ray Crystallographic Analysis of the Outer Membrane
Lipoprotein NlpE from Escherichia coli "Y. Hirano, Md. Motarab Hossain, K. Takeda, H. Tokuda, K. Miki
Acta Crystallographica Section F, 62, (2006), 1227-1230"The Crystal Structure of Polyhydroxybutyrate Depolymerase from Penicillium funiculosum Provides
Insights into the Recognition and Degradation of Biopolyesters"
T. Hisano, K. Kasuya, Y. Tezuka, N. Ishii, T. Kobayashi, M. Shiraki, E. Oroudjev, H. Hansma, T.
Iwata, Y. Doi, T. Saito, K. Miki
Journal of Molecular Biology, 356, (2006), 933-1004"Crystal Structure of TTHA0252 from Thermus thermophilus HB8, a RNA Degradation Protein of theMetallo-Ǫ-lactamase Superfamily"
H. Ishikawa, N. Nakagawa, S. Kuramitsu, R. Masui
The Journal of Biochemistry, 140, (2006), 535-542"Crystal Structures of Tyrosyl-tRNA Synthetases from Archaea"
M. Kuratani, H. Sakai, M. Takahashi, T. Yanagisawa, T. Kobayashi, K. Murayama, L. Chen, Z. Liu, B.
Wang, C. Kuroishi, S. Kuramitsu, T. Terada, Y. Bessho, M. Shirouzu, S. Sekine, S. Yokoyama
Journal of Molecular Biology, 355, (2006), 395-408"Endophilin BAR Domain Drives Membrane Curvature by Two Newly Identified Structure-based
Mechanism"
M. Masuda, S. Takeda, M. Sone, T. Ohki, H. Mori, Y. Kamioka, N. Mochizuki
The EMBO Journal, 25, (2006), 2889-2897
2+"Crystallization and Preliminary X-ray Crystallographic Analysis of Ca -independent and2+
Ca -dependent Species of the Type II Antifreeze Protein"
Y. Nishimiya, H. Kondo, M. Yasui, H. Sugimoto, N. Noro, R. Sato, M. Suzuki, A. Miura, S. Tsuda
Acta Crystallographica Section F, 62, (2006), 538-541"Purification, Crystallization, and Preliminary X-ray Diffraction Studies of
N-Acetylglucosamine-phosphate Mutase from Candida albicans"
Y. Nishitani, D. Maruyama, T. Nonaka, A. Kita, T. Fukami, T. Mio, H. Yamada-Okabe, T.
Yamada-Okabe, K. Miki
Acta Crystallographica Section F, 62, (2006), 419-421"Crystal Structures of N-Acetylglucosamine-phosphate Mutase, a Member of the
ǩ-D-Phosphohexomutase Superfamily, and Its Substrate and Product Complexes"
Y. Nishitani, D. Maruyama, T. Nonaka, A. Kita, T. Fukami, T. Mio, H. Yamada-Okabe, T.
Yamada-Okabe, K. Miki
The Journal of Biological Chemistry, 281, (2006), 19740-19747"1.25 Å Resolution Crystal Structures of Human Haemoglobin in the Oxy, Deoxy and Carbonmonoxy
Forms"
S. Park, T. Yokoyama, N. Shibayama, Y. Shiro, J. Tame
Journal of Molecular Biology, 360, (2006), 690-701"The RAC-binding Domain/IRSP53-MIM Homology Domain of IRSP53 Induces RAC-dependent
Membrane Deformation"
S. Suetsugu, K. Murayama, A. Sakamoto, K. Hanawa-Suetsugu, A. Seto, T. Oikawa, C. Mishima, M.
Shirouzu, T. Takenawa, S. Yokoyama
The Journal of Biological Chemistry, 281, (2006), 35347-35358"Crystal Structure of Human Indoleamine 2,3-dioxygenase: Catalytic Mechanism of O2 Incorporation
by a Heme-Containing Dioxygenase"
H. Sugimoto, S. Oda, T. Otsuki, T. Hino, T. Yoshida, Y. Shiro
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T. Tanaka, M. Sawano, K. Ogasahara, Y. Sakaguchi, B. Bagautdinov, E. Katoh, C. Kuroishi, A.
Shinkai, S. Yokoyama, K. Yutani
FEBS Letters, 580, (2006), 4224-4230"Crystallization and Preliminary X-ray Crystallographic Studies of Oxidative Stress Sensor SoxR and
Its Complex with DNA"
S. Watanabe, A. Kita, K. Kobayashi, Y. Takahashi, K. Miki
Acta Crystallographica Section F, 62, (2006), 1275-1277"The Signaling Pathway in Histidine Kinase and the Response Regulator Complex Revealed by X-ray
Crystallography and Solution Scattering"
S. Yamada, S. Akiyama, H. Sugimoto, H. Kumita, K. Ito, T. Fujisawa, H. Nakamura, Y. Shiro
Journal of Molecular Biology, 362, (2006), 123-139[2007]"Crystal Structure of a Human Membrane Protein Involved in Cysteinyl Leukotriene Biosynthesis"
H. Ago, Y. Kanaoka, D. Irikura, Bing k. Lam, T. Shimamura, K. Frank Austen, M. Miyano
Nature, 448, (2007), 609-612"Structure and Ligand Binding Properties of Myoglobins Reconstituted with Monodepropionated
Heme: Functional Role of Each Heme Propionate Side Chain"
K. Harada, M. Makino, H. Sugimoto, S. Hirota, T. Matsuo, Y. Shiro, Y. Hisaeda, T. Hayashi
Biochemistry, 46, (2007), 9406-9416"Structural Studies of the Cpx Pathway Activator NlpE on the Outer Membrane of Escherichia coli "Y. Hirano, Md. Motarab Hossain, K. Takeda, H. Tokuda, K. Miki
Structure, 15, (2007), 963-976"New Insights into the Binding Mode of Coenzymes:structure of Thermus thermophilus
1+∆ -pyrroline-5-carboxylate Dehydrogenase Complexed with NADP "E. Inagaki, N. Ohshima, K. Sakamoto, N. Babayeva, H. Kato, S. Yokoyama, T. Tahirov
Acta Crystallographica Section F, 63, (2007), 462-465"Fiber-Optic Taper Coupled With A Large Format Charge-Coupled Device X-ray Detector: Fast
Readout and High Duty-Cycle Ratio"
K. Ito, T. Fujisawa, T. Iwata
AIP Conference Proceedings, 879, (2007), 1160-1163"Novel Fast-arrayed CCD X-ray Detector using Interline Transfer-type CCD for Time-resolved X-ray
Diffraction Measurements"
K. Ito, T. Fujisawa, T. Iwata
Nuclear Instruments and Methods in Physics Research Section A, 582, (2007), 673-682"The Asymmetric Structure of the Stationary Phase Survival Protein SurE Tetramer from Thermus
thermophilus HB8"
W. Iwasaki, K. Miki
Journal of Molecular Biology, 371, (2007), 123-136"The Interaction of DiaA and DnaA Regulates the Replication Cycle in E. coli by Directly Promoting
ATP DnaA-specific Initiation Complexes"
K. Keyamura, N. Fujikawa, T. Ishida, S. Ozaki, M. Su'etsugu, K. Fujimitsu, W. Kagawa, S. Yokoyama,
H. Kurumizaka, T. Katayama
Genes and Development, 21, (2007), 2083-2099"Crystal Structure of the Oxygenase Component (HpaB) of the 4-Hydroxyphenylacetate
3-Monooxygenase from Thermus thermophilus HB8"
S. Kim, T. Hisano, K. Takeda, W. Iwasaki, A. Ebihara, K. Miki
The Journal of Biological Chemistry, 282, (2007), 33107-33117"Crystal Structures and Catalytic Mechanism of Cytochrome P450 StaP that Produces theIndolocarbazole Skeleton"
M. Makino, H. Sugimoto, Y. Shiro, S. Asamizu, H. Onaka, S. Nagano
Proceedings of the National Academy of Sciences of the United States of America, 104, (2007),
11591-11596"Crystal Structure of the Rac Activator, Asef, Reveals Its Autoinhibitory Mechanism"
K. Murayama, M. Shirouzu, Y. Kawasaki, M. Kato-Murayama, K. Hanawa-Suetsugu, A. Sakamoto, Y.
Katsura, A. Suenaga, M. Toyama, T. Terada, M. Taiji, T. Akiyama, S. Yokoyama
The Journal of Biological Chemistry, 282, (2007), 4238-4242"Crystal Structure of TTHA1657 (AT-rich DNA-binding protein; p25) from Thermus thermophilus HB8 at
2.16 Å Resolution"
A. Nakamura, A. Sosa, H. Komori, A. Kita, K. Miki
Proteins: Structure, Function, and Bioinformatics, 66, (2007), 755-759

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[158]

[159]

[160]

[161]

[162]

[163]

"Structural Basis for Regulation of Bifunctional Roles in Replication Initiator Protein"
A. Nakamura, C. Wada, K. Miki
Proceedings of the National Academy of Sciences of the United States of America, 104, (2007),
18484-18489"Structure of a Hyperthermophilic Archaeal Homing Endonuclease, I-tsp061I: Contribution of
Cross-domain Polar Networks to Thermostability"
H. Nakayama, T. Shimamura, T. Imagawa, N. Shirai, T. Itoh, Y. Sako, M. Miyano, H. Sakuraba, T.
Ohshima, N. Nomura, H. Tsuge
Journal of Molecular Biology, 365, (2007), 362-378"The Putative DNA-binding Protein Sto12a from the Thermoacidophilic Archaeon Sulfolobus tokodaii
Contains Intrachain and Interchain Disulfide Bonds"
A. Shinkai, S. Sekine, A. Urushibata, T. Terada, M. Shirouzu, S. Yokoyama
Journal of Molecular Biology, 372, (2007), 1293-1304"Crystallization and Preliminary X-ray Crystallographic Studies of [NiFe] Hydrogenase Maturation
Proteins, HypC and HypD"
S. Watanabe, R. Matsumi, H. Atomi, T. Imanaka, K. Miki
Acta Crystallographica Section F, 63, (2007), 538-541"Crystal Structures of [NiFe] Hydrogenase Maturation Proteins, HypC, HypD and HypE: Insights into
Cyanation Reaction by Thiol Redox Signaling"
S. Watanabe, R. Matsumi, T. Arai, H. Atomi, T. Imanaka, K. Miki
Molecular Cell, 27, (2007), 29-40"The Structural Basis for the Exo-mode of Action in GH74 Oligoxyloglucan Reducing End-specific
Cellobiohydrolase"
K. Yaoi, H. Kondo, A. Hiyoshi, N. Noro, H. Sugimoto, S. Tsuda, Y. Mitsuishi, K. Miyazaki
Journal of Molecular Biology, 370, (2007), 53-62[2008]"Crystal Structures of Lymnaea stagnalis AChBP in Complex with Neonicotinoid Insecticides
Imidacloprid and Clothianidin"
M. Ihara, T. Okajima, A. Yamashita, T. Oda, K. Hirata, H. Nishiwaki, T. Morimoto, M. Akamatsu, Y.
Ashikawa, S. Kuroda, R. Mega, S. Kuramitsu, David B. Sattelle, K. Matsuda
Invertebrate Neuroscience, 8, (2008), 71-81"Molecular Design of Heteroprotein Assemblies Providing a Bionanocup as a Chemical Reactor"
T. Koshiyama, N. Yokoi, T. Ueno, S. Kanamaru, S. Nagano, Y. Shiro, F. Arisaka, Y. Watanabe
Small, 4, (2008), 50-54"Crystal Structure of CYP105A1 (P450SU-1) in Complex with 1ǩ,25-Dihydroxyvitamin D3"
H. Sugimoto, R. Shinkyo, K. Hayashi, S. Yoneda, M. Yamada, M. Kamakura , S. Ikushiro, Y. Shiro, T.
Sakaki
Biochemistry, 47, (2008), 4017-4027"Structural Basis for Different Substrate Specificities of Two ADP-Ribose Pyrophosphatases from
Thermus thermophilus HB8"
T. Wakamatsu, N. Nakagawa, S. Kuramitsu, R. Masui
Journal of Bacteriology, 190, (2008), 1108-1117

BL45XU
Refereed Journals
[1]

[2]

[3]

[4]

[1995]"Conceptual Design of SPring-8 Contract Beamline for Structural Biology"
M. Yamamoto, T. Fujisawa, M. Nakasako, T. Tanaka, T. Uruga, H. Kimura, H. Yamaoka, Y. Inoue, H.
Iwasaki, T. Ishikawa, H. Kitamura, T. Ueki
Review of Scientific Instruments, 66, (1995), 1833-1835[1998]"Construction of a Vertical Undulator at SPring-8"
T. Tanaka, X. Marechal, T. Hara, T. Tanabe, H. Kitamura
Journal of Synchrotron Radiation, 5, (1998), 414-416"Trichromatic Concept at SPring-8 RIKEN Beamline I"
M. Yamamoto, T. Kumasaka, T. Fujisawa, T. Ueki
Journal of Synchrotron Radiation, 5, (1998), 222-225[1999]"Crystal Structure of the RNA-Dependent RNA Polymerase of Hepatitis C Virus"
H. Ago, T. Adachi, A. Yoshida, M. Yamamoto, N. Habuka, K. Yatsunami, M. Miyano
Structure, 7, (1999), 1417-1426

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BL45XURIKEN Beamlines[154]