7XMA
 
 | | Crystal structure of Bovine heart cytochrome c oxidase, apo structure with DMSO | | 分子名称: | (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE, (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE, (7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE, ... | | 著者 | Nishida, Y, Shinzawa-Itoh, K, Mizuno, N, Kumasaka, T, Yoshikawa, S, Tsukihara, T, Takashima, S, Shintani, Y. | | 登録日 | 2022-04-25 | | 公開日 | 2022-12-21 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | Identifying antibiotics based on structural differences in the conserved allostery from mitochondrial heme-copper oxidases.
Nat Commun, 13, 2022
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1VBU
 | | Crystal structure of native xylanase 10B from Thermotoga maritima | | 分子名称: | ACETIC ACID, GLYCEROL, SULFATE ION, ... | | 著者 | Ihsanawati, Kumasaka, T, Kaneko, T, Nakamura, S, Tanaka, N. | | 登録日 | 2004-03-02 | | 公開日 | 2005-06-28 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8
Proteins, 61, 2005
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1VBR
 | | Crystal structure of complex xylanase 10B from Thermotoga maritima with xylobiose | | 分子名称: | ACETIC ACID, alpha-D-xylopyranose-(1-4)-beta-D-xylopyranose, endo-1,4-beta-xylanase B | | 著者 | Ihsanawati, Kumasaka, T, Kaneko, T, Nakamura, S, Tanaka, N. | | 登録日 | 2004-03-02 | | 公開日 | 2005-06-28 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8
Proteins, 61, 2005
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2D2X
 | | Crystal structure of 2-deoxy-scyllo-inosose synthase | | 分子名称: | 2-deoxy-scyllo-inosose synthase, COBALT (II) ION, GLYCEROL, ... | | 著者 | Nango, E, Kumasaka, T, Tanaka, N, Kakinuma, K, Eguchi, T. | | 登録日 | 2005-09-20 | | 公開日 | 2006-10-03 | | 最終更新日 | 2011-07-13 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Structure of 2-deoxy-scyllo-inosose synthase, a key enzyme in the biosynthesis of 2-deoxystreptamine-containing aminoglycoside antibiotics, in complex with a mechanism-based inhibitor and NAD+
Proteins, 70, 2008
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1EE8
 | | CRYSTAL STRUCTURE OF MUTM (FPG) PROTEIN FROM THERMUS THERMOPHILUS HB8 | | 分子名称: | MUTM (FPG) PROTEIN, ZINC ION | | 著者 | Sugahara, M, Mikawa, T, Kumasaka, T, Yamamoto, M, Kato, R, Fukuyama, K, Inoue, Y, Kuramitsu, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2000-01-31 | | 公開日 | 2001-01-31 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | | 主引用文献 | Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus thermophilus HB8.
EMBO J., 19, 2000
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7DVO
 | | Structure of Reaction Intermediate of Cytochrome P450 NO Reductase (P450nor) Determined by XFEL | | 分子名称: | GLYCEROL, NADP nitrous oxide-forming nitric oxide reductase, NITRIC OXIDE, ... | | 著者 | Nomura, T, Kimura, T, Kanematsu, Y, Yamashita, K, Hirata, K, Ueno, G, Murakami, H, Hisano, T, Yamagiwa, R, Takeda, H, Gopalasingam, C, Yuki, K, Kousaka, R, Yanagasawa, S, Shoji, O, Kumasaka, T, Takano, Y, Ago, H, Yamamoto, M, Sugimoto, H, Tosha, T, Kubo, M, Shiro, Y. | | 登録日 | 2021-01-14 | | 公開日 | 2021-05-19 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Short-lived intermediate in N 2 O generation by P450 NO reductase captured by time-resolved IR spectroscopy and XFEL crystallography.
Proc.Natl.Acad.Sci.USA, 118, 2021
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3AHU
 | | Crystal structure of YmaH (Hfq) from Bacillus subtilis in complex with an RNA aptamer. | | 分子名称: | 5'-R(*AP*GP*AP*GP*AP*G)-3', Protein hfq | | 著者 | Baba, S, Someya, T, Kumasaka, T, Kawai, G, Nakamura, K. | | 登録日 | 2010-04-29 | | 公開日 | 2011-07-13 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | Crystal structure of YmaH (Hfq) from Bacillus subtilis in complex with an RNA aptamer.
To be Published
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1UIR
 | | Crystal Structure of Polyamine Aminopropyltransfease from Thermus thermophilus | | 分子名称: | Polyamine Aminopropyltransferase | | 著者 | Ganbe, T, Ohnuma, M, Sato, T, Kumasaka, T, Oshima, T, Tanaka, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2003-07-18 | | 公開日 | 2003-08-05 | | 最終更新日 | 2023-10-25 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Crystal structures and enzymatic properties of a triamine/agmatine aminopropyltransferase from Thermus thermophilus
J.Mol.Biol., 408, 2011
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1UJ0
 | | Crystal Structure of STAM2 SH3 domain in complex with a UBPY-derived peptide | | 分子名称: | PHOSPHATE ION, deubiquitinating enzyme UBPY, signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 | | 著者 | Kaneko, T, Kumasaka, T, Ganbe, T, Sato, T, Miyazawa, K, Kitamura, N, Tanaka, N. | | 登録日 | 2003-07-24 | | 公開日 | 2003-12-23 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.7 Å) | | 主引用文献 | Structural insight into modest binding of a non-PXXP ligand to the signal transducing adaptor molecule-2 Src homology 3 domain.
J.Biol.Chem., 278, 2003
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1V3V
 | | Crystal structure of leukotriene B4 12-hydroxydehydrogenase/15-oxo-prostaglandin 13-reductase complexed with NADP and 15-oxo-PGE2 | | 分子名称: | (5E,13E)-11-HYDROXY-9,15-DIOXOPROSTA-5,13-DIEN-1-OIC ACID, CHLORIDE ION, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ... | | 著者 | Hori, T, Yokomizo, T, Ago, H, Sugahara, M, Ueno, G, Yamamoto, M, Kumasaka, T, Shimizu, T, Miyano, M, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2003-11-06 | | 公開日 | 2004-07-13 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Structural basis of leukotriene B4 12-hydroxydehydrogenase/15-Oxo-prostaglandin 13-reductase catalytic mechanism and a possible Src homology 3 domain binding loop
J.Biol.Chem., 279, 2004
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1V3T
 | | Crystal structure of leukotriene B4 12-hydroxydehydrogenase/15-oxo-prostaglandin 13-reductase | | 分子名称: | NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, leukotriene b4 12-hydroxydehydrogenase/prostaglandin 15-keto reductase | | 著者 | Hori, T, Yokomizo, T, Ago, H, Sugahara, M, Ueno, G, Yamamoto, M, Kumasaka, T, Shimizu, T, Miyano, M, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2003-11-05 | | 公開日 | 2004-07-13 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Structural basis of leukotriene B4 12-hydroxydehydrogenase/15-Oxo-prostaglandin 13-reductase catalytic mechanism and a possible Src homology 3 domain binding loop
J.Biol.Chem., 279, 2004
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1V3U
 | | Crystal structure of leukotriene B4 12-hydroxydehydrogenase/15-oxo-prostaglandin 13-reductase in apo form | | 分子名称: | CHLORIDE ION, leukotriene b4 12-hydroxydehydrogenase/prostaglandin 15-keto reductase | | 著者 | Hori, T, Yokomizo, T, Ago, H, Sugahara, M, Ueno, G, Yamamoto, M, Kumasaka, T, Shimizu, T, Miyano, M, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2003-11-05 | | 公開日 | 2004-07-13 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Structural basis of leukotriene B4 12-hydroxydehydrogenase/15-Oxo-prostaglandin 13-reductase catalytic mechanism and a possible Src homology 3 domain binding loop
J.Biol.Chem., 279, 2004
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2DCJ
 | | A two-domain structure of alkaliphilic XynJ from Bacillus sp. 41M-1 | | 分子名称: | (4S)-2-METHYL-2,4-PENTANEDIOL, CALCIUM ION, GLYCEROL, ... | | 著者 | Ihsanawati, Tanaka, N, Nakamura, S, Kumasaka, T. | | 登録日 | 2006-01-07 | | 公開日 | 2007-03-20 | | 最終更新日 | 2023-10-25 | | 実験手法 | X-RAY DIFFRACTION (2.24 Å) | | 主引用文献 | A two-domain structure of alkaliphilic XynJ from Bacillus sp. 41M-1
To be Published
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6J8M
 | | Low-dose structure of bovine heart cytochrome c oxidase in the fully oxidized state determined using 30 keV X-ray | | 分子名称: | (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE, (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE, (7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE, ... | | 著者 | Ueno, G, Shimada, A, Yamashita, E, Hasegawa, K, Kumasaka, T, Shinzawa-Itoh, K, Yoshikawa, S, Tsukihara, T, Yamamoto, M. | | 登録日 | 2019-01-20 | | 公開日 | 2019-06-26 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | | 主引用文献 | Low-dose X-ray structure analysis of cytochrome c oxidase utilizing high-energy X-rays.
J.Synchrotron Radiat., 26, 2019
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1ERZ
 | | CRYSTAL STRUCTURE OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE WITH A NOVEL CATALYTIC FRAMEWORK COMMON TO AMIDOHYDROLASES | | 分子名称: | N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE | | 著者 | Nakai, T, Hasegawa, T, Yamashita, E, Yamamoto, M, Kumasaka, T, Ueki, T, Nanba, H, Ikenaka, Y, Takahashi, S, Sato, M, Tsukihara, T. | | 登録日 | 2000-04-06 | | 公開日 | 2001-04-06 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (1.7 Å) | | 主引用文献 | Crystal structure of N-carbamyl-D-amino acid amidohydrolase with a novel catalytic framework common to amidohydrolases.
Structure Fold.Des., 8, 2000
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1K1X
 | | Crystal structure of 4-alpha-glucanotransferase from thermococcus litoralis | | 分子名称: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 4-ALPHA-GLUCANOTRANSFERASE, CALCIUM ION | | 著者 | Imamura, H, Fushinobu, S, Kumasaka, T, Yamamoto, M, Jeon, B.S, Wakagi, T, Matsuzawa, H. | | 登録日 | 2001-09-26 | | 公開日 | 2003-06-17 | | 最終更新日 | 2024-03-13 | | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | | 主引用文献 | Crystal structures of 4-alpha-glucanotransferase from Thermococcus litoralis and its complex with an inhibitor
J.BIOL.CHEM., 278, 2003
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7DPJ
 | | H-Ras Q61L in complex with GppNHp (state 1) after structural transition by humidity control | | 分子名称: | CALCIUM ION, GTPase HRas, MAGNESIUM ION, ... | | 著者 | Taniguchi, H, Matsumoto, S, Miyamoto, R, Kawamura, T, Kumasaka, T, Kataoka, T. | | 登録日 | 2020-12-19 | | 公開日 | 2021-07-28 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.976 Å) | | 主引用文献 | Oncogenic mutations Q61L and Q61H confer active form-like structural features to the inactive state (state 1) conformation of H-Ras protein.
Biochem.Biophys.Res.Commun., 565, 2021
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7DPH
 | | H-Ras Q61H in complex with GppNHp (state 1) after structural transition by humidity control | | 分子名称: | GTPase HRas, MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER, ... | | 著者 | Taniguchi, H, Matsumoto, S, Kawamura, T, Kumasaka, T, Kataoka, T. | | 登録日 | 2020-12-19 | | 公開日 | 2021-07-28 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.54 Å) | | 主引用文献 | Oncogenic mutations Q61L and Q61H confer active form-like structural features to the inactive state (state 1) conformation of H-Ras protein.
Biochem.Biophys.Res.Commun., 565, 2021
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1K1W
 | | Crystal structure of 4-alpha-glucanotransferase from thermococcus litoralis | | 分子名称: | 4-ALPHA-GLUCANOTRANSFERASE, CALCIUM ION, SULFATE ION, ... | | 著者 | Imamura, H, Fushinobu, S, Kumasaka, T, Yamamoto, M, Jeon, B.S, Wakagi, T, Matsuzawa, H. | | 登録日 | 2001-09-26 | | 公開日 | 2003-06-17 | | 最終更新日 | 2020-07-29 | | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | | 主引用文献 | Crystal structures of 4-alpha-glucanotransferase from Thermococcus litoralis and its complex with an inhibitor
J.BIOL.CHEM., 278, 2003
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1K1Y
 | | Crystal structure of thermococcus litoralis 4-alpha-glucanotransferase complexed with acarbose | | 分子名称: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, 4-ALPHA-GLUCANOTRANSFERASE, ... | | 著者 | Imamura, H, Fushinobu, S, Kumasaka, T, Yamamoto, M, Jeon, B.S, Wakagi, T, Matsuzawa, H. | | 登録日 | 2001-09-26 | | 公開日 | 2003-06-17 | | 最終更新日 | 2024-03-13 | | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | | 主引用文献 | Crystal structures of 4-alpha-glucanotransferase from Thermococcus litoralis and its complex with an inhibitor
J.BIOL.CHEM., 278, 2003
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1VEC
 | | Crystal structure of the N-terminal domain of rck/p54, a human DEAD-box protein | | 分子名称: | ATP-dependent RNA helicase p54, L(+)-TARTARIC ACID, ZINC ION | | 著者 | Hogetsu, K, Matsui, T, Yukihiro, Y, Tanaka, M, Sato, T, Kumasaka, T, Tanaka, N. | | 登録日 | 2004-03-29 | | 公開日 | 2004-04-13 | | 最終更新日 | 2023-10-25 | | 実験手法 | X-RAY DIFFRACTION (2.01 Å) | | 主引用文献 | Structural insight of human DEAD-box protein rck/p54 into its substrate recognition with conformational changes
Genes Cells, 11, 2006
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3ANX
 | | Crystal structure of triamine/agmatine aminopropyltransferase (SPEE) from thermus thermophilus, complexed with MTA | | 分子名称: | 5'-DEOXY-5'-METHYLTHIOADENOSINE, spermidine synthase | | 著者 | Ganbe, T, Ohnuma, M, Sato, T, Tanaka, N, Oshima, T, Kumasaka, T. | | 登録日 | 2010-09-14 | | 公開日 | 2011-04-13 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | | 主引用文献 | Crystal structures and enzymatic properties of a triamine/agmatine aminopropyltransferase from Thermus thermophilus
J.Mol.Biol., 408, 2011
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1WQS
 | | Crystal structure of Norovirus 3C-like protease | | 分子名称: | 3C-like protease, D(-)-TARTARIC ACID, L(+)-TARTARIC ACID, ... | | 著者 | Nakamura, K, Someya, Y, Kumasaka, T, Tanaka, N. | | 登録日 | 2004-10-01 | | 公開日 | 2005-10-04 | | 最終更新日 | 2011-07-13 | | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | | 主引用文献 | A norovirus protease structure provides insights into active and substrate binding site integrity
J.Virol., 79, 2005
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3WAD
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3WAG
 | | Crystal structure of glycosyltransferase VinC in complex with DTDP | | 分子名称: | Glycosyltransferase, MAGNESIUM ION, PHOSPHATE ION, ... | | 著者 | Nango, E, Minami, A, Kumasaka, T, Eguchi, T. | | 登録日 | 2013-05-02 | | 公開日 | 2014-06-04 | | 最終更新日 | 2023-11-08 | | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | | 主引用文献 | Crystal Structure of Glycosyltransferase VinC Involved in the Biosynthesis of Vicenistatin
To be Published
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