4H04
| Lacto-N-biosidase from Bifidobacterium bifidum | 分子名称: | Lacto-N-biosidase, SULFATE ION, beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | 著者 | Ito, T, Katayama, T, Wada, J, Suzuki, R, Ashida, H, Wakagi, T, Yamamoto, K, Fushinobu, S. | 登録日 | 2012-09-07 | 公開日 | 2013-03-20 | 最終更新日 | 2024-10-09 | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | 主引用文献 | Crystal structures of a glycoside hydrolase family 20 lacto-N-biosidase from Bifidobacterium bifidum J.Biol.Chem., 288, 2013
|
|
3JCN
| Structures of ribosome-bound initiation factor 2 reveal the mechanism of subunit association: Initiation Complex I | 分子名称: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | 著者 | Sprink, T, Ramrath, D.J.F, Yamamoto, H, Yamamoto, K, Loerke, J, Ismer, J, Hildebrand, P.W, Scheerer, P, Buerger, J, Mielke, T, Spahn, C.M.T. | 登録日 | 2016-01-04 | 公開日 | 2016-03-09 | 最終更新日 | 2018-07-18 | 実験手法 | ELECTRON MICROSCOPY (4.6 Å) | 主引用文献 | Structures of ribosome-bound initiation factor 2 reveal the mechanism of subunit association. Sci Adv, 2, 2016
|
|
3JCJ
| Structures of ribosome-bound initiation factor 2 reveal the mechanism of subunit association | 分子名称: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | 著者 | Sprink, T, Ramrath, D.J.F, Yamamoto, H, Yamamoto, K, Loerke, J, Ismer, J, Hildebrand, P.W, Scheerer, P, Buerger, J, Mielke, T, Spahn, C.M.T. | 登録日 | 2015-12-18 | 公開日 | 2016-03-09 | 最終更新日 | 2024-10-09 | 実験手法 | ELECTRON MICROSCOPY (3.7 Å) | 主引用文献 | Structures of ribosome-bound initiation factor 2 reveal the mechanism of subunit association. Sci Adv, 2, 2016
|
|
3UES
| Crystal structure of alpha-1,3/4-fucosidase from Bifidobacterium longum subsp. infantis complexed with deoxyfuconojirimycin | 分子名称: | (2S,3R,4S,5R)-2-METHYLPIPERIDINE-3,4,5-TRIOL, 1,2-ETHANEDIOL, Alpha-1,3/4-fucosidase, ... | 著者 | Sakurama, H, Fushinobu, S, Yoshida, E, Honda, Y, Hidaka, M, Ashida, H, Kitaoka, M, Katayama, T, Yamamoto, K, Kumagai, H. | 登録日 | 2011-10-31 | 公開日 | 2012-04-04 | 最終更新日 | 2023-11-01 | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | 主引用文献 | 1,3-1,4-alpha-L-fucosynthase that specifically introduces Lewis a/x antigens into type-1/2 chains J.Biol.Chem., 287, 2012
|
|
3UET
| Crystal structure of alpha-1,3/4-fucosidase from Bifidobacterium longum subsp. infantis D172A/E217A mutant complexed with lacto-N-fucopentaose II | 分子名称: | 1,2-ETHANEDIOL, Alpha-1,3/4-fucosidase, SODIUM ION, ... | 著者 | Sakurama, H, Fushinobu, S, Yoshida, E, Honda, Y, Hidaka, M, Ashida, H, Kitaoka, M, Katayama, T, Yamamoto, K, Kumagai, H. | 登録日 | 2011-10-31 | 公開日 | 2012-04-04 | 最終更新日 | 2023-11-01 | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | 主引用文献 | 1,3-1,4-alpha-L-fucosynthase that specifically introduces Lewis a/x antigens into type-1/2 chains J.Biol.Chem., 287, 2012
|
|
5FLX
| Mammalian 40S HCV-IRES complex | 分子名称: | 18S RRNA, 40S RIBOSOMAL PROTEIN S10, 40S RIBOSOMAL PROTEIN S11, ... | 著者 | Yamamoto, H, Collier, M, Loerke, J, Ismer, J, Schmidt, A, Hilal, T, Sprink, T, Yamamoto, K, Mielke, T, Burger, J, Shaikh, T.R, Dabrowski, M, Hildebrand, P.W, Scheerer, P, Spahn, C.M.T. | 登録日 | 2015-10-28 | 公開日 | 2015-12-23 | 最終更新日 | 2017-08-30 | 実験手法 | ELECTRON MICROSCOPY (3.9 Å) | 主引用文献 | Molecular Architecture of the Ribosome-Bound Hepatitis C Virus Internal Ribosomal Entry Site RNA. Embo J., 34, 2015
|
|
1BKU
| EFFECTS OF GLYCOSYLATION ON THE STRUCTURE AND DYNAMICS OF EEL CALCITONIN, NMR, 10 STRUCTURES | 分子名称: | CALCITONIN | 著者 | Hashimoto, Y, Nishikido, J, Toma, K, Yamamoto, K, Haneda, K, Inazu, T, Valentine, K, Opella, S.J. | 登録日 | 1998-07-13 | 公開日 | 1999-01-13 | 最終更新日 | 2022-02-16 | 実験手法 | SOLUTION NMR | 主引用文献 | Effects of glycosylation on the structure and dynamics of eel calcitonin in micelles and lipid bilayers determined by nuclear magnetic resonance spectroscopy. Biochemistry, 38, 1999
|
|
1BYV
| GLYCOSYLATED EEL CALCITONIN | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose, PROTEIN (CALCITONIN) | 著者 | Hashimoto, Y, Toma, K, Nishikido, J, Yamamoto, K, Haneda, K, Inazu, T, Valentine, K.G, Opella, S.J. | 登録日 | 1998-10-16 | 公開日 | 1998-10-28 | 最終更新日 | 2020-07-29 | 実験手法 | SOLUTION NMR | 主引用文献 | Effects of glycosylation on the structure and dynamics of eel calcitonin in micelles and lipid bilayers determined by nuclear magnetic resonance spectroscopy. Biochemistry, 38, 1999
|
|
1BZB
| GLYCOSYLATED EEL CALCITONIN | 分子名称: | PROTEIN (CALCITONIN), alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | 著者 | Hashimoto, Y, Toma, K, Nishikido, J, Yamamoto, K, Haneda, K, Inazu, T, Valentine, K, Opella, S.J. | 登録日 | 1998-10-27 | 公開日 | 1998-11-11 | 最終更新日 | 2024-10-16 | 実験手法 | SOLUTION NMR | 主引用文献 | Effects of glycosylation on the structure and dynamics of eel calcitonin in micelles and lipid bilayers determined by nuclear magnetic resonance spectroscopy. Biochemistry, 38, 1999
|
|
5ZF1
| Molecular structure of a novel 5,10-methylenetetrahydrofolate dehydrogenase from the silkworm, Bombyx mori | 分子名称: | 1,2-ETHANEDIOL, 5,10-methylenetetrahydrofolate dehydrogenase, SULFATE ION | 著者 | Haque, R, Higashiura, A, Nakagawa, A, Yamamoto, K. | 登録日 | 2018-03-02 | 公開日 | 2019-01-23 | 最終更新日 | 2024-03-27 | 実験手法 | X-RAY DIFFRACTION (1.75 Å) | 主引用文献 | Molecular structure of a 5,10-methylenetetrahydrofolate dehydrogenase from the silkwormBombyx mori. FEBS Open Bio, 9, 2019
|
|
5ZWI
| Interaction between Vitamin D receptor (VDR) and a ligand having a dienone group | 分子名称: | (2S)-2-[(1R,3aS,4E,7aR)-7a-methyl-4-[2-[(3R,5R)-4-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3a,5,6,7-hexahydro-1H-inden-1-yl]oct-4,6-diene-3-one, 13-meric peptide from DRIP205 NR2 BOX peptide, Vitamin D3 receptor | 著者 | Yoshizawa, M, Itoh, T, Anami, Y, Kato, A, Yoshimoto, N, Yamamoto, K. | 登録日 | 2018-05-15 | 公開日 | 2018-07-18 | 最終更新日 | 2024-03-27 | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | 主引用文献 | Identification of the Histidine Residue in Vitamin D Receptor That Covalently Binds to Electrophilic Ligands J. Med. Chem., 61, 2018
|
|
5ZWH
| Covalent bond formation between histidine of Vitamin D receptor (VDR) and a full agonist having an ene-ynone group via conjugate addition reaction | 分子名称: | (2S)-2-[(1R,3aS,4E,7aR)-7a-methyl-4-[2-[(3R,5R)-4-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3a,5,6,7-hexahydro-1H-inden-1-yl]oct-4,6-diene-3-one, (E,2S)-2-[(1R,3aS,4E,7aR)-7a-methyl-4-[2-[(3R,5R)-4-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3a,5,6,7-hexahydro-1H-inden-1-yl]oct-6-en-4-yn-3-one, 13-meric peptide from DRIP205 NR2 BOX peptide, ... | 著者 | Yoshizawa, M, Itoh, T, Anami, Y, Kato, A, Yoshimoto, N, Yamamoto, K. | 登録日 | 2018-05-15 | 公開日 | 2018-07-18 | 最終更新日 | 2018-08-08 | 実験手法 | X-RAY DIFFRACTION (2.38 Å) | 主引用文献 | Identification of the Histidine Residue in Vitamin D Receptor That Covalently Binds to Electrophilic Ligands J. Med. Chem., 61, 2018
|
|
5ZWF
| Covalent bond formation between histidine of Vitamin D receptor (VDR) and a full agonist having a enone with a beta methyl group via conjugate addition reaction | 分子名称: | (E,7R)-7-[(1R,3aS,4E,7aR)-7a-methyl-4-[2-[(3R,5R)-4-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3a,5,6,7-hexahydro-1H-inden-1-yl]oct-2-en-4-one, 13-meric peptide from DRIP205 NR2 BOX peptide, Vitamin D3 receptor | 著者 | Yoshizawa, M, Itoh, T, Anami, Y, Kato, A, Yoshimoto, N, Yamamoto, K. | 登録日 | 2018-05-15 | 公開日 | 2018-07-18 | 最終更新日 | 2018-08-08 | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | 主引用文献 | Identification of the Histidine Residue in Vitamin D Receptor That Covalently Binds to Electrophilic Ligands J. Med. Chem., 61, 2018
|
|
5ZWE
| Covalent bond formation between histidine of Vitamin D receptor (VDR) and a full agonist having a vinyl ketone group via conjugate addition reaction | 分子名称: | (6R)-6-[(1R,3aS,4E,7aR)-7a-methyl-4-[2-[(3R,5R)-4-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3a,5,6,7-hexahydro-1H-inden-1-yl]hept-1-en-3-one, 13-meric peptide from DRIP205 NR2 BOX peptide, Vitamin D3 receptor | 著者 | Yoshizawa, M, Itoh, T, Anami, Y, Kato, A, Yoshimoto, N, Yamamoto, K. | 登録日 | 2018-05-15 | 公開日 | 2018-07-18 | 最終更新日 | 2018-08-08 | 実験手法 | X-RAY DIFFRACTION (2.72 Å) | 主引用文献 | Identification of the Histidine Residue in Vitamin D Receptor That Covalently Binds to Electrophilic Ligands J. Med. Chem., 61, 2018
|
|
8I09
| Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with butyl gallate | 分子名称: | CYSTEINE, PHOSPHATE ION, Serine acetyltransferase, ... | 著者 | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | 登録日 | 2023-01-10 | 公開日 | 2023-11-22 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | 主引用文献 | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics. Front Microbiol, 14, 2023
|
|
8I06
| Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with CoA | 分子名称: | COENZYME A, CYSTEINE, Serine acetyltransferase | 著者 | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | 登録日 | 2023-01-10 | 公開日 | 2023-11-22 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | 主引用文献 | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics. Front Microbiol, 14, 2023
|
|
8I04
| Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with serine | 分子名称: | PHOSPHATE ION, SERINE, Serine acetyltransferase | 著者 | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | 登録日 | 2023-01-10 | 公開日 | 2023-11-22 | 最終更新日 | 2023-11-29 | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | 主引用文献 | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics. Front Microbiol, 14, 2023
|
|
2LQI
| NMR structure of FOXO3a transactivation domains (CR2C-CR3) in complex with CBP KIX domain (2l3b conformation) | 分子名称: | CREB-binding protein, Forkhead box O3 | 著者 | Wang, F, Marshall, C.B, Yamamoto, K, Li, G.B, Gasmi-Seabrook, G.M.C, Okada, H, Mak, T.W, Ikura, M. | 登録日 | 2012-03-06 | 公開日 | 2012-05-16 | 最終更新日 | 2024-05-15 | 実験手法 | SOLUTION NMR | 主引用文献 | Structures of KIX domain of CBP in complex with two FOXO3a transactivation domains reveal promiscuity and plasticity in coactivator recruitment. Proc.Natl.Acad.Sci.USA, 109, 2012
|
|
2LQH
| NMR structure of FOXO3a transactivation domains (CR2C-CR3) in complex with CBP KIX domain (2b3l conformation) | 分子名称: | CREB-binding protein, Forkhead box O3 | 著者 | Wang, F, Marshall, C.B, Yamamoto, K, Li, G.B, Gasmi-Seabrook, G.M.C, Okada, H, Mak, T.W, Ikura, M. | 登録日 | 2012-03-06 | 公開日 | 2012-05-16 | 最終更新日 | 2024-05-15 | 実験手法 | SOLUTION NMR | 主引用文献 | Structures of KIX domain of CBP in complex with two FOXO3a transactivation domains reveal promiscuity and plasticity in coactivator recruitment. Proc.Natl.Acad.Sci.USA, 109, 2012
|
|
6JEZ
| Covalent labeling of rVDR-LBD by turn-on fluorescent probe mediated by conjugate addition and cyclization | 分子名称: | (1R,3R)-5-(2-((1R,3aS,7aR,E)-1-((R)-6-hydroxy-6-methylheptan-2-yl)-7a-methyloctahydro-4H-inden-4-ylidene)ethylidene)-2- methylenecyclohexane-1,3-diol, 7-(diethylamino)chromen-2-one, Mediator of RNA polymerase II transcription subunit 1, ... | 著者 | Kojima, H, Yamamoto, K, Itoh, T. | 登録日 | 2019-02-07 | 公開日 | 2020-02-12 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | 主引用文献 | Cyclization Reaction-Based Turn-on Probe for Covalent Labeling of Target Proteins. Cell Chem Biol, 27, 2020
|
|
6JF0
| |
6J7A
| Fusion protein of heme oxygenase-1 and NADPH cytochrome P450 reductase (17aa) | 分子名称: | FLAVIN MONONUCLEOTIDE, FLAVIN-ADENINE DINUCLEOTIDE, Heme oxygenase 1,NADPH--cytochrome P450 reductase, ... | 著者 | Sugishima, M, Sato, H, Wada, K, Yamamoto, K. | 登録日 | 2019-01-17 | 公開日 | 2019-04-10 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (3.269 Å) | 主引用文献 | Crystal structure of a NADPH-cytochrome P450 oxidoreductase (CYPOR) and heme oxygenase 1 fusion protein implies a conformational change in CYPOR upon NADPH/NADP+binding. Febs Lett., 593, 2019
|
|
6J7I
| Fusion protein of heme oxygenase-1 and NADPH cytochrome P450 reductase (15aa) | 分子名称: | FLAVIN MONONUCLEOTIDE, FLAVIN-ADENINE DINUCLEOTIDE, Heme oxygenase 1,NADPH--cytochrome P450 reductase, ... | 著者 | Sugishima, M, Sato, H, Wada, K, Yamamoto, K. | 登録日 | 2019-01-18 | 公開日 | 2019-04-10 | 最終更新日 | 2023-11-22 | 実験手法 | X-RAY DIFFRACTION (3.3 Å) | 主引用文献 | Crystal structure of a NADPH-cytochrome P450 oxidoreductase (CYPOR) and heme oxygenase 1 fusion protein implies a conformational change in CYPOR upon NADPH/NADP+binding. Febs Lett., 593, 2019
|
|
5XUQ
| Crystal structure of VDR-LBD complexed with an antagonist, 2-methylidene-19,26,27-trinor-22-(S)-butyl-1-hydroxy-25-oxo-25-(1H-pyrrol-2-yl)- vitamin D3 | 分子名称: | (4~{S})-4-[(1~{R})-1-[(1~{R},3~{a}~{S},4~{E},7~{a}~{R})-7~{a}-methyl-4-[2-[(3~{R},5~{R})-4-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3~{a},5,6,7-hexahydro-1~{H}-inden-1-yl]ethyl]-1-(1~{H}-pyrrol-2-yl)octan-1-one, Mediator of RNA polymerase II transcription subunit 1, Vitamin D3 receptor | 著者 | Kato, A, Itoh, T, Yamamoto, K. | 登録日 | 2017-06-24 | 公開日 | 2018-06-27 | 最終更新日 | 2024-03-27 | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | 主引用文献 | Discovery of Potent Vitamin D Receptor Antagonist To Be Published
|
|
2ZXQ
| Crystal structure of endo-alpha-N-acetylgalactosaminidase from Bifidobacterium longum (EngBF) | 分子名称: | (4S)-2-METHYL-2,4-PENTANEDIOL, Endo-alpha-N-acetylgalactosaminidase, MANGANESE (II) ION | 著者 | Suzuki, R, Katayama, T, Ashida, H, Yamamoto, K, Kitaoka, M, Fushinobu, S. | 登録日 | 2009-01-05 | 公開日 | 2009-06-16 | 最終更新日 | 2024-03-13 | 実験手法 | X-RAY DIFFRACTION (2 Å) | 主引用文献 | Crystallographic and mutational analyses of substrate recognition of endo-{alpha}-N-acetylgalactosaminidase from Bifidobacterium longum. J.Biochem., 2009
|
|