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
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5FB3
 | | Structure of glycerophosphate dehydrogenase in complex with NADPH | | 分子名称: | Glycerol-1-phosphate dehydrogenase [NAD(P)+], NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, PYROPHOSPHATE, ... | | 著者 | Sakuraba, H, Hayashi, J, Yamamoto, K, Yoneda, K, Ohshima, T. | | 登録日 | 2015-12-14 | | 公開日 | 2016-10-12 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (2.45 Å) | | 主引用文献 | Unique coenzyme binding mode of hyperthermophilic archaeal sn-glycerol-1-phosphate dehydrogenase from Pyrobaculum calidifontis
Proteins, 84, 2016
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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
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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
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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 | 2020-07-29 | | 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
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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
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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 | 2018-07-18 | | 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
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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
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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
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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
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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
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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
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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 | 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
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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
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5WQX
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5WR0
 | | Huisgen cycloaddition for PPARg-LBD labeling by soaking method | | 分子名称: | (E)-N-[(3E)-2-oxo-16-(8-{6-[(trifluoroacetyl)amino]hexanoyl}-8,9-dihydro-1H-dibenzo[b,f][1,2,3]triazolo[4,5-d]azocin-1-yl)hexadec-3-en-1-ylidene]glycine, Peroxisome proliferator-activated receptor gamma | | 著者 | Kojima, H, Itoh, T, Yamamoto, K. | | 登録日 | 2016-11-29 | | 公開日 | 2017-11-22 | | 最終更新日 | 2017-12-13 | | 実験手法 | X-RAY DIFFRACTION (2.85 Å) | | 主引用文献 | On-site reaction for PPAR gamma modification using a specific bifunctional ligand
Bioorg. Med. Chem., 25, 2017
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5WR1
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5H1E
 | | Interaction between vitamin D receptor and coactivator peptide SRC2-3 | | 分子名称: | 5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANE-1,3-DIOL, Nuclear receptor coactivator 2 peptide, Vitamin D3 receptor | | 著者 | Egawa, D, Itoh, T, Kato, A, Kataoka, S, Anami, Y, Yamamoto, K. | | 登録日 | 2016-10-08 | | 公開日 | 2017-01-11 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | SRC2-3 binds to vitamin D receptor with high sensitivity and strong affinity
Bioorg. Med. Chem., 25, 2017
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7EFN
 | | Crystal structure of the gastric proton pump K791S/E820D/Y340N/E936V in (BYK)E2BeF state | | 分子名称: | (7R,8R,9S)-2,3-dimethyl-9-phenyl-7,8,9,10-tetrahydroimidazo[1,2-h][1,7]naphthyridine-7,8-diol, 2-acetamido-2-deoxy-beta-D-glucopyranose, MAGNESIUM ION, ... | | 著者 | Abe, K, Yamamoto, K, Irie, K. | | 登録日 | 2021-03-22 | | 公開日 | 2021-09-01 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (3.2 Å) | | 主引用文献 | Gastric proton pump with two occluded K + engineered with sodium pump-mimetic mutations.
Nat Commun, 12, 2021
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7EFM
 | | Crystal structure of the gastric proton pump K791S/E820D/Y340N in (BYK)E2BeF state | | 分子名称: | (7R,8R,9S)-2,3-dimethyl-9-phenyl-7,8,9,10-tetrahydroimidazo[1,2-h][1,7]naphthyridine-7,8-diol, 2-acetamido-2-deoxy-beta-D-glucopyranose, MAGNESIUM ION, ... | | 著者 | Abe, K, Yamamoto, K, Irie, K. | | 登録日 | 2021-03-22 | | 公開日 | 2021-09-01 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (3.2 Å) | | 主引用文献 | Gastric proton pump with two occluded K + engineered with sodium pump-mimetic mutations.
Nat Commun, 12, 2021
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7EFL
 | | Crystal structure of the gastric proton pump K791S in (BYK)E2BeF state | | 分子名称: | (7R,8R,9S)-2,3-dimethyl-9-phenyl-7,8,9,10-tetrahydroimidazo[1,2-h][1,7]naphthyridine-7,8-diol, 2-acetamido-2-deoxy-beta-D-glucopyranose, MAGNESIUM ION, ... | | 著者 | Abe, K, Yamamoto, K, Irie, K. | | 登録日 | 2021-03-22 | | 公開日 | 2021-09-01 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (3.4 Å) | | 主引用文献 | Gastric proton pump with two occluded K + engineered with sodium pump-mimetic mutations.
Nat Commun, 12, 2021
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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
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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
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2M33
 | | Solution NMR structure of full-length oxidized microsomal rabbit cytochrome b5 | | 分子名称: | Cytochrome b5, PROTOPORPHYRIN IX CONTAINING FE | | 著者 | Subramanian, V, Ahuja, S, Popovych, N, Huang, R, Le Clair, S.V, Jahr, N, Soong, R, Xu, J, Yamamoto, K, Nanga, R.P, Im, S, Waskell, L, Ramamoorthy, A. | | 登録日 | 2013-01-08 | | 公開日 | 2013-02-06 | | 最終更新日 | 2024-05-15 | | 実験手法 | SOLUTION NMR | | 主引用文献 | NMR structure of full-length mammalian cytochrome b5
To be Published
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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
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