8I76
 
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8II3
 | | Crystal structure of V30M-TTR in complex with 6-hydroxy BID | | Descriptor: | Transthyretin, [3,5-bis(iodanyl)-4-oxidanyl-phenyl]-(2-ethyl-6-oxidanyl-1-benzofuran-3-yl)methanone | | Authors: | Yokoyama, T. | | Deposit date: | 2023-02-24 | | Release date: | 2023-06-28 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (1.399 Å) | | Cite: | Benziodarone and 6-hydroxybenziodarone are potent and selective inhibitors of transthyretin amyloidogenesis.
Bioorg.Med.Chem., 90, 2023
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8II1
 | | Crystal structure of V30M-TTR in complex with BID | | Descriptor: | Benziodarone, Transthyretin | | Authors: | Yokoyama, T. | | Deposit date: | 2023-02-24 | | Release date: | 2023-06-28 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.907 Å) | | Cite: | Benziodarone and 6-hydroxybenziodarone are potent and selective inhibitors of transthyretin amyloidogenesis.
Bioorg.Med.Chem., 90, 2023
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8II4
 | | Crystal structure of V30M-TTR in complex with 6-hydroxy BBM | | Descriptor: | Transthyretin, [3,5-bis(bromanyl)-4-oxidanyl-phenyl]-(2-ethyl-6-oxidanyl-1-benzofuran-3-yl)methanone | | Authors: | Yokoyama, T. | | Deposit date: | 2023-02-24 | | Release date: | 2023-06-28 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (1.499 Å) | | Cite: | Benziodarone and 6-hydroxybenziodarone are potent and selective inhibitors of transthyretin amyloidogenesis.
Bioorg.Med.Chem., 90, 2023
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8II2
 | | Crystal structure of V30M-TTR in complex with BBM | | Descriptor: | CALCIUM ION, Transthyretin, [3,5-bis(bromanyl)-4-oxidanyl-phenyl]-(2-ethyl-1-benzofuran-3-yl)methanone | | Authors: | Yokoyama, T. | | Deposit date: | 2023-02-24 | | Release date: | 2023-06-28 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (1.798 Å) | | Cite: | Benziodarone and 6-hydroxybenziodarone are potent and selective inhibitors of transthyretin amyloidogenesis.
Bioorg.Med.Chem., 90, 2023
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7CPJ
 | | ycbZ-stalled 70S ribosome | | Descriptor: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | | Authors: | Yokoyama, T, Shirouzu, M, Ito, T. | | Deposit date: | 2020-08-07 | | Release date: | 2021-12-08 | | Last modified: | 2024-05-29 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | The landscape of translational stall sites in bacteria revealed by monosome and disome profiling.
Rna, 28, 2022
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7FH2
 | | Crystal structure of the first bromodomain of BRD4 in complex with 16D10 | | Descriptor: | Bromodomain-containing protein 4, CHLORIDE ION, N-[2-[2-[(E)-3-(2,5-dimethoxyphenyl)prop-2-enoyl]-4,5-dimethoxy-phenyl]ethyl]ethanamide | | Authors: | Yokoyama, T, Hirasawa, N. | | Deposit date: | 2021-07-29 | | Release date: | 2022-08-03 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.492 Å) | | Cite: | A chalcone derivative suppresses TSLP induction in mice and human keratinocytes through binding to BET family proteins.
Biochem Pharmacol, 194, 2021
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3D6X
 | | Crystal structure of Campylobacter jejuni FabZ | | Descriptor: | (3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase | | Authors: | Yokoyama, T, Yeo, H.J. | | Deposit date: | 2008-05-20 | | Release date: | 2009-05-05 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.59 Å) | | Cite: | Campylobacter jejuni fatty acid synthase II: structural and functional analysis of beta-hydroxyacyl-ACP dehydratase (FabZ).
Biochem.Biophys.Res.Commun., 380, 2009
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2ODL
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1F75
 | | CRYSTAL STRUCTURE OF UNDECAPRENYL DIPHOSPHATE SYNTHASE FROM MICROCOCCUS LUTEUS B-P 26 | | Descriptor: | SULFATE ION, UNDECAPRENYL PYROPHOSPHATE SYNTHETASE | | Authors: | Fujihashi, M, Zhang, Y.-W, Higuchi, Y, Li, X.-Y, Koyama, T, Miki, K. | | Deposit date: | 2000-06-26 | | Release date: | 2001-03-28 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal structure of cis-prenyl chain elongating enzyme, undecaprenyl diphosphate synthase.
Proc.Natl.Acad.Sci.USA, 98, 2001
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1IXU
 | | Solution structure of marinostatin, a protease inhibitor, containing two ester linkages | | Descriptor: | marinostatin | | Authors: | Kanaori, K, Kamei, K, Koyama, T, Yasui, T, Takano, R, Imada, C, Tajima, K, Hara, S. | | Deposit date: | 2002-07-04 | | Release date: | 2004-02-17 | | Last modified: | 2023-12-27 | | Method: | SOLUTION NMR | | Cite: | Solution structure of marinostatin, a natural ester-linked protein protease inhibitor
Biochemistry, 44, 2005
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7CPM
 | | CRYSTAL STRUCTURE OF DODECAPRENYL DIPHOSPHATE SYNTHASE FROM THERMOBIFIDA FUSCA | | Descriptor: | Trans,polycis-polyprenyl diphosphate synthase ((2Z,6E)-farnesyl diphosphate specific) | | Authors: | Kurokawa, H, Ambo, T, Takahashi, S, Koyama, T. | | Deposit date: | 2020-08-07 | | Release date: | 2020-10-14 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Crystal structure of Thermobifida fusca cis-prenyltransferase reveals the dynamic nature of its RXG motif-mediated inter-subunit interactions critical for its catalytic activity.
Biochem.Biophys.Res.Commun., 532, 2020
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7CPN
 | | CRYSTAL STRUCTURE OF DODECAPRENYL DIPHOSPHATE SYNTHASE FROM THERMOBIFIDA FUSCA | | Descriptor: | GLYCEROL, SULFATE ION, Trans,polycis-polyprenyl diphosphate synthase ((2Z,6E)-farnesyl diphosphate specific) | | Authors: | Kurokawa, H, Ambo, T, Takahasi, S, Koyama, T. | | Deposit date: | 2020-08-07 | | Release date: | 2020-10-14 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.28 Å) | | Cite: | Crystal structure of Thermobifida fusca cis-prenyltransferase reveals the dynamic nature of its RXG motif-mediated inter-subunit interactions critical for its catalytic activity.
Biochem.Biophys.Res.Commun., 532, 2020
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2Q9Y
 | | Trichodiene synthase: Complex with Mg, inorganic pyrophosphate, and benzyl triethyl ammonium cation | | Descriptor: | 1,2-ETHANEDIOL, MAGNESIUM ION, N-benzyl-N,N-diethylethanaminium, ... | | Authors: | Vedula, L.S, Zhao, Y, Coates, R.M, Koyama, T, Cane, D.E, Christianson, D.W. | | Deposit date: | 2007-06-14 | | Release date: | 2008-04-22 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Exploring biosynthetic diversity with trichodiene synthase.
Arch.Biochem.Biophys., 466, 2007
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2Q9Z
 | | Trichodiene synthase: Complex with inorganic pyrophosphate resulting from the reaction with 2-fluorofarnesyl diphosphate | | Descriptor: | 1,2-ETHANEDIOL, MAGNESIUM ION, PYROPHOSPHATE 2-, ... | | Authors: | Vedula, L.S, Zhao, Y, Coates, R.M, Koyama, T, Cane, D.E, Christianson, D.W. | | Deposit date: | 2007-06-14 | | Release date: | 2007-10-30 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2.95 Å) | | Cite: | Exploring biosynthetic diversity with trichodiene synthase.
Arch.Biochem.Biophys., 466, 2007
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3AQB
 | | M. luteus B-P 26 heterodimeric hexaprenyl diphosphate synthase in complex with magnesium | | Descriptor: | CHLORIDE ION, Component A of hexaprenyl diphosphate synthase, Component B of hexaprenyl diphosphate synthase, ... | | Authors: | Sasaki, D, Fujihashi, M, Okuyama, N, Kobayashi, Y, Noike, M, Koyama, T, Miki, K. | | Deposit date: | 2010-10-28 | | Release date: | 2010-11-10 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Crystal structure of heterodimeric hexaprenyl diphosphate synthase from Micrococcus luteus B-P 26 reveals that the small subunit is directly involved in the product chain length regulation.
J.Biol.Chem., 286, 2011
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3AQC
 | | M. luteus B-P 26 heterodimeric hexaprenyl diphosphate synthase in complex with magnesium and FPP analogue | | Descriptor: | (2E,6E)-7,11-dimethyldodeca-2,6,10-trien-1-yl trihydrogen diphosphate, CHLORIDE ION, Component A of hexaprenyl diphosphate synthase, ... | | Authors: | Sasaki, D, Fujihashi, M, Okuyama, N, Kobayashi, Y, Noike, M, Koyama, T, Miki, K. | | Deposit date: | 2010-10-28 | | Release date: | 2010-11-10 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.61 Å) | | Cite: | Crystal structure of heterodimeric hexaprenyl diphosphate synthase from Micrococcus luteus B-P 26 reveals that the small subunit is directly involved in the product chain length regulation.
J.Biol.Chem., 286, 2011
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6K72
 | | eIF2(aP) - eIF2B complex | | Descriptor: | Eukaryotic translation initiation factor 2 subunit 1, Eukaryotic translation initiation factor 2 subunit 2, Eukaryotic translation initiation factor 2 subunit 3, ... | | Authors: | Kashiwagi, K, Yokoyama, T, Ito, T. | | Deposit date: | 2019-06-05 | | Release date: | 2019-07-10 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (4.6 Å) | | Cite: | Structural basis for eIF2B inhibition in integrated stress response.
Science, 364, 2019
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6K71
 | | eIF2 - eIF2B complex | | Descriptor: | Eukaryotic translation initiation factor 2 subunit 1, Eukaryotic translation initiation factor 2 subunit 2, Eukaryotic translation initiation factor 2 subunit 3, ... | | Authors: | Kashiwagi, K, Yokoyama, T, Ito, T. | | Deposit date: | 2019-06-05 | | Release date: | 2019-07-10 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (4.3 Å) | | Cite: | Structural basis for eIF2B inhibition in integrated stress response.
Science, 364, 2019
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8JX3
 | | alpha-Hemolysin(G122S/K147R/K237C)-SpyTag/SpyCatcher head to head 14-mer | | Descriptor: | alpha hemolysin fused with spy-catcher, alpha hemolysin fused with spy-tag | | Authors: | Ishii, Y, Naito, K, Yokoyama, T, Tanaka, Y, Matsuura, T. | | Deposit date: | 2023-06-30 | | Release date: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (2.2 Å) | | Cite: | alpha-Hemolysin(G122S/K147R)-SpyTag/SpyCatcher head to head 14-mer
To Be Published
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6M04
 | | Structure of the human homo-hexameric LRRC8D channel at 4.36 Angstroms | | Descriptor: | Volume-regulated anion channel subunit LRRC8D | | Authors: | Nakamura, R, Kasuya, G, Yokoyama, T, Shirouzu, M, Ishitani, R, Nureki, O. | | Deposit date: | 2020-02-20 | | Release date: | 2020-06-17 | | Method: | ELECTRON MICROSCOPY (4.36 Å) | | Cite: | Cryo-EM structure of the volume-regulated anion channel LRRC8D isoform identifies features important for substrate permeation.
Commun Biol, 3, 2020
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8JX2
 | | alpha-Hemolysin(G122S/K147R)-SpyTag/SpyCatcher head to head 14-mer | | Descriptor: | alpha hemolysin fused with spy-catcher, alpha hemolysin fused with spy-tag | | Authors: | Ishii, Y, Naito, K, Yokoyama, T, Tanaka, Y, Matsuura, T. | | Deposit date: | 2023-06-30 | | Release date: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (2.2 Å) | | Cite: | alpha-Hemolysin(G122S/K147R)-SpyTag/SpyCatcher head to head 14-mer
To Be Published
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7Y7D
 | | Structure of the Bacterial Ribosome with human tRNA Asp(Q34) and mRNA(GAU) | | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | | Authors: | Ishiguro, K, Yokoyama, T, Shirouzu, M, Suzuki, T. | | Deposit date: | 2022-06-22 | | Release date: | 2023-10-25 | | Last modified: | 2023-12-27 | | Method: | ELECTRON MICROSCOPY (2.58 Å) | | Cite: | Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.
Cell, 186, 2023
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7Y7C
 | | Structure of the Bacterial Ribosome with human tRNA Asp(G34) and mRNA(GAU) | | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | | Authors: | Ishiguro, K, Yokoyama, T, Shirouzu, M, Suzuki, T. | | Deposit date: | 2022-06-22 | | Release date: | 2023-10-25 | | Last modified: | 2023-12-27 | | Method: | ELECTRON MICROSCOPY (2.51 Å) | | Cite: | Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.
Cell, 186, 2023
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7Y7F
 | | Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAC) | | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | | Authors: | Ishiguro, K, Yokoyama, T, Shirouzu, M, Suzuki, T. | | Deposit date: | 2022-06-22 | | Release date: | 2023-10-25 | | Last modified: | 2023-12-27 | | Method: | ELECTRON MICROSCOPY (2.43 Å) | | Cite: | Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.
Cell, 186, 2023
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