5TNO
 
 | | Discovery of novel aminobenzisoxazole derivatives as orally available factor IXa inhibitors | | Descriptor: | 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, Coagulation factor IX, SODIUM ION, ... | | Authors: | Sakurada, I, Endo, T, Hikita, K, Hirabayashi, T, Hosaka, Y, Kato, Y, Maeda, Y, Matsumoto, S, Mizuno, T, Nagasue, H, Nishimura, T, Shimada, S, Shinozaki, M, Taguchi, K, Takeuchi, K, Yokoyama, T, Hruza, A, Reichert, P, Zhang, T, Wood, H.B, Nakao, K, Furusako, S. | | Deposit date: | 2016-10-14 | | Release date: | 2017-04-26 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (1.54 Å) | | Cite: | Discovery of novel aminobenzisoxazole derivatives as orally available factor IXa inhibitors.
Bioorg. Med. Chem. Lett., 27, 2017
|
|
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
|
|
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
|
|
7Y7E
 | | Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) 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 (2.41 Å) | | Cite: | Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.
Cell, 186, 2023
|
|
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
|
|
7Y7G
 | | Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) | | 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 (2.34 Å) | | Cite: | Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.
Cell, 186, 2023
|
|
7Y7H
 | | Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAC) | | 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
|
|
8XI9
 | | Crystal structure of FRB-FKBP fusion protein in complex with rapamycin | | Descriptor: | FRB-FKBP fusion protein, RAPAMYCIN IMMUNOSUPPRESSANT DRUG | | Authors: | Inobe, T, Sakaguchi, R, Obita, T, Mukaiyama, A, Yokoyama, T, Mizuguchi, M, Akiyama, S. | | Deposit date: | 2023-12-19 | | Release date: | 2024-08-07 | | Last modified: | 2024-10-09 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Structural insights into rapamycin-induced oligomerization of a FRB-FKBP fusion protein.
Febs Lett., 598, 2024
|
|
8IFC
 | | Arbekacin-bound E.coli 70S ribosome in the PURE system | | Descriptor: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | | Authors: | Tomono, J, Asano, K, Chiashi, T, Tanaka, Y, Yokoyama, T. | | Deposit date: | 2023-02-17 | | Release date: | 2024-02-14 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (2.9 Å) | | Cite: | Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside.
J.Biochem., 175, 2024
|
|
8IFD
 | | Dibekacin-added human 80S ribosome | | Descriptor: | 18S ribosomal RNA, 28S ribosomal RNA, 40S ribosomal protein S10, ... | | Authors: | Tomono, J, Asano, K, Chiashi, T, Tanaka, Y, Yokoyama, T. | | Deposit date: | 2023-02-17 | | Release date: | 2024-02-14 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (2.59 Å) | | Cite: | Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside.
J.Biochem., 175, 2024
|
|
8IFB
 | | Dibekacin-bound E.coli 70S ribosome in the PURE system | | Descriptor: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | | Authors: | Tomono, J, Asano, K, Chiashi, T, Tanaka, Y, Yokoyama, T. | | Deposit date: | 2023-02-17 | | Release date: | 2024-02-14 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (2.43 Å) | | Cite: | Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside.
J.Biochem., 175, 2024
|
|
8IFE
 | | Arbekacin-added human 80S ribosome | | Descriptor: | 18S ribosomal RNA, 28S ribosomal RNA, 40S ribosomal protein S10, ... | | Authors: | Tomono, J, Asano, K, Chiashi, T, Tanaka, Y, Yokoyama, T. | | Deposit date: | 2023-02-17 | | Release date: | 2024-02-14 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (2.57 Å) | | Cite: | Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside.
J.Biochem., 175, 2024
|
|
7W9Q
 | | Crystal structure of V30M-TTR in complex with naringenin derivative-14 | | Descriptor: | (2~{R})-2-(3-chloranyl-4-oxidanyl-phenyl)-5,7-bis(oxidanyl)-2,3-dihydrochromen-4-one, CALCIUM ION, Transthyretin | | Authors: | Katayama, W, Shimane, A, Nabeshima, Y, Yokoyama, T, Mizuguchi, M. | | Deposit date: | 2021-12-10 | | Release date: | 2022-12-14 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.599 Å) | | Cite: | Chlorinated Naringenin Analogues as Potential Inhibitors of Transthyretin Amyloidogenesis.
J.Med.Chem., 65, 2022
|
|
7W9R
 | | Crystal structure of V30M-TTR in complex with naringenin derivative-18 | | Descriptor: | (2~{R})-2-[3,5-bis(chloranyl)-4-oxidanyl-phenyl]-5,7-bis(oxidanyl)-2,3-dihydrochromen-4-one, Transthyretin | | Authors: | Katayama, W, Shimane, A, Nabeshima, Y, Yokoyama, T, Mizuguchi, M. | | Deposit date: | 2021-12-10 | | Release date: | 2022-12-14 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.997 Å) | | Cite: | Chlorinated Naringenin Analogues as Potential Inhibitors of Transthyretin Amyloidogenesis.
J.Med.Chem., 65, 2022
|
|
5XON
 | | RNA Polymerase II elongation complex bound with Spt4/5 and TFIIS | | Descriptor: | DNA (48-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Ehara, H, Yokoyama, T, Shigematsu, H, Shirouzu, M, Sekine, S. | | Deposit date: | 2017-05-29 | | Release date: | 2017-08-16 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (3.83 Å) | | Cite: | Structure of the complete elongation complex of RNA polymerase II with basal factors
Science, 357, 2017
|
|
6JMR
 | | CD98hc extracellular domain bound to HBJ127 Fab and MEM-108 Fab | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 4F2 cell-surface antigen heavy chain, ... | | Authors: | Lee, Y, Nishizawa, T, Kusakizako, T, Oda, K, Ishitani, R, Yokoyama, T, Nakane, T, Shirouzu, M, Nureki, O. | | Deposit date: | 2019-03-13 | | Release date: | 2019-06-19 | | Last modified: | 2024-10-30 | | Method: | ELECTRON MICROSCOPY (4.1 Å) | | Cite: | Cryo-EM structure of the human L-type amino acid transporter 1 in complex with glycoprotein CD98hc.
Nat.Struct.Mol.Biol., 26, 2019
|
|
5HNY
 | | Structural basis of backwards motion in kinesin-14: plus-end directed nKn669 in the AMPPNP state | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Shigematsu, H, Yokoyama, T, Kikkawa, M, Shirouzu, M, Nitta, R. | | Deposit date: | 2016-01-19 | | Release date: | 2016-08-10 | | Last modified: | 2024-10-23 | | Method: | ELECTRON MICROSCOPY (6.3 Å) | | Cite: | Structural Basis of Backwards Motion in Kinesin-1-Kinesin-14 Chimera: Implication for Kinesin-14 Motility
Structure, 24, 2016
|
|
5HNZ
 | | Structural basis of backwards motion in kinesin-14: plus-end directed nKn669 in the nucleotide-free state | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Shigematsu, H, Yokoyama, T, Kikkawa, M, Shirouzu, M, Nitta, R. | | Deposit date: | 2016-01-19 | | Release date: | 2016-08-10 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (5.8 Å) | | Cite: | Structural Basis of Backwards Motion in Kinesin-1-Kinesin-14 Chimera: Implication for Kinesin-14 Motility
Structure, 24, 2016
|
|
5HNX
 | | Structural basis of backwards motion in kinesin-14: minus-end directed nKn664 in the nucleotide-free state | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Shigematsu, H, Yokoyama, T, Kikkawa, M, Shirouzu, M, Nitta, R. | | Deposit date: | 2016-01-19 | | Release date: | 2016-08-10 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (6.6 Å) | | Cite: | Structural Basis of Backwards Motion in Kinesin-1-Kinesin-14 Chimera: Implication for Kinesin-14 Motility
Structure, 24, 2016
|
|
5HNW
 | | Structural basis of backwards motion in kinesin-14: minus-end directed nKn664 in the AMPPNP state | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Shigematsu, H, Yokoyama, T, Kikkawa, M, Shirouzu, M, Nitta, R. | | Deposit date: | 2016-01-19 | | Release date: | 2016-08-10 | | Last modified: | 2024-10-09 | | Method: | ELECTRON MICROSCOPY (6.6 Å) | | Cite: | Structural Basis of Backwards Motion in Kinesin-1-Kinesin-14 Chimera: Implication for Kinesin-14 Motility
Structure, 24, 2016
|
|
7DPA
 | | Cryo-EM structure of the human ELMO1-DOCK5-Rac1 complex | | Descriptor: | Dedicator of cytokinesis protein 5, Engulfment and cell motility protein 1, Ras-related C3 botulinum toxin substrate 1 | | Authors: | Kukimoto-Niino, M, Katsura, K, Kaushik, R, Ehara, H, Yokoyama, T, Uchikubo-Kamo, T, Mishima-Tsumagari, C, Yonemochi, M, Ikeda, M, Hanada, K, Zhang, K.Y.J, Shirouzu, M. | | Deposit date: | 2020-12-18 | | Release date: | 2021-08-04 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Cryo-EM structure of the human ELMO1-DOCK5-Rac1 complex.
Sci Adv, 7, 2021
|
|
7EQE
 | | Crystal Structure of a transcription factor | | Descriptor: | TetR/AcrR family transcriptional regulator | | Authors: | Uehara, S, Tsugita, A, Matsui, T, Yokoyama, T, Ostash, I, Ostash, B, Tanaka, Y. | | Deposit date: | 2021-05-01 | | Release date: | 2022-04-27 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (2.399 Å) | | Cite: | The carbohydrate tail of landomycin A is responsible for its interaction with the repressor protein LanK.
Febs J., 289, 2022
|
|
7EQF
 | | Crystal Structure of a Transcription Factor in complex with Ligand | | Descriptor: | (6~{R})-3-methyl-8-[(2~{S},4~{R},5~{S},6~{R})-6-methyl-5-[(2~{S},4~{R},5~{R},6~{R})-6-methyl-4-[(2~{S},5~{S},6~{S})-6-methyl-5-[(2~{S},4~{R},5~{S},6~{R})-6-methyl-5-[(2~{S},4~{S},5~{S},6~{R})-6-methyl-4-[(2~{S},5~{S},6~{S})-6-methyl-5-oxidanyl-oxan-2-yl]oxy-5-oxidanyl-oxan-2-yl]oxy-4-oxidanyl-oxan-2-yl]oxy-oxan-2-yl]oxy-5-oxidanyl-oxan-2-yl]oxy-4-oxidanyl-oxan-2-yl]oxy-1,6,11-tris(oxidanyl)-5,6-dihydrobenzo[a]anthracene-7,12-dione, TetR/AcrR family transcriptional regulator | | Authors: | Uehara, S, Tsugita, A, Matsui, T, Yokoyama, T, Ostash, I, Ostash, B, Tanaka, Y. | | Deposit date: | 2021-05-01 | | Release date: | 2022-04-27 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.91 Å) | | Cite: | The carbohydrate tail of landomycin A is responsible for its interaction with the repressor protein LanK.
Febs J., 289, 2022
|
|
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
|
|
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
|
|
