8HDH
 
 | | Structure of human SGLT2-MAP17 complex with Canagliflozin | | Descriptor: | (2~{S},3~{R},4~{R},5~{S},6~{R})-2-[3-[[5-(4-fluorophenyl)thiophen-2-yl]methyl]-4-methyl-phenyl]-6-(hydroxymethyl)oxane-3,4,5-triol, 2-acetamido-2-deoxy-beta-D-glucopyranose, PDZK1-interacting protein 1, ... | | Authors: | Hiraizumi, M, Kishida, H, Miyaguchi, I, Nureki, O. | | Deposit date: | 2022-11-04 | | Release date: | 2023-11-08 | | Last modified: | 2024-10-23 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | Transport and inhibition mechanism of the human SGLT2-MAP17 glucose transporter.
Nat.Struct.Mol.Biol., 31, 2024
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8HEZ
 | | Structure of human SGLT2-MAP17 complex with Dapagliflozin | | Descriptor: | (2S,3R,4R,5S,6R)-2-[4-chloranyl-3-[(4-ethoxyphenyl)methyl]phenyl]-6-(hydroxymethyl)oxane-3,4,5-triol, 2-acetamido-2-deoxy-beta-D-glucopyranose, PDZK1-interacting protein 1, ... | | Authors: | Hiraizumi, M, Kishida, H, Miyaguchi, I, Nureki, O. | | Deposit date: | 2022-11-09 | | Release date: | 2023-11-15 | | Last modified: | 2024-11-20 | | Method: | ELECTRON MICROSCOPY (2.8 Å) | | Cite: | Transport and inhibition mechanism of the human SGLT2-MAP17 glucose transporter.
Nat.Struct.Mol.Biol., 31, 2024
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7VVL
 | | PTH-bound human PTH1R in complex with Gs (class2) | | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(s) subunit alpha isoforms short, ... | | Authors: | Kobayashi, K, Kusakizako, T, Miyauchi, H, Tomita, A, Kobayashi, K, Shihoya, W, Yamashita, K, Nishizawa, T, Kato, H.E, Nureki, O. | | Deposit date: | 2021-11-06 | | Release date: | 2022-08-03 | | Last modified: | 2024-10-09 | | Method: | ELECTRON MICROSCOPY (2.8 Å) | | Cite: | Endogenous ligand recognition and structural transition of a human PTH receptor.
Mol.Cell, 82, 2022
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7VVN
 | | PTH-bound human PTH1R in complex with Gs (class4) | | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(s) subunit alpha isoforms short, ... | | Authors: | Kobayashi, K, Kusakizako, T, Miyauchi, H, Tomita, A, Kobayashi, K, Shihoya, W, Yamashita, K, Nishizawa, T, Kato, H.E, Nureki, O. | | Deposit date: | 2021-11-06 | | Release date: | 2022-08-03 | | Last modified: | 2024-10-16 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Endogenous ligand recognition and structural transition of a human PTH receptor.
Mol.Cell, 82, 2022
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7VVK
 | | PTH-bound human PTH1R in complex with Gs (class1) | | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(s) subunit alpha isoforms short, ... | | Authors: | Kobayashi, K, Kusakizako, T, Miyauchi, H, Tomita, A, Kobayashi, K, Shihoya, W, Yamashita, K, Nishizawa, T, Kato, H.E, Nureki, O. | | Deposit date: | 2021-11-06 | | Release date: | 2022-08-03 | | Last modified: | 2024-10-30 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Endogenous ligand recognition and structural transition of a human PTH receptor.
Mol.Cell, 82, 2022
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7VVM
 | | PTH-bound human PTH1R in complex with Gs (class3) | | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(s) subunit alpha isoforms short, ... | | Authors: | Kobayashi, K, Kusakizako, T, Miyauchi, H, Tomita, A, Kobayashi, K, Shihoya, W, Yamashita, K, Nishizawa, T, Kato, H.E, Nureki, O. | | Deposit date: | 2021-11-06 | | Release date: | 2022-08-03 | | Last modified: | 2024-10-30 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Endogenous ligand recognition and structural transition of a human PTH receptor.
Mol.Cell, 82, 2022
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8YEJ
 | | Cryo-EM structure of the channelrhodopsin GtCCR2 focused on the monomer | | Descriptor: | GtCCR2, RETINAL | | Authors: | Tanaka, T, Iida, W, Sano, F.K, Oda, K, Shihoya, W, Nureki, O. | | Deposit date: | 2024-02-22 | | Release date: | 2024-09-04 | | Last modified: | 2024-11-20 | | Method: | ELECTRON MICROSCOPY (2.86 Å) | | Cite: | The high-light-sensitivity mechanism and optogenetic properties of the bacteriorhodopsin-like channelrhodopsin GtCCR4.
Mol.Cell, 84, 2024
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8YEK
 | | Cryo-EM structure of the channelrhodopsin GtCCR2 | | Descriptor: | 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE, GtCCR2, RETINAL | | Authors: | Tanaka, T, Iida, W, Sano, F.K, Oda, K, Shihoya, W, Nureki, O. | | Deposit date: | 2024-02-22 | | Release date: | 2024-09-04 | | Last modified: | 2024-11-06 | | Method: | ELECTRON MICROSCOPY (2.73 Å) | | Cite: | The high-light-sensitivity mechanism and optogenetic properties of the bacteriorhodopsin-like channelrhodopsin GtCCR4.
Mol.Cell, 84, 2024
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8YEL
 | | Cryo-EM structure of the channelrhodopsin GtCCR4 | | Descriptor: | 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE, Cation channel rhodopsin 4, RETINAL | | Authors: | Tanaka, T, Iida, W, Sano, F.K, Oda, K, Shihoya, W, Nureki, O. | | Deposit date: | 2024-02-22 | | Release date: | 2024-09-04 | | Last modified: | 2024-11-06 | | Method: | ELECTRON MICROSCOPY (2.71 Å) | | Cite: | The high-light-sensitivity mechanism and optogenetic properties of the bacteriorhodopsin-like channelrhodopsin GtCCR4.
Mol.Cell, 84, 2024
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1JZQ
 | | Isoleucyl-tRNA synthetase Complexed with Isoleucyl-adenylate analogue | | Descriptor: | Isoleucyl-tRNA synthetase, N-[ISOLEUCINYL]-N'-[ADENOSYL]-DIAMINOSUFONE, ZINC ION | | Authors: | Nakama, T, Nureki, O, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2001-09-17 | | Release date: | 2001-12-21 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structural basis for the recognition of isoleucyl-adenylate and an antibiotic, mupirocin, by isoleucyl-tRNA synthetase.
J.Biol.Chem., 276, 2001
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8ZJF
 | | Cryo-EM structure of human integrin alpha-E beta-7 | | Descriptor: | CALCIUM ION, Integrin alpha-E, Integrin beta-7, ... | | Authors: | Akasaka, H, Nureki, O, Kise, Y. | | Deposit date: | 2024-05-14 | | Release date: | 2024-06-05 | | Last modified: | 2025-06-25 | | Method: | ELECTRON MICROSCOPY (2.7 Å) | | Cite: | Cryo-EM structure of I domain-containing integrin alpha E beta 7.
Biochem.Biophys.Res.Commun., 721, 2024
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7VPK
 | | Cryo-EM structure of the human ATP13A2 (SPM-bound E2P state) | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, BERYLLIUM TRIFLUORIDE ION, MAGNESIUM ION, ... | | Authors: | Tomita, A, Yamashita, K, Nishizawa, T, Nureki, O. | | Deposit date: | 2021-10-17 | | Release date: | 2021-12-29 | | Last modified: | 2024-10-16 | | Method: | ELECTRON MICROSCOPY (3.92 Å) | | Cite: | Cryo-EM reveals mechanistic insights into lipid-facilitated polyamine export by human ATP13A2.
Mol.Cell, 81, 2021
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7VPL
 | | Cryo-EM structure of the human ATP13A2 (SPM-bound E2Pi state) | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, MAGNESIUM ION, Polyamine-transporting ATPase 13A2, ... | | Authors: | Tomita, A, Yamashita, K, Nishizawa, T, Nureki, O. | | Deposit date: | 2021-10-17 | | Release date: | 2021-12-29 | | Last modified: | 2024-11-06 | | Method: | ELECTRON MICROSCOPY (3.78 Å) | | Cite: | Cryo-EM reveals mechanistic insights into lipid-facilitated polyamine export by human ATP13A2.
Mol.Cell, 81, 2021
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7VPI
 | | Cryo-EM structure of the human ATP13A2 (E1-ATP state) | | Descriptor: | MAGNESIUM ION, PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER, Polyamine-transporting ATPase 13A2 | | Authors: | Tomita, A, Yamashita, K, Nishizawa, T, Nureki, O. | | Deposit date: | 2021-10-17 | | Release date: | 2021-12-29 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Cryo-EM reveals mechanistic insights into lipid-facilitated polyamine export by human ATP13A2.
Mol.Cell, 81, 2021
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7VPJ
 | | Cryo-EM structure of the human ATP13A2 (E1P-ADP state) | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Tomita, A, Yamashita, K, Nishizawa, T, Nureki, O. | | Deposit date: | 2021-10-17 | | Release date: | 2021-12-29 | | Last modified: | 2024-10-30 | | Method: | ELECTRON MICROSCOPY (3.54 Å) | | Cite: | Cryo-EM reveals mechanistic insights into lipid-facilitated polyamine export by human ATP13A2.
Mol.Cell, 81, 2021
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8ZH8
 | | Human GPR103 -Gq complex bound to QRFP26 | | Descriptor: | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,Guanine nucleotide-binding protein G(i) subunit alpha-2,Guanine nucleotide-binding protein G(s) subunit alpha isoforms XLas, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, ... | | Authors: | Iwama, A, Akasaka, H, Sano, F.K, Oshima, H.S, Shihoya, W, Nureki, O. | | Deposit date: | 2024-05-10 | | Release date: | 2024-07-03 | | Last modified: | 2024-11-06 | | Method: | ELECTRON MICROSCOPY (3.19 Å) | | Cite: | Structure and dynamics of the pyroglutamylated RF-amide peptide QRFP receptor GPR103.
Nat Commun, 15, 2024
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8X5V
 | | BlCas9-sgRNA-target DNA complex | | Descriptor: | 1,2-ETHANEDIOL, BlCas9, CHLORIDE ION, ... | | Authors: | Nakane, T, Nakagawa, R, Yamashita, K, Nishimasu, H, Nureki, O. | | Deposit date: | 2023-11-19 | | Release date: | 2024-07-10 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structure and engineering of Brevibacillus laterosporus Cas9.
Commun Biol, 7, 2024
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8ZTV
 | | 70S ribosome arrested by PepNL with RF2 | | Descriptor: | 1,4-DIAMINOBUTANE, 16S rRNA, 23S rRNA, ... | | Authors: | Ando, Y, Kobo, A, Nureki, O, Taguchi, H, Itoh, Y, Chadani, Y. | | Deposit date: | 2024-06-07 | | Release date: | 2025-03-19 | | Method: | ELECTRON MICROSCOPY (2.9 Å) | | Cite: | A mini-hairpin shaped nascent peptide blocks translation termination by a distinct mechanism.
Nat Commun, 16, 2025
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8ZTU
 | | 70S ribosome arrested by PepNL | | Descriptor: | 1,4-DIAMINOBUTANE, 16S rRNA, 23S rRNA, ... | | Authors: | Ando, Y, Kobo, A, Nureki, O, Taguchi, H, Itoh, Y, Chadani, Y. | | Deposit date: | 2024-06-07 | | Release date: | 2025-03-19 | | Method: | ELECTRON MICROSCOPY (2.9 Å) | | Cite: | A mini-hairpin shaped nascent peptide blocks translation termination by a distinct mechanism.
Nat Commun, 16, 2025
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7XJH
 | | Isoproterenol-activated dog beta3 adrenergic receptor | | Descriptor: | Beta-3 adrenergic receptor, Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, ... | | Authors: | Shihoya, W, Nureki, O. | | Deposit date: | 2022-04-18 | | Release date: | 2022-05-04 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Cryo-EM structure of the beta 3-adrenergic receptor reveals the molecular basis of subtype selectivity.
Mol.Cell, 81, 2021
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1JZS
 | | Isoleucyl-tRNA synthetase Complexed with mupirocin | | Descriptor: | Isoleucyl-tRNA synthetase, MUPIROCIN, ZINC ION | | Authors: | Nakama, T, Nureki, O, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2001-09-17 | | Release date: | 2001-12-21 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural basis for the recognition of isoleucyl-adenylate and an antibiotic, mupirocin, by isoleucyl-tRNA synthetase.
J.Biol.Chem., 276, 2001
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5EGE
 | | Structure of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase | | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Morita, J, Kano, K, Kato, K, Takita, H, Ishitani, R, Nishimasu, H, Nureki, O, Aoki, J. | | Deposit date: | 2015-10-27 | | Release date: | 2016-03-09 | | Last modified: | 2025-04-09 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structure and biological function of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase
Sci Rep, 6, 2016
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5F1C
 | | Crystal structure of an invertebrate P2X receptor from the Gulf Coast tick in the presence of ATP and Zn2+ ion at 2.9 Angstroms | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, ADENOSINE-5'-TRIPHOSPHATE, Putative uncharacterized protein, ... | | Authors: | Kasuya, G, Hattori, M, Ishitani, R, Nureki, O. | | Deposit date: | 2015-11-30 | | Release date: | 2016-03-16 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Structural Insights into Divalent Cation Modulations of ATP-Gated P2X Receptor Channels
Cell Rep, 14, 2016
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5F7A
 | | Nitrite complex structure of copper nitrite reductase from Alcaligenes faecalis determined at 293 K | | Descriptor: | COPPER (II) ION, Copper-containing nitrite reductase, NITRITE ION | | Authors: | Fukuda, Y, Tse, K.M, Nakane, T, Nakatsu, T, Suzuki, M, Sugahara, M, Inoue, S, Masuda, T, Yumoto, F, Matsugaki, N, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Murphy, M.E.P, Inoue, T, Iwata, S, Mizohata, E. | | Deposit date: | 2015-12-07 | | Release date: | 2016-03-16 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.54 Å) | | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography
Proc.Natl.Acad.Sci.USA, 113, 2016
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5F7B
 | | Resting state structure of CuNiR form Alcaligenes faecalis determined at 293 K | | Descriptor: | COPPER (II) ION, Copper-containing nitrite reductase | | Authors: | Fukuda, Y, Tse, K.M, Nakane, T, Nakatsu, T, Suzuki, M, Sugahara, M, Inoue, S, Masuda, T, Yumoto, F, Matsugaki, N, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Murphy, M.E.P, Inoue, T, Iwata, S, Mizohata, E. | | Deposit date: | 2015-12-07 | | Release date: | 2016-03-16 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.56 Å) | | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography
Proc.Natl.Acad.Sci.USA, 113, 2016
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