3WSU
 
 | | Crystal structure of beta-mannanase from Streptomyces thermolilacinus | | Descriptor: | Beta-mannanase, GLYCEROL, SODIUM ION | | Authors: | Kumagai, Y, Yamashita, K, Okuyama, M, Hatanaka, T, Yao, M, Kimura, A. | | Deposit date: | 2014-03-26 | | Release date: | 2015-05-20 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | The loop structure of Actinomycete glycoside hydrolase family 5 mannanases governs substrate recognition
Febs J., 282, 2015
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5ZKC
 | | Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor bound with NMS | | Descriptor: | Muscarinic acetylcholine receptor M2,Apo-cytochrome b562,Muscarinic acetylcholine receptor M2, N-methyl scopolamine | | Authors: | Suno, R, Maeda, S, Yasuda, S, Yamashita, K, Hirata, K, Horita, S, Tawaramoto, M.S, Tsujimoto, H, Murata, T, Kinoshita, M, Yamamoto, M, Kobilka, B.K, Iwata, S, Kobayashi, T. | | Deposit date: | 2018-03-23 | | Release date: | 2018-11-21 | | Last modified: | 2022-03-23 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor
Nat. Chem. Biol., 14, 2018
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5ZK3
 | | Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor bound with QNB | | Descriptor: | (3R)-1-azabicyclo[2.2.2]oct-3-yl hydroxy(diphenyl)acetate, Muscarinic acetylcholine receptor M2,Apo-cytochrome b562,Muscarinic acetylcholine receptor M2 | | Authors: | Suno, R, Maeda, S, Yasuda, S, Yamashita, K, Hirata, K, Horita, S, Tawaramoto, M.S, Tsujimoto, H, Murata, T, Kinoshita, M, Yamamoto, M, Kobilka, B.K, Iwata, S, Kobayashi, T. | | Deposit date: | 2018-03-23 | | Release date: | 2018-11-21 | | Last modified: | 2022-03-23 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor
Nat. Chem. Biol., 14, 2018
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3WC0
 | | Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with GTP | | Descriptor: | GUANOSINE-5'-TRIPHOSPHATE, Likely histidyl tRNA-specific guanylyltransferase, MAGNESIUM ION | | Authors: | Nakamura, A, Nemoto, T, Sonoda, T, Yamashita, K, Tanaka, I, Yao, M. | | Deposit date: | 2013-05-24 | | Release date: | 2013-12-18 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.03 Å) | | Cite: | Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA, 110, 2013
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3WBZ
 | | Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with ATP | | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, Likely histidyl tRNA-specific guanylyltransferase, MAGNESIUM ION | | Authors: | Nakamura, A, Nemoto, T, Sonoda, T, Yamashita, K, Tanaka, I, Yao, M. | | Deposit date: | 2013-05-24 | | Release date: | 2013-12-18 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.392 Å) | | Cite: | Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA, 110, 2013
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3WC1
 | | Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a G-1 deleted tRNA(His) | | Descriptor: | 75-mer tRNA, Likely histidyl tRNA-specific guanylyltransferase | | Authors: | Nakamura, A, Nemoto, T, Sonoda, T, Yamashita, K, Tanaka, I, Yao, M. | | Deposit date: | 2013-05-24 | | Release date: | 2013-12-18 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (4.18 Å) | | Cite: | Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA, 110, 2013
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3WC2
 | | Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a tRNA(Phe)(GUG) | | Descriptor: | 76mer-tRNA, Likely histidyl tRNA-specific guanylyltransferase | | Authors: | Nakamura, A, Nemoto, T, Sonoda, T, Yamashita, K, Tanaka, I, Yao, M. | | Deposit date: | 2013-05-24 | | Release date: | 2013-12-18 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.641 Å) | | Cite: | Structural basis of reverse nucleotide polymerization
Proc.Natl.Acad.Sci.USA, 110, 2013
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7VTN
 | | Cryo-EM structure of the Cas13bt3-crRNA-target RNA ternary complex | | Descriptor: | Cas13bt3, crRNA, target RNA | | Authors: | Nakagawa, R, Soumya, K, Han, A, Takeda, N.S, Tomita, A, Hirano, H, Kusakizako, T, Tomohiro, N, Yamashita, K, Feng, Z, Nishimasu, H, Nureki, O. | | Deposit date: | 2021-10-30 | | Release date: | 2022-09-07 | | Last modified: | 2022-09-14 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Structure and engineering of the minimal type VI CRISPR-Cas13bt3.
Mol.Cell, 82, 2022
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7CLJ
 | | Crystal structure of Thermoplasmatales archaeon heliorhodopsin E108D mutant | | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, RETINAL, SULFATE ION, ... | | Authors: | Tanaka, T, Shihoya, W, Yamashita, K, Nureki, O. | | Deposit date: | 2020-07-21 | | Release date: | 2020-09-02 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structural basis for unique color tuning mechanism in heliorhodopsin.
Biochem.Biophys.Res.Commun., 533, 2020
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7DB6
 | | human melatonin receptor MT1 - Gi1 complex | | 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(i) subunit alpha-1, ... | | Authors: | Okamoto, H.H, Kusakizako, T, Shihioya, W, Yamashita, K, Nishizawa, T, Nureki, O. | | Deposit date: | 2020-10-19 | | Release date: | 2021-08-18 | | Last modified: | 2022-02-16 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Cryo-EM structure of the human MT 1 -G i signaling complex.
Nat.Struct.Mol.Biol., 28, 2021
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3AP7
 | | Crystal structure of the galectin-8 N-terminal carbohydrate recognition domain in complex with lactose sialic acid | | Descriptor: | CHLORIDE ION, Galectin-8, N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose | | Authors: | Matsuzaka, T, Ideo, H, Yamashita, K, Nonaka, T. | | Deposit date: | 2010-10-12 | | Release date: | 2011-01-26 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.53 Å) | | Cite: | Galectin-8-N-domain recognition mechanism for sialylated and sulfated glycans
J.Biol.Chem., 286, 2011
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3AP9
 | | Crystal structure of the galectin-8 N-terminal carbohydrate recognition domain in complex with Lacto-N-fucopentaose III | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, CHLORIDE ION, Galectin-8, ... | | Authors: | Matsuzaka, T, Ideo, H, Yamashita, K, Nonaka, T. | | Deposit date: | 2010-10-12 | | Release date: | 2011-02-02 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.33 Å) | | Cite: | Galectin-8-N-domain recognition mechanism for sialylated and sulfated glycans
J.Biol.Chem., 286, 2011
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3AP5
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3AP6
 | | Crystal structure of the galectin-8 N-terminal carbohydrate recognition domain in complex with lactose 3'-sulfate | | Descriptor: | Galectin-8, SULFATE ION, beta-D-galactopyranose-(1-4)-beta-D-glucopyranose | | Authors: | Matsuzaka, T, Ideo, H, Yamashita, K, Nonaka, T. | | Deposit date: | 2010-10-12 | | Release date: | 2011-01-26 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.58 Å) | | Cite: | Galectin-8-N-domain recognition mechanism for sialylated and sulfated glycans
J.Biol.Chem., 286, 2011
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3AP4
 | | Crystal structure of the galectin-8 N-terminal carbohydrate recognition domain in complex with lactose | | Descriptor: | Galectin-8, beta-D-galactopyranose-(1-4)-alpha-D-glucopyranose | | Authors: | Matsuzaka, T, Ideo, H, Yamashita, K, Nonaka, T. | | Deposit date: | 2010-10-11 | | Release date: | 2011-01-26 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.33 Å) | | Cite: | Galectin-8-N-domain recognition mechanism for sialylated and sulfated glycans
J.Biol.Chem., 286, 2011
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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 | | Method: | ELECTRON MICROSCOPY (3.5 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 | | Method: | ELECTRON MICROSCOPY (3.5 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 | | Method: | ELECTRON MICROSCOPY (3.5 Å) | | Cite: | Cryo-EM reveals mechanistic insights into lipid-facilitated polyamine export by human ATP13A2.
Mol.Cell, 81, 2021
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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 | | Method: | ELECTRON MICROSCOPY (3.5 Å) | | Cite: | Cryo-EM reveals mechanistic insights into lipid-facilitated polyamine export by human ATP13A2.
Mol.Cell, 81, 2021
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7VTI
 | | Crystal structure of the Cas13bt3-crRNA binary complex | | Descriptor: | 1,2-ETHANEDIOL, BROMIDE ION, CHLORIDE ION, ... | | Authors: | Nakagawa, R, Takeda, N.S, Tomita, A, Hirano, H, Kusakizako, T, Nishizawa, T, Yamashita, K, Nishimasu, H, Nureki, O. | | Deposit date: | 2021-10-29 | | Release date: | 2022-08-24 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (1.89 Å) | | Cite: | Structure and engineering of the minimal type VI CRISPR-Cas13bt3.
Mol.Cell, 82, 2022
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3W37
 | | Sugar beet alpha-glucosidase with acarbose | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, ... | | Authors: | Tagami, T, Yamashita, K, Okuyama, M, Mori, H, Yao, M, Kimura, A. | | Deposit date: | 2012-12-13 | | Release date: | 2013-05-29 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Molecular basis for the recognition of long-chain substrates by plant & alpha-glucosidase
J.Biol.Chem., 288, 2013
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3W38
 | | Sugar beet alpha-glucosidase | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Alpha-glucosidase, SULFATE ION, ... | | Authors: | Tagami, T, Yamashita, K, Okuyama, M, Mori, H, Yao, M, Kimura, A. | | Deposit date: | 2012-12-13 | | Release date: | 2013-05-29 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (2.79 Å) | | Cite: | Molecular basis for the recognition of long-chain substrates by plant & alpha-glucosidase
J.Biol.Chem., 288, 2013
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3WEO
 | | Sugar beet alpha-glucosidase with acarviosyl-maltohexaose | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, ... | | Authors: | Tagami, T, Yamashita, K, Okuyama, M, Mori, H, Yao, M, Kimura, A. | | Deposit date: | 2013-07-09 | | Release date: | 2014-07-16 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.45 Å) | | Cite: | Structural advantage of sugar beet alpha-glucosidase to stabilize the Michaelis complex with long-chain substrate
J.Biol.Chem., 290, 2014
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3WEM
 | | Sugar beet alpha-glucosidase with acarviosyl-maltotetraose | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, Alpha-glucosidase, ... | | Authors: | Tagami, T, Yamashita, K, Okuyama, M, Mori, H, Yao, M, Kimura, A. | | Deposit date: | 2013-07-09 | | Release date: | 2014-07-16 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.591 Å) | | Cite: | Structural advantage of sugar beet alpha-glucosidase to stabilize the Michaelis complex with long-chain substrate
J.Biol.Chem., 290, 2014
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3WEL
 | | Sugar beet alpha-glucosidase with acarviosyl-maltotriose | | Descriptor: | 4,6-dideoxy-4-{[(1S,4R,5S,6S)-4,5,6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, Alpha-glucosidase, GLYCEROL, ... | | Authors: | Tagami, T, Yamashita, K, Okuyama, M, Mori, H, Yao, M, Kimura, A. | | Deposit date: | 2013-07-08 | | Release date: | 2014-07-16 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.84 Å) | | Cite: | Structural advantage of sugar beet alpha-glucosidase to stabilize the Michaelis complex with long-chain substrate
J.Biol.Chem., 290, 2014
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