8W96
 
 | | SmChiA with diacetyl chitobiose | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Chitinase A, GLYCEROL | | Authors: | Tanaka, Y, Nakamura, A. | | Deposit date: | 2023-09-04 | | Release date: | 2024-09-04 | | Last modified: | 2025-03-19 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Product inhibition slow down the moving velocity of processive chitinase and sliding-intermediate state blocks re-binding of product.
Arch.Biochem.Biophys., 752, 2024
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3K8U
 | | Crystal Structure of the Peptidase Domain of Streptococcus ComA, a Bi-functional ABC Transporter Involved in Quorum Sensing Pathway | | Descriptor: | Putative ABC transporter, ATP-binding protein ComA | | Authors: | Ishii, S, Yano, T, Ebihara, A, Okamoto, A, Manzoku, M, Hayashi, H. | | Deposit date: | 2009-10-14 | | Release date: | 2010-02-23 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of the peptidase domain of Streptococcus ComA, a bifunctional ATP-binding cassette transporter involved in the quorum-sensing pathway
J.Biol.Chem., 285, 2010
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5DNV
 | | Crystal structure of KAI2-like protein from Striga (apo state 2) | | Descriptor: | BENZOIC ACID, FORMIC ACID, ShKAI2iB | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2015-09-10 | | Release date: | 2016-08-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.65 Å) | | Cite: | Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
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5GMT
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5DNW
 | | Crystal structure of KAI2-like protein from Striga (apo state 1) | | Descriptor: | 1,2-ETHANEDIOL, FORMIC ACID, SODIUM ION, ... | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2015-09-10 | | Release date: | 2016-08-17 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.02 Å) | | Cite: | Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
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5DNU
 | | Crystal structure of Striga KAI2-like protein in complex with karrikin | | Descriptor: | 1,2-ETHANEDIOL, 3-methyl-2H-furo[2,3-c]pyran-2-one, BENZOIC ACID, ... | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2015-09-10 | | Release date: | 2016-08-17 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.2 Å) | | Cite: | Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
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5Z7Y
 | | Crystal structure of Striga hermonthica HTL7 (ShHTL7) | | Descriptor: | 1,2-ETHANEDIOL, 1,4-DIETHYLENE DIOXIDE, Hyposensitive to light 7, ... | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2018-01-30 | | Release date: | 2018-08-29 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
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5Z7Z
 | | Crystal structure of Striga hermonthica Dwarf14 (ShD14) | | Descriptor: | 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, Dwarf 14, ... | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2018-01-30 | | Release date: | 2018-08-29 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.978 Å) | | Cite: | Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
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5Z7X
 | | Crystal structure of Striga hermonthica HTL4 (ShHTL4) | | Descriptor: | 1,2-ETHANEDIOL, Hyposensitive to light 4, MAGNESIUM ION | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2018-01-30 | | Release date: | 2018-08-29 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.055 Å) | | Cite: | Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
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8Y8P
 | | Cryo-EM structure of AQP3 Y212F in POPC nanodisc | | Descriptor: | Aquaporin-3 | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (2.9 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8Q
 | | Cryo-EM structure of AQP3 Y212T in POPC nanodisc | | Descriptor: | Aquaporin-3 | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (2.67 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8N
 | | Cryo-EM structure of AQP3 in DDM micelle | | Descriptor: | Aquaporin-3 | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-06-25 | | Method: | ELECTRON MICROSCOPY (3.12 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8X
 | | Cryo-EM structure of GlpF with P177 deletion in POPC nanodisc | | Descriptor: | Glycerol uptake facilitator protein | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (2.26 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8S
 | | Cryo-EM structure of AQP3 in DMPC nanodisc | | Descriptor: | Aquaporin-3 | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (3.03 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8R
 | | Cryo-EM structure of AQP3 Y212T in DDM micelle | | Descriptor: | Aquaporin-3, DODECYL-BETA-D-MALTOSIDE | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (3.39 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8W
 | | Cryo-EM structure of GlpF in POPC nanodisc | | Descriptor: | Glycerol uptake facilitator protein | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-06-25 | | Method: | ELECTRON MICROSCOPY (2.43 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8V
 | | Cryo-EM structure of AQP7 in POPC nanodisc | | Descriptor: | Green fluorescent protein,Aquaporin-7, O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyosh, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-06-25 | | Method: | ELECTRON MICROSCOPY (2.49 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8Y8O
 | | Cryo-EM structure of AQP3 in POPC nanodisc | | Descriptor: | Aquaporin-3 | | Authors: | Kozai, D, Suzuki, S, Kamegawa, A, Nishikawa, K, Suzuki, H, Fujiyoshi, Y. | | Deposit date: | 2024-02-06 | | Release date: | 2025-03-19 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (2.94 Å) | | Cite: | Narrowed pore conformations of aquaglyceroporins AQP3 and GlpF.
Nat Commun, 16, 2025
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8JT7
 | | Structure of arginine oxidase from Pseudomonas sp. TRU 7192 | | Descriptor: | Amine oxidoreductase, FLAVIN-ADENINE DINUCLEOTIDE | | Authors: | Yamaguchi, H, Numoto, N, Suzuki, H, Nishikawa, K, Kamegawa, A, Takahashi, K, Sugiki, M, Fujiyoshi, Y. | | Deposit date: | 2023-06-21 | | Release date: | 2024-06-26 | | Last modified: | 2025-01-15 | | Method: | ELECTRON MICROSCOPY (2.34 Å) | | Cite: | Open and closed structures of L-arginine oxidase by cryo-electron microscopy and X-ray crystallography.
J.Biochem., 177, 2025
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8ZVO
 | | AtKAI2 apo structure | | Descriptor: | GLYCEROL, Probable esterase KAI2, SULFATE ION | | Authors: | Takegamie, K, Takeuchi, J, Nakamura, A. | | Deposit date: | 2024-06-11 | | Release date: | 2025-02-19 | | Last modified: | 2025-03-05 | | Method: | X-RAY DIFFRACTION (1.49 Å) | | Cite: | Structural requirements of KAI2 ligands for activation of signal transduction.
Proc.Natl.Acad.Sci.USA, 122, 2025
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8ZVN
 | | AtKAI2 (+)-6'-carba-dMGer complex | | Descriptor: | (2~{S})-2-[(2-nitro-4-phenyl-phenyl)methyl]-2~{H}-furan-5-one, GLYCEROL, Probable esterase KAI2, ... | | Authors: | Takegamie, K, Kushihara, R, Takeuchi, J, Nakamura, A. | | Deposit date: | 2024-06-11 | | Release date: | 2025-02-19 | | Last modified: | 2025-03-05 | | Method: | X-RAY DIFFRACTION (2.08 Å) | | Cite: | Structural requirements of KAI2 ligands for activation of signal transduction.
Proc.Natl.Acad.Sci.USA, 122, 2025
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5Z7W
 | | Crystal structure of Striga hermonthica HTL1 (ShHTL1) | | Descriptor: | GLYCEROL, Hyposensitive to light 1, MAGNESIUM ION, ... | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2018-01-30 | | Release date: | 2018-08-29 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.657 Å) | | Cite: | Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
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9IHS
 | | Microbial transglutaminase mutant - D3C/G283C | | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Suzuki, M, Date, M, Kashiwagi, T, Takahashi, K, Nakamura, A, Tanokura, M, Suzuki, E, Yokoyama, K. | | Deposit date: | 2024-06-18 | | Release date: | 2024-09-18 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Random mutagenesis and disulfide bond formation improved thermostability in microbial transglutaminase.
Appl.Microbiol.Biotechnol., 108, 2024
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9J7I
 | | Cryo-EM Structure of calcium sensing receptor in complex gamma-glutamyl-valyl-glycine as a kokumi substance | | Descriptor: | Extracellular calcium-sensing receptor, gamma-glutamyl-valyl-glycine | | Authors: | Yamaguchi, H, Kitajima, S, Suzuki, H, Suzuki, S, Nishikawa, K, Maruyama, Y, Kamegawa, A, Kazutoshi, T, Tagami, U, Kuroda, M, Fujiyoshi, Y, Sugiki, M. | | Deposit date: | 2024-08-19 | | Release date: | 2025-02-19 | | Method: | ELECTRON MICROSCOPY (3.55 Å) | | Cite: | Cryo-EM structure of the calcium-sensing receptor complexed with the kokumi substance gamma-glutamyl-valyl-glycine.
Sci Rep, 15, 2025
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3HR0
 | | Crystal structure of Homo sapiens Conserved Oligomeric Golgi subunit 4 | | Descriptor: | CoG4 | | Authors: | Richardson, B.C, Ungar, D, Nakamura, A, Jeffrey, P.D, Hughson, F.M. | | Deposit date: | 2009-06-08 | | Release date: | 2009-07-21 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structural basis for a human glycosylation disorder caused by mutation of the COG4 gene.
Proc.Natl.Acad.Sci.USA, 106, 2009
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