8GSR
 
 | | Crystal structure of L-2,4-diketo-3-deoxyrhamnonate hydrolase from Sphingomonas sp. (apo-form) | | Descriptor: | L-2,4-diketo-3-deoxyrhamnonate hydrolase, MAGNESIUM ION | | Authors: | Fukuhara, S, Watanabe, Y, Watanabe, S, Nishiwaki, H. | | Deposit date: | 2022-09-07 | | Release date: | 2023-02-08 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (1.73 Å) | | Cite: | Crystal Structure of l-2,4-Diketo-3-deoxyrhamnonate Hydrolase Involved in the Nonphosphorylated l-Rhamnose Pathway from Bacteria.
Biochemistry, 62, 2023
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6ZEC
 | | Crystal Structure of the Fab Fragment of a Glycosylated Lymphoma Antibody | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Fab fragment heavy chain, Fab fragment light chain, ... | | Authors: | Allen, J.D, Watanabe, Y, Crispin, M, Bowden, T.A. | | Deposit date: | 2020-06-16 | | Release date: | 2021-06-30 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (1.65 Å) | | Cite: | Insertion of atypical glycans into the tumor antigen-binding site identifies DLBCLs with distinct origin and behavior.
Blood, 138, 2021
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6HJ4
 | | Crystal structure of Whitewater Arroyo virus GP1 glycoprotein at pH 7.5 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CADMIUM ION, Pre-glycoprotein polyprotein GP complex | | Authors: | Pryce, R, Ng, W.M, Zeltina, A, Watanabe, Y, El Omari, K, Wagner, A, Bowden, T.A. | | Deposit date: | 2018-08-31 | | Release date: | 2018-10-10 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (2.43 Å) | | Cite: | Structure-Based Classification Defines the Discrete Conformational Classes Adopted by the Arenaviral GP1.
J. Virol., 93, 2019
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1QVR
 | | Crystal Structure Analysis of ClpB | | Descriptor: | ClpB protein, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, PLATINUM (II) ION | | Authors: | Lee, S, Sowa, M.E, Watanabe, Y, Sigler, P.B, Chiu, W, Yoshida, M, Tsai, F.T.F. | | Deposit date: | 2003-08-28 | | Release date: | 2003-10-21 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | The Structure of ClpB: A Molecular Chaperone that Rescues Proteins from an Aggregated State
Cell(Cambridge,Mass.), 115, 2003
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7Y9P
 | | Xylitol dehydrogenase S96C/S99C/Y102C mutant(thermostabilized form) from Pichia stipitis | | Descriptor: | DI(HYDROXYETHYL)ETHER, GLYCEROL, SULFATE ION, ... | | Authors: | Yoshiwara, K, Watanabe, Y, Watanabe, S. | | Deposit date: | 2022-06-25 | | Release date: | 2023-02-15 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Molecular evolutionary insight of structural zinc atom in yeast xylitol dehydrogenases and its application in bioethanol production by lignocellulosic biomass.
Sci Rep, 13, 2023
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5X2H
 | | Crystal structure of Campylobacter jejuni Cas9 in complex with sgRNA and target DNA (AGAAACA PAM) | | Descriptor: | 1,2-ETHANEDIOL, CRISPR-associated endonuclease Cas9, Non-target DNA strand, ... | | Authors: | Yamada, M, Watanabe, Y, Hirano, H, Nakane, T, Ishitani, R, Nishimasu, H, Nureki, O. | | Deposit date: | 2017-01-31 | | Release date: | 2017-03-29 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Crystal Structure of the Minimal Cas9 from Campylobacter jejuni Reveals the Molecular Diversity in the CRISPR-Cas9 Systems
Mol. Cell, 65, 2017
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5X2G
 | | Crystal structure of Campylobacter jejuni Cas9 in complex with sgRNA and target DNA (AGAAACC PAM) | | Descriptor: | 1,2-ETHANEDIOL, CRISPR-associated endonuclease Cas9, Non-target DNA strand, ... | | Authors: | Yamada, M, Watanabe, Y, Hirano, H, Nakane, T, Ishitani, R, Nishimasu, H, Nureki, O. | | Deposit date: | 2017-01-31 | | Release date: | 2017-03-29 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Crystal Structure of the Minimal Cas9 from Campylobacter jejuni Reveals the Molecular Diversity in the CRISPR-Cas9 Systems
Mol. Cell, 65, 2017
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7B81
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7WWX
 | | Crystal structure of Herbaspirillum huttiense L-arabinose 1-dehydrogenase (NAD bound form) | | Descriptor: | DI(HYDROXYETHYL)ETHER, NAD(P)-dependent dehydrogenase (Short-subunit alcohol dehydrogenase family), NICOTINAMIDE-ADENINE-DINUCLEOTIDE | | Authors: | Matsubara, R, Yoshiwara, K, Watanabe, Y, Watanabe, S. | | Deposit date: | 2022-02-14 | | Release date: | 2022-03-30 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.36 Å) | | Cite: | Crystal structure of L-arabinose 1-dehydrogenase as a short-chain reductase/dehydrogenase protein.
Biochem.Biophys.Res.Commun., 604, 2022
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5CZU
 | | Crystal structure of FeCat-Fn | | Descriptor: | CADMIUM ION, FE (III) ION, Ferritin light chain, ... | | Authors: | Abe, S, Nakajima, H, Kondo, M, Nakane, T, Nakao, T, Ueno, T, Watanabe, Y. | | Deposit date: | 2015-08-01 | | Release date: | 2015-11-18 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Construction of an enterobactin analogue with symmetrically arranged monomer subunits of ferritin
Chem.Commun.(Camb.), 51, 2015
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6MUI
 | | CryoEM structure of chimeric Eastern Equine Encephalitis Virus with Fab of EEEV-42 antibody | | Descriptor: | E1, E2, EEEV-42 antibody heavy chain, ... | | Authors: | Hasan, S.S, Sun, C, Kim, A.S, Watanabe, Y, Chen, C.L, Klose, T, Buda, G, Crispin, M, Diamond, M.S, Klimstra, W.B, Rossmann, M.G. | | Deposit date: | 2018-10-23 | | Release date: | 2018-12-19 | | Last modified: | 2019-12-18 | | Method: | ELECTRON MICROSCOPY (7.7 Å) | | Cite: | Cryo-EM Structures of Eastern Equine Encephalitis Virus Reveal Mechanisms of Virus Disassembly and Antibody Neutralization.
Cell Rep, 25, 2018
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6MWV
 | | CryoEM structure of Chimeric Eastern Equine Encephalitis Virus with Fab of EEEV-58 Antibody | | Descriptor: | E1, E2, EEEV-58 antibody heavy chain, ... | | Authors: | Hasan, S.S, Sun, C, Kim, A.S, Watanabe, Y, Chen, C.L, Klose, T, Buda, G, Crispin, M, Diamond, M.S, Klimstra, W.B, Rossmann, M.G. | | Deposit date: | 2018-10-30 | | Release date: | 2018-12-19 | | Last modified: | 2019-12-18 | | Method: | ELECTRON MICROSCOPY (7.3 Å) | | Cite: | Cryo-EM Structures of Eastern Equine Encephalitis Virus Reveal Mechanisms of Virus Disassembly and Antibody Neutralization.
Cell Rep, 25, 2018
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6MWC
 | | CryoEM structure of chimeric Eastern Equine Encephalitis Virus with Fab of EEEV-5 antibody | | Descriptor: | E1, E2, EEEV-5 antibody heavy chain, ... | | Authors: | Hasan, S.S, Sun, C, Kim, A.S, Watanabe, Y, Chen, C.L, Klose, T, Buda, G, Crispin, M, Diamond, M.S, Klimstra, W.B, Rossmann, M.G. | | Deposit date: | 2018-10-29 | | Release date: | 2018-12-19 | | Last modified: | 2019-12-18 | | Method: | ELECTRON MICROSCOPY (7.5 Å) | | Cite: | Cryo-EM Structures of Eastern Equine Encephalitis Virus Reveal Mechanisms of Virus Disassembly and Antibody Neutralization.
Cell Rep, 25, 2018
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1D8J
 | | SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA | | Descriptor: | GENERAL TRANSCRIPTION FACTOR TFIIE-BETA | | Authors: | Okuda, M, Watanabe, Y, Okamura, H, Hanaoka, F, Ohkuma, Y, Nishimura, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 1999-10-25 | | Release date: | 2000-04-26 | | Last modified: | 2024-05-22 | | Method: | SOLUTION NMR | | Cite: | Structure of the central core domain of TFIIEbeta with a novel double-stranded DNA-binding surface.
EMBO J., 19, 2000
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6MW9
 | | CryoEM structure of chimeric Eastern Equine Encephalitis Virus with Fab of EEEV-3 antibody | | Descriptor: | E1, E2, EEEV-3 antibody heavy chain, ... | | Authors: | Hasan, S.S, Sun, C, Kim, A.S, Watanabe, Y, Chen, C.L, Klose, T, Buda, G, Crispin, M, Diamond, M.S, Klimstra, W.B, Rossmann, M.G. | | Deposit date: | 2018-10-29 | | Release date: | 2018-12-19 | | Last modified: | 2024-10-23 | | Method: | ELECTRON MICROSCOPY (7.3 Å) | | Cite: | Cryo-EM Structures of Eastern Equine Encephalitis Virus Reveal Mechanisms of Virus Disassembly and Antibody Neutralization.
Cell Rep, 25, 2018
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6MWX
 | | CryoEM structure of Chimeric Eastern Equine Encephalitis Virus with Fab of EEEV-69 Antibody | | Descriptor: | E1, E2, EEEV-69 antibody heavy chain, ... | | Authors: | Hasan, S.S, Sun, C, Kim, A.S, Watanabe, Y, Chen, C.L, Klose, T, Buda, G, Crispin, M, Diamond, M.S, Klimstra, W.B, Rossmann, M.G. | | Deposit date: | 2018-10-30 | | Release date: | 2018-12-19 | | Last modified: | 2024-10-16 | | Method: | ELECTRON MICROSCOPY (8.2 Å) | | Cite: | Cryo-EM Structures of Eastern Equine Encephalitis Virus Reveal Mechanisms of Virus Disassembly and Antibody Neutralization.
Cell Rep, 25, 2018
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6MX7
 | | CryoEM structure of chimeric Eastern Equine Encephalitis Virus: Genome-Binding Capsid N-terminal Domain | | Descriptor: | Capsid | | Authors: | Hasan, S.S, Sun, C, Kim, A.S, Watanabe, Y, Chen, C.L, Klose, T, Buda, G, Crispin, M, Diamond, M.S, Klimstra, W.B, Rossmann, M.G. | | Deposit date: | 2018-10-30 | | Release date: | 2018-12-19 | | Last modified: | 2024-03-13 | | Method: | ELECTRON MICROSCOPY (4.8 Å) | | Cite: | Cryo-EM Structures of Eastern Equine Encephalitis Virus Reveal Mechanisms of Virus Disassembly and Antibody Neutralization.
Cell Rep, 25, 2018
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6MX4
 | | CryoEM structure of chimeric Eastern Equine Encephalitis Virus | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Capsid, ... | | Authors: | Hasan, S.S, Sun, C, Kim, A.S, Watanabe, Y, Chen, C.L, Klose, T, Buda, G, Crispin, M, Diamond, M.S, Klimstra, W.B, Rossmann, M.G. | | Deposit date: | 2018-10-30 | | Release date: | 2018-12-19 | | Last modified: | 2024-10-23 | | Method: | ELECTRON MICROSCOPY (4.4 Å) | | Cite: | Cryo-EM Structures of Eastern Equine Encephalitis Virus Reveal Mechanisms of Virus Disassembly and Antibody Neutralization.
Cell Rep, 25, 2018
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2NLI
 | | Crystal Structure of the complex between L-lactate oxidase and a substrate analogue at 1.59 angstrom resolution | | Descriptor: | FLAVIN MONONUCLEOTIDE, HYDROGEN PEROXIDE, LACTIC ACID, ... | | Authors: | Furuichi, M, Suzuki, N, Balasundaresan, D, Yoshida, Y, Minagawa, H, Watanabe, Y, Kaneko, H, Waga, I, Kumar, P.K.R, Mizuno, H. | | Deposit date: | 2006-10-20 | | Release date: | 2007-10-23 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (1.59 Å) | | Cite: | X-ray structures of Aerococcus viridans lactate oxidase and its complex with D-lactate at pH 4.5 show an alpha-hydroxyacid oxidation mechanism
J.Mol.Biol., 378, 2008
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7ARN
 | | Crystal Structure of the Fab Fragment of a Glycosylated Lymphoma Antibody | | Descriptor: | Antibody Fab Fragment Heavy Chain, Antibody Fab Fragment Light Chain, GLYCEROL, ... | | Authors: | Pryce, R, Allen, J.D, Watanabe, Y, Crispin, M, Bowden, T.A. | | Deposit date: | 2020-10-25 | | Release date: | 2021-11-03 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (1.57 Å) | | Cite: | Crystal Structure of the Fab Fragment of a Glycosylated Lymphoma Antibody
To Be Published
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1D8K
 | | SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA | | Descriptor: | GENERAL TRANSCRIPTION FACTOR TFIIE-BETA | | Authors: | Okuda, M, Watanabe, Y, Okamura, H, Hanaoka, F, Ohkuma, Y, Nishimura, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 1999-10-25 | | Release date: | 2000-04-26 | | Last modified: | 2024-05-22 | | Method: | SOLUTION NMR | | Cite: | Structure of the central core domain of TFIIEbeta with a novel double-stranded DNA-binding surface.
EMBO J., 19, 2000
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3H7G
 | | Apo-FR with AU ions | | Descriptor: | CADMIUM ION, Ferritin light chain, GLYCEROL, ... | | Authors: | Abe, M, Ueno, T, Abe, S, Suzuki, M, Goto, T, Toda, Y, Akita, T, Yamada, Y, Watanabe, Y. | | Deposit date: | 2009-04-27 | | Release date: | 2009-09-15 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.65 Å) | | Cite: | Preparation and catalytic reaction of Au/Pd bimetallic nanoparticles in apo-ferritin
Chem.Commun.(Camb.), 32, 2009
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7YAX
 | | HYDROXYNITRILE LYASE FROM THE MILLIPEDE, | | Descriptor: | CHLORIDE ION, Hydroxynitrile lyase, SULFATE ION | | Authors: | Chaikaew, S, Watanabe, Y, Zheng, D, Motojima, F, Asano, Y. | | Deposit date: | 2022-06-28 | | Release date: | 2024-01-17 | | Last modified: | 2024-06-19 | | Method: | X-RAY DIFFRACTION (2.01 Å) | | Cite: | Structure-Based Site-Directed Mutagenesis of Hydroxynitrile Lyase from Cyanogenic Millipede, Oxidus gracilis for Hydrocyanation and Henry Reactions.
Chembiochem, 25, 2024
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7YCT
 | | HYDROXYNITRILE LYASE FROM THE MILLIPEDE, Oxidus gracilis complexed with (R)-2-Chloromandelonitrile | | Descriptor: | (2~{R})-2-(2-chlorophenyl)-2-oxidanyl-ethanenitrile, GLYCEROL, Hydroxynitrile lyase, ... | | Authors: | Chaikaew, S, Watanabe, Y, Zheng, D, Motojima, F, Asano, Y. | | Deposit date: | 2022-07-01 | | Release date: | 2024-01-24 | | Last modified: | 2024-06-19 | | Method: | X-RAY DIFFRACTION (2.01 Å) | | Cite: | Structure-Based Site-Directed Mutagenesis of Hydroxynitrile Lyase from Cyanogenic Millipede, Oxidus gracilis for Hydrocyanation and Henry Reactions.
Chembiochem, 25, 2024
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7YCD
 | | HYDROXYNITRILE LYASE FROM THE MILLIPEDE, Oxidus gracilis bound with (R)-(+)-ALPHA-HYDROXYBENZENE-ACETONITRILE | | Descriptor: | (2R)-hydroxy(phenyl)ethanenitrile, Hydroxynitrile lyase, SULFATE ION | | Authors: | Chaikaew, S, Watanabe, Y, Zheng, D, Motojima, F, Asano, Y. | | Deposit date: | 2022-07-01 | | Release date: | 2024-01-24 | | Last modified: | 2024-06-19 | | Method: | X-RAY DIFFRACTION (2.01 Å) | | Cite: | Structure-Based Site-Directed Mutagenesis of Hydroxynitrile Lyase from Cyanogenic Millipede, Oxidus gracilis for Hydrocyanation and Henry Reactions.
Chembiochem, 25, 2024
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