4YNU
| Crystal structure of Aspergillus flavus FADGDH in complex with D-glucono-1,5-lactone | Descriptor: | D-glucono-1,5-lactone, FLAVIN-ADENINE DINUCLEOTIDE, Glucose oxidase, ... | Authors: | Yoshida, H, Sakai, G, Kojima, K, Kamitori, S, Sode, K. | Deposit date: | 2015-03-11 | Release date: | 2015-09-02 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.57 Å) | Cite: | Structural analysis of fungus-derived FAD glucose dehydrogenase Sci Rep, 5, 2015
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6A2U
| Crystal structure of gamma-alpha subunit complex from Burkholderia cepacia FAD glucose dehydrogenase | Descriptor: | FE3-S4 CLUSTER, FLAVIN-ADENINE DINUCLEOTIDE, Glucose dehydrogenase, ... | Authors: | Yoshida, H, Kojima, K, Yoshimatsu, K, Shiota, M, Yamazaki, T, Ferri, S, Tsugawa, W, Kamitori, S, Sode, K. | Deposit date: | 2018-06-13 | Release date: | 2019-06-19 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | X-ray structure of the direct electron transfer-type FAD glucose dehydrogenase catalytic subunit complexed with a hitchhiker protein. Acta Crystallogr D Struct Biol, 75, 2019
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4YTT
| Crystal structure of D-tagatose 3-epimerase C66S from Pseudomonas cichorii in complex with 6-deoxy L-psicose | Descriptor: | 6-deoxy-L-psicose, 6-deoxy-alpha-L-psicofuranose, D-tagatose 3-epimerase, ... | Authors: | Yoshida, H, Yoshihara, A, Ishii, T, Izumori, K, Kamitori, S. | Deposit date: | 2015-03-18 | Release date: | 2016-03-23 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | X-ray structures of the Pseudomonas cichorii D-tagatose 3-epimerase mutant form C66S recognizing deoxy sugars as substrates Appl. Microbiol. Biotechnol., 100, 2016
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4FQZ
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5XAO
| Crystal structure of Phaeospaeria nodrum fructosyl peptide oxidase mutant Asn56Ala in complexes with sodium and chloride ions | Descriptor: | ACETIC ACID, CHLORIDE ION, FLAVIN-ADENINE DINUCLEOTIDE, ... | Authors: | Yoshida, H, Kamitori, S, Sode, K. | Deposit date: | 2017-03-14 | Release date: | 2017-06-28 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | X-ray structures of fructosyl peptide oxidases revealing residues responsible for gating oxygen access in the oxidative half reaction Sci Rep, 7, 2017
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4YNT
| Crystal structure of Aspergillus flavus FAD glucose dehydrogenase | Descriptor: | DIHYDROFLAVINE-ADENINE DINUCLEOTIDE, Glucose oxidase, putative | Authors: | Yoshida, H, Sakai, G, Kojima, K, Kamitori, S, Sode, K. | Deposit date: | 2015-03-11 | Release date: | 2015-09-02 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.78 Å) | Cite: | Structural analysis of fungus-derived FAD glucose dehydrogenase Sci Rep, 5, 2015
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2E6K
| X-ray structure of Thermus thermopilus HB8 TT0505 | Descriptor: | Transketolase | Authors: | Yoshida, H, Kamitori, S, Agari, Y, Iino, H, Kanagawa, M, Nakagawa, N, Ebihara, A, Kuramitsu, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2006-12-27 | Release date: | 2007-11-13 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.09 Å) | Cite: | X-ray structure of Thermus thermophilus HB8 TT0505 To be Published
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6M73
| Crystal structure of Enterococcus hirae L-lactate oxidase in complex with D-lactate form ligand | Descriptor: | 1,2-ETHANEDIOL, 1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ... | Authors: | Yoshida, H, Hiraka, K, Tsugawa, W, Sode, K. | Deposit date: | 2020-03-16 | Release date: | 2021-03-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structure of lactate oxidase from Enterococcus hirae revealed new aspects of active site loop function: Product-inhibition mechanism and oxygen gatekeeper Protein Sci., 31, 2022
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6M74
| Crystal structure of Enterococcus hirae L-lactate oxidase M207L in complex with D-lactate form ligand | Descriptor: | 1,2-ETHANEDIOL, 1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ... | Authors: | Yoshida, H, Hiraka, K, Tsugawa, W, Sode, K. | Deposit date: | 2020-03-16 | Release date: | 2021-03-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.52 Å) | Cite: | Structure of lactate oxidase from Enterococcus hirae revealed new aspects of active site loop function: Product-inhibition mechanism and oxygen gatekeeper Protein Sci., 31, 2022
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7C08
| Crystal structure of S34Y mutant of yeast U2AF1 complex bound to 3' splice site RNA, 5'-UAGGU. | Descriptor: | RNA (5'-R(*U*UP*AP*GP*GP*U)-3'), Splicing factor U2AF 23 kDa subunit, Splicing factor U2AF 59 kDa subunit, ... | Authors: | Yoshida, H, Park, S.Y, Urano, T, Obayashi, E. | Deposit date: | 2020-04-30 | Release date: | 2020-09-30 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3.35 Å) | Cite: | Elucidation of the aberrant 3' splice site selection by cancer-associated mutations on the U2AF1. Nat Commun, 11, 2020
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7C07
| Crystal structure of yeast U2AF1 complex bound to 5'-AAGGU RNA. | Descriptor: | RNA (5'-R(*U*AP*AP*GP*GP*U)-3'), Splicing factor U2AF 23 kDa subunit, Splicing factor U2AF 59 kDa subunit, ... | Authors: | Yoshida, H, Park, S.Y, Urano, T, Obayashi, E. | Deposit date: | 2020-04-30 | Release date: | 2020-09-30 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Elucidation of the aberrant 3' splice site selection by cancer-associated mutations on the U2AF1. Nat Commun, 11, 2020
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7CJ4
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7CJ9
| Crystal structure of N-terminal His-tagged D-allulose 3-epimerase from Methylomonas sp. with additional C-terminal residues | Descriptor: | 1,2-ETHANEDIOL, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, D-fructose, ... | Authors: | Yoshida, H, Yoshihara, A, Kamitori, S. | Deposit date: | 2020-07-09 | Release date: | 2021-04-21 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.58 Å) | Cite: | Crystal structure of a novel homodimeric l-ribulose 3-epimerase from Methylomonus sp. Febs Open Bio, 11, 2021
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7CJ7
| Crystal structure of homo dimeric D-allulose 3-epimerase from Methylomonas sp. in complex with L-tagatose | Descriptor: | (2R,3R,4R,5S)-2-(hydroxymethyl)oxane-2,3,4,5-tetrol, Epimerase, L-sorbose, ... | Authors: | Yoshida, H, Yoshihara, A, Kamitori, S. | Deposit date: | 2020-07-09 | Release date: | 2021-04-21 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.695 Å) | Cite: | Crystal structure of a novel homodimeric l-ribulose 3-epimerase from Methylomonus sp. Febs Open Bio, 11, 2021
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7CJ6
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7CJ8
| Crystal structure of N-terminal His-tagged D-allulose 3-epimerase from Methylomonas sp. in complex with D-allulose | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, D-psicose, Epimerase, ... | Authors: | Yoshida, H, Yoshihara, A, Kamitori, S. | Deposit date: | 2020-07-09 | Release date: | 2021-04-21 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Crystal structure of a novel homodimeric l-ribulose 3-epimerase from Methylomonus sp. Febs Open Bio, 11, 2021
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7CJ5
| Crystal structure of homo dimeric D-allulose 3-epimerase from Methylomonas sp. in complex with D-fructose | Descriptor: | D-fructose, Epimerase, MAGNESIUM ION, ... | Authors: | Yoshida, H, Yoshihara, A, Kamitori, S. | Deposit date: | 2020-07-09 | Release date: | 2021-04-28 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structure of a novel homodimeric l-ribulose 3-epimerase from Methylomonus sp. Febs Open Bio, 11, 2021
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7C06
| Crystal structure of yeast U2AF1 complex bound to 3' splice site RNA, 5'-UAGGU. | Descriptor: | RNA (5'-R(*U*UP*AP*GP*GP*U)-3'), Splicing factor U2AF 23 kDa subunit, Splicing factor U2AF 59 kDa subunit, ... | Authors: | Yoshida, H, Park, S.Y, Urano, T, Obayashi, E. | Deposit date: | 2020-04-30 | Release date: | 2020-09-30 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3.02 Å) | Cite: | Elucidation of the aberrant 3' splice site selection by cancer-associated mutations on the U2AF1. Nat Commun, 11, 2020
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2HCV
| Crystal structure of L-rhamnose isomerase from Pseudomonas stutzeri with metal ion | Descriptor: | L-rhamnose isomerase, ZINC ION | Authors: | Yoshida, H, Yamada, M, Takada, G, Izumori, K, Kamitori, S. | Deposit date: | 2006-06-19 | Release date: | 2006-12-19 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | The Structures of l-Rhamnose Isomerase from Pseudomonas stutzeri in Complexes with l-Rhamnose and d-Allose Provide Insights into Broad Substrate Specificity J.Mol.Biol., 365, 2007
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2I56
| Crystal structure of L-Rhamnose Isomerase from Pseudomonas stutzeri with L-Rhamnose | Descriptor: | L-RHAMNOSE, L-rhamnose isomerase, ZINC ION | Authors: | Yoshida, H, Yamada, M, Takada, G, Izumori, K, Kamitori, S. | Deposit date: | 2006-08-24 | Release date: | 2006-12-19 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.97 Å) | Cite: | The Structures of l-Rhamnose Isomerase from Pseudomonas stutzeri in Complexes with l-Rhamnose and d-Allose Provide Insights into Broad Substrate Specificity J.Mol.Biol., 365, 2007
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3VSK
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3VKM
| Protease-resistant mutant form of Human Galectin-8 in complex with sialyllactose and lactose | Descriptor: | 1,2-ETHANEDIOL, Galectin-8, N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose, ... | Authors: | Yoshida, H, Yamashita, S, Teraoka, M, Nakakita, S, Nishi, N, Kamitori, S. | Deposit date: | 2011-11-18 | Release date: | 2012-09-12 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.98 Å) | Cite: | X-ray structure of a protease-resistant mutant form of human galectin-8 with two carbohydrate recognition domains Febs J., 279, 2012
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3VSL
| Crystal structure of penicillin-binding protein 3 (PBP3) from methicilin-resistant Staphylococcus aureus in the cefotaxime bound form. | Descriptor: | CEFOTAXIME, C3' cleaved, open, ... | Authors: | Yoshida, H, Tame, J.R, Park, S.Y. | Deposit date: | 2012-04-25 | Release date: | 2012-10-31 | Last modified: | 2017-03-15 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Crystal Structures of Penicillin-Binding Protein 3 (PBP3) from Methicillin-Resistant Staphylococcus aureus in the Apo and Cefotaxime-Bound Forms. J.Mol.Biol., 423, 2012
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3WV6
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7FCI
| human NTCP in complex with YN69083 Fab | Descriptor: | Fab Heavy chain, Fab Light chain, Sodium/bile acid cotransporter | Authors: | Park, J.H, Iwamoto, M, Yun, J.H, Uchikubo-Kamo, T, Son, D, Jin, Z, Yoshida, H, Ohki, M, Ishimoto, N, Mizutani, K, Oshima, M, Muramatsu, M, Wakita, T, Shirouzu, M, Liu, K, Uemura, T, Nomura, N, Iwata, S, Watashi, K, Tame, J.R.H, Nishizawa, T, Lee, W, Park, S.Y. | Deposit date: | 2021-07-14 | Release date: | 2022-05-25 | Last modified: | 2022-07-13 | Method: | ELECTRON MICROSCOPY (3.3 Å) | Cite: | Structural insights into the HBV receptor and bile acid transporter NTCP. Nature, 606, 2022
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