4WH2
| N-acetylhexosamine 1-kinase in complex with ADP | Descriptor: | ACETIC ACID, ADENOSINE-5'-DIPHOSPHATE, GLYCEROL, ... | Authors: | Sato, M, Arakawa, T, Nam, Y.W, Nishimoto, M, Kitaoka, M, Fushinobu, S. | Deposit date: | 2014-09-19 | Release date: | 2015-02-18 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.847 Å) | Cite: | Open-close structural change upon ligand binding and two magnesium ions required for the catalysis of N-acetylhexosamine 1-kinase Biochim.Biophys.Acta, 1854, 2015
|
|
4WH1
| N-Acetylhexosamine 1-kinase (ligand free) | Descriptor: | ACETIC ACID, GLYCEROL, N-acetylhexosamine 1-kinase | Authors: | Sato, M, Arakawa, T, Nam, Y.W, Nishimoto, M, Kitaoka, M, Fushinobu, S. | Deposit date: | 2014-09-19 | Release date: | 2015-02-11 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Open-close structural change upon ligand binding and two magnesium ions required for the catalysis of N-acetylhexosamine 1-kinase Biochim.Biophys.Acta, 1854, 2015
|
|
4WH3
| N-acetylhexosamine 1-kinase in complex with ATP | Descriptor: | ACETIC ACID, ADENOSINE-5'-TRIPHOSPHATE, GLYCEROL, ... | Authors: | Sato, M, Arakawa, T, Nam, Y.W, Nishimoto, M, Kitaoka, M, Fushinobu, S. | Deposit date: | 2014-09-19 | Release date: | 2015-02-18 | Last modified: | 2020-02-05 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Open-close structural change upon ligand binding and two magnesium ions required for the catalysis of N-acetylhexosamine 1-kinase Biochim.Biophys.Acta, 1854, 2015
|
|
2DEP
| |
3WFZ
| Crystal structure of Galacto-N-Biose/Lacto-N-Biose I Phosphorylase C236Y Mutant | Descriptor: | 2-acetamido-2-deoxy-alpha-D-glucopyranose, Lacto-N-biose phosphorylase | Authors: | Koyama, Y, Hidaka, M, Kawakami, M, Nishimoto, M, Kitaoka, M. | Deposit date: | 2013-07-25 | Release date: | 2013-10-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Directed evolution to enhance thermostability of galacto-N-biose/lacto-N-biose I phosphorylase. Protein Eng.Des.Sel., 26, 2013
|
|
8IPB
| Wheat 80S ribosome pausing on AUG-Stop with cycloheximide | Descriptor: | 18S ribosomal RNA, 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione, 40S ribosomal protein eL8, ... | Authors: | Yokoyama, T, Tanaka, M, Saito, H, Nishimoto, M, Tsuda, K, Sotta, N, Shigematsu, H, Shirouzu, M, Iwasaki, S, Ito, T, Fujiwara, T. | Deposit date: | 2023-03-14 | Release date: | 2024-02-21 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (3.4 Å) | Cite: | Boric acid intercepts 80S ribosome migration from AUG-stop by stabilizing eRF1. Nat.Chem.Biol., 20, 2024
|
|
8IP8
| Wheat 80S ribosome stalled on AUG-Stop boron dependently | Descriptor: | 18S ribosomal RNA, 40S ribosomal protein eL8, 40S ribosomal protein eS1, ... | Authors: | Yokoyama, T, Tanaka, M, Saito, H, Nishimoto, M, Tsuda, K, Sotta, N, Shigematsu, H, Shirouzu, M, Iwasaki, S, Ito, T, Fujiwara, T. | Deposit date: | 2023-03-14 | Release date: | 2024-02-21 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (2.9 Å) | Cite: | Boric acid intercepts 80S ribosome migration from AUG-stop by stabilizing eRF1. Nat.Chem.Biol., 20, 2024
|
|
8IPA
| Wheat 80S ribosome stalled on AUG-Stop boron dependently with cycloheximide | Descriptor: | 18S ribosomal RNA, 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione, 40S ribosomal protein eL8, ... | Authors: | Yokoyama, T, Tanaka, M, Saito, H, Nishimoto, M, Tsuda, K, Sotta, N, Shigematsu, H, Shirouzu, M, Iwasaki, S, Ito, T, Fujiwara, T. | Deposit date: | 2023-03-14 | Release date: | 2024-02-21 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (3.4 Å) | Cite: | Boric acid intercepts 80S ribosome migration from AUG-stop by stabilizing eRF1. Nat.Chem.Biol., 20, 2024
|
|
8IP9
| Wheat 40S ribosome in complex with a tRNAi | Descriptor: | 18S ribosomal RNA, 40S ribosomal protein S23, 40S ribosomal protein eS1, ... | Authors: | Yokoyama, T, Tanaka, M, Saito, H, Nishimoto, M, Tsuda, K, Sotta, N, Shigematsu, H, Shirouzu, M, Iwasaki, S, Ito, T, Fujiwara, T. | Deposit date: | 2023-03-14 | Release date: | 2024-02-21 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (3 Å) | Cite: | Boric acid intercepts 80S ribosome migration from AUG-stop by stabilizing eRF1. Nat.Chem.Biol., 20, 2024
|
|
2CZL
| Crystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8 (Cys11 modified with beta-mercaptoethanol) | Descriptor: | 3,6,9,12,15,18,21,24,27-NONAOXANONACOSANE-1,29-DIOL, L(+)-TARTARIC ACID, POTASSIUM ION, ... | Authors: | Arai, R, Nishino, A, Nagano, K, Kamo-Uchikubo, T, Nishimoto, M, Toyama, M, Terada, T, Murayama, K, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-13 | Release date: | 2006-01-13 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | Crystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8. J.Struct.Biol., 168, 2009
|
|
2ZUT
| Crystal structure of Galacto-N-biose/Lacto-N-biose I phosphorylase in complex with GalNAc | Descriptor: | 2-acetamido-2-deoxy-alpha-D-galactopyranose, GLYCEROL, Lacto-N-biose phosphorylase, ... | Authors: | Hidaka, M, Nishimoto, M, Kitaoka, M, Wakagi, T, Shoun, H, Fushinobu, S. | Deposit date: | 2008-10-28 | Release date: | 2008-12-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | The crystal structure of galacto-N-biose/lacto-N-biose I phosphorylase: A large deformation of a tim barrel scaffold J.Biol.Chem., 284, 2009
|
|
2ZUS
| Crystal structure of Galacto-N-biose/Lacto-N-biose I phosphorylase | Descriptor: | Lacto-N-biose phosphorylase, MAGNESIUM ION | Authors: | Hidaka, M, Nishimoto, M, Kitaoka, M, Wakagi, T, Shoun, H, Fushinobu, S. | Deposit date: | 2008-10-28 | Release date: | 2008-12-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.11 Å) | Cite: | The crystal structure of galacto-N-biose/lacto-N-biose I phosphorylase: A large deformation of a tim barrel scaffold J.Biol.Chem., 284, 2009
|
|
2ZUV
| Crystal structure of Galacto-N-biose/Lacto-N-biose I phosphorylase in complex with GlcNAc, Ethylene glycol, and nitrate | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-alpha-D-glucopyranose, Lacto-N-biose phosphorylase, ... | Authors: | Hidaka, M, Nishimoto, M, Kitaoka, M, Wakagi, T, Shoun, H, Fushinobu, S. | Deposit date: | 2008-10-28 | Release date: | 2008-12-30 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.85 Å) | Cite: | The crystal structure of galacto-N-biose/lacto-N-biose I phosphorylase: A large deformation of a tim barrel scaffold J.Biol.Chem., 284, 2009
|
|
2ZUU
| Crystal structure of Galacto-N-biose/Lacto-N-biose I phosphorylase in complex with GlcNAc | Descriptor: | 2-acetamido-2-deoxy-alpha-D-glucopyranose, GLYCEROL, Lacto-N-biose phosphorylase, ... | Authors: | Hidaka, M, Nishimoto, M, Kitaoka, M, Wakagi, T, Shoun, H, Fushinobu, S. | Deposit date: | 2008-10-28 | Release date: | 2008-12-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | The crystal structure of galacto-N-biose/lacto-N-biose I phosphorylase: A large deformation of a tim barrel scaffold J.Biol.Chem., 284, 2009
|
|
2ZUW
| Crystal structure of Galacto-N-biose/Lacto-N-biose I phosphorylase in complex with GlcNAc and sulfate | Descriptor: | 2-acetamido-2-deoxy-alpha-D-glucopyranose, GLYCEROL, Lacto-N-biose phosphorylase, ... | Authors: | Hidaka, M, Nishimoto, M, Kitaoka, M, Wakagi, T, Shoun, H, Fushinobu, S. | Deposit date: | 2008-10-28 | Release date: | 2008-12-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.11 Å) | Cite: | The crystal structure of galacto-N-biose/lacto-N-biose I phosphorylase: A large deformation of a tim barrel scaffold J.Biol.Chem., 284, 2009
|
|
6K0H
| Crystal Structure of UDP-glucose 4-epimerase from Bifidobacterium longum in complex with NAD+ and UDP-GlcNAc | Descriptor: | DI(HYDROXYETHYL)ETHER, MAGNESIUM ION, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ... | Authors: | Nam, Y.-W, Nishimoto, M, Arakawa, T, Kitaoka, M, Fushinobu, S. | Deposit date: | 2019-05-06 | Release date: | 2019-08-07 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis for broad substrate specificity of UDP-glucose 4-epimerase in the human milk oligosaccharide catabolic pathway of Bifidobacterium longum. Sci Rep, 9, 2019
|
|
6K0I
| Crystal Structure of UDP-glucose 4-epimerase from Bifidobacterium longum in complex with NAD+ and UDP-Glc | Descriptor: | NICOTINAMIDE-ADENINE-DINUCLEOTIDE, UDP-glucose 4-epimerase, URIDINE-5'-DIPHOSPHATE-GLUCOSE | Authors: | Nam, Y.-W, Nishimoto, M, Arakawa, T, Kitaoka, M, Fushinobu, S. | Deposit date: | 2019-05-06 | Release date: | 2019-08-07 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Structural basis for broad substrate specificity of UDP-glucose 4-epimerase in the human milk oligosaccharide catabolic pathway of Bifidobacterium longum. Sci Rep, 9, 2019
|
|
6K0G
| Crystal Structure of UDP-glucose 4-epimerase from Bifidobacterium longum in complex with NAD+ and UDP | Descriptor: | MAGNESIUM ION, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, UDP-glucose 4-epimerase, ... | Authors: | Nam, Y.-W, Nishimoto, M, Arakawa, T, Kitaoka, M, Fushinobu, S. | Deposit date: | 2019-05-06 | Release date: | 2019-08-07 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Structural basis for broad substrate specificity of UDP-glucose 4-epimerase in the human milk oligosaccharide catabolic pathway of Bifidobacterium longum. Sci Rep, 9, 2019
|
|
3A3U
| Crystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8 | Descriptor: | 2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL, L(+)-TARTARIC ACID, Menaquinone biosynthetic enzyme, ... | Authors: | Arai, R, Nishino, A, Nagano, K, Uchikubo-Kamo, T, Katsura, K, Nishimoto, M, Toyama, M, Terada, T, Kuramitsu, S, Murayama, K, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2009-06-20 | Release date: | 2009-07-14 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Crystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8. J.Struct.Biol., 168, 2009
|
|
3AWI
| Bifunctional tRNA modification enzyme MnmC from Escherichia coli | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, SULFATE ION, tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein mnmC | Authors: | Kitamura, A, Sengoku, T, Nishimoto, M, Yokoyama, S, Bessho, Y. | Deposit date: | 2011-03-23 | Release date: | 2011-06-01 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Crystal structure of the bifunctional tRNA modification enzyme MnmC from Escherichia coli Protein Sci., 2011
|
|