1IR6
| Crystal structure of exonuclease RecJ bound to manganese | Descriptor: | MANGANESE (II) ION, exonuclease RecJ | Authors: | Yamagata, A, Kakuta, Y, Masui, R, Fukuyama, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2001-09-11 | Release date: | 2002-05-15 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | The crystal structure of exonuclease RecJ bound to Mn2+ ion suggests how its characteristic motifs are involved in exonuclease activity. Proc.Natl.Acad.Sci.USA, 99, 2002
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1J1G
| Crystal structure of the RNase MC1 mutant N71S in complex with 5'-GMP | Descriptor: | GUANOSINE-5'-MONOPHOSPHATE, Ribonuclease MC1 | Authors: | Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M. | Deposit date: | 2002-12-04 | Release date: | 2003-05-20 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity Biochemistry, 42, 2003
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1J1F
| Crystal structure of the RNase MC1 mutant N71T in complex with 5'-GMP | Descriptor: | GUANOSINE-5'-MONOPHOSPHATE, RIBONUCLEASE MC1 | Authors: | Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M. | Deposit date: | 2002-12-03 | Release date: | 2003-05-20 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity Biochemistry, 42, 2003
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2DQA
| Crystal Structure of Tapes japonica Lysozyme | Descriptor: | 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, Lysozyme, PLATINUM (II) ION, ... | Authors: | Goto, T, Kakuta, Y, Abe, Y, Takeshita, K, Imoto, T, Ueda, T. | Deposit date: | 2006-05-24 | Release date: | 2007-06-12 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystal Structure of Tapes japonica Lysozyme with Substrate Analogue: STRUCTURAL BASIS OF THE CATALYTIC MECHANISM AND MANIFESTATION OF ITS CHITINASE ACTIVITY ACCOMPANIED BY QUATERNARY STRUCTURAL CHANGE J.Biol.Chem., 282, 2007
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2E2R
| Crystal structure of human estrogen-related receptor gamma ligand binding domain complex with bisphenol A | Descriptor: | 4,4'-PROPANE-2,2-DIYLDIPHENOL, Estrogen-related receptor gamma, GLYCEROL | Authors: | Matsushima, A, Kakuta, Y, Teramoto, T, Koshiba, T, Kimura, M, Shimohigashi, Y. | Deposit date: | 2006-11-16 | Release date: | 2007-09-11 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Structural Evidence for Endocrine Disruptor Bisphenol A Binding to Human Nuclear Receptor ERR{gamma} J.Biochem.(Tokyo), 142, 2007
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3VKK
| Crystal Structure Of The Covalent Intermediate Of Human Cytosolic Beta-Glucosidase-mannose complex | Descriptor: | CHLORIDE ION, Cytosolic beta-glucosidase, GLYCEROL, ... | Authors: | Noguchi, J, Hayashi, Y, Okino, N, Ito, M, Kimura, M, Kakuta, Y. | Deposit date: | 2011-11-17 | Release date: | 2012-11-21 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis for inhibition mechanism of human cytosolic beta-glucosidase by monnoside To be Published
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6K3N
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5WRI
| Crystal structure of human tyrosylprotein sulfotransferase-1 complexed with PAP and C4 peptide | Descriptor: | ADENOSINE-3'-5'-DIPHOSPHATE, ASP-PHE-GLU-ASP-TYR-GLU-PHE-ASP, GLYCEROL, ... | Authors: | Tanaka, S, Nishiyori, T, Kojo, H, Otsubo, R, Kakuta, Y. | Deposit date: | 2016-12-02 | Release date: | 2017-09-13 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Structural basis for the broad substrate specificity of the human tyrosylprotein sulfotransferase-1. Sci Rep, 7, 2017
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5WRJ
| Crystal structure of human tyrosylprotein sulfotransferase-1 complexed with PAP and gastrin peptide | Descriptor: | ADENOSINE-3'-5'-DIPHOSPHATE, MAGNESIUM ION, Protein-tyrosine sulfotransferase 1, ... | Authors: | Tanaka, S, Nishiyori, T, Kojo, H, Otsubo, R, Kakuta, Y. | Deposit date: | 2016-12-02 | Release date: | 2017-09-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.31 Å) | Cite: | Structural basis for the broad substrate specificity of the human tyrosylprotein sulfotransferase-1. Sci Rep, 7, 2017
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1UAR
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8KDA
| Cryo-EM structure of Hydrogenobacter thermophilus minimal protein-only RNase P (HARP) in complex with pre-tRNAs | Descriptor: | Aquifex aeolicus pre-tRNAVal, MAGNESIUM ION, RNA-free ribonuclease P | Authors: | Teramoto, T, Adachi, N, Yokogawa, T, Koyasu, T, Mayanagi, K, Nakamura, T, Senda, T, Kakuta, Y. | Deposit date: | 2023-08-09 | Release date: | 2024-08-14 | Method: | ELECTRON MICROSCOPY (3.19 Å) | Cite: | Cryo-EM structure of Hydrogenobacter thermophilus minimal protein-only RNase P (HARP) in complex with pre-tRNAs To Be Published
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8KD9
| Cryo-EM structure of Aquifex aeolicus minimal protein-only RNase P (HARP) in complex with pre-tRNAs | Descriptor: | Aquifex aeolicus pre-tRNAVal, RNA-free ribonuclease P | Authors: | Teramoto, T, Koyasu, T, Mayanagi, K, Yokogawa, T, Adachi, N, Nakamura, T, Senda, T, Kakuta, Y. | Deposit date: | 2023-08-09 | Release date: | 2024-08-14 | Method: | ELECTRON MICROSCOPY (2.87 Å) | Cite: | Cryo-EM structure of Aquifex aeolicus minimal protein-only RNase P (HARP) in complex with pre-tRNAs To Be Published
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2CZW
| Crystal structure analysis of protein component Ph1496p of P.horikoshii ribonuclease P | Descriptor: | 50S ribosomal protein L7Ae | Authors: | Fukuhara, H, Kifusa, M, Watanabe, M, Terada, A, Honda, T, Numata, T, Kakuta, Y, Kimura, M. | Deposit date: | 2005-07-19 | Release date: | 2006-04-25 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | A fifth protein subunit Ph1496p elevates the optimum temperature for the ribonuclease P activity from Pyrococcus horikoshii OT3 Biochem.Biophys.Res.Commun., 343, 2006
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7EOV
| Crystal structure of mouse cytosolic sulfotransferase mSULT2A8 in complex with PAP and cholic acid | Descriptor: | ADENOSINE-3'-5'-DIPHOSPHATE, CHOLIC ACID, cytosolic sulfotransferase SULT2A8 | Authors: | Teramoto, T, Nishio, T, Kakuta, Y. | Deposit date: | 2021-04-22 | Release date: | 2021-05-05 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | The crystal structure of mouse SULT2A8 reveals the mechanism of 7 alpha-hydroxyl, bile acid sulfation. Biochem.Biophys.Res.Commun., 562, 2021
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2CZV
| Crystal structure of archeal RNase P protein ph1481p in complex with ph1877p | Descriptor: | ACETIC ACID, Ribonuclease P protein component 2, Ribonuclease P protein component 3, ... | Authors: | Kawano, S, Kakuta, Y, Nakashima, T, Tanaka, I, Kimura, M. | Deposit date: | 2005-07-19 | Release date: | 2006-06-27 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structure of protein Ph1481p in complex with protein Ph1877p of archaeal RNase P from Pyrococcus horikoshii OT3: implication of dimer formation of the holoenzyme J.Mol.Biol., 357, 2006
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1IYB
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5X2B
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5Z8B
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3VU2
| Structure of the Starch Branching Enzyme I (BEI) complexed with maltopentaose from Oryza sativa L | Descriptor: | 1,4-alpha-glucan-branching enzyme, chloroplastic/amyloplastic, GLYCEROL, ... | Authors: | Chaen, K, Kakuta, Y, Kimura, M. | Deposit date: | 2012-06-14 | Release date: | 2013-05-08 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.23 Å) | Cite: | Crystal structure of the rice branching enzyme I (BEI) in complex with maltopentaose. Biochem.Biophys.Res.Commun., 424, 2012
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3WYZ
| On archaeal homologs of the human RNase P protein Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis | Descriptor: | GLYCEROL, Ribonuclease P protein component 3 | Authors: | Suematsu, K, Ueda, T, Nakashima, T, Kakuta, Y, Kimura, M. | Deposit date: | 2014-09-11 | Release date: | 2015-09-16 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.21 Å) | Cite: | On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis. Biosci.Biotechnol.Biochem., 79, 2015
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3WZ0
| On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis | Descriptor: | Ribonuclease P protein component 2, Ribonuclease P protein component 3 | Authors: | Suematsu, K, Ueda, T, Nakashima, T, Kakuta, Y, Kimura, M. | Deposit date: | 2014-09-11 | Release date: | 2015-09-16 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.79 Å) | Cite: | On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis. Biosci.Biotechnol.Biochem., 79, 2015
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7EFV
| Crystal structure of octameric state of C-phycocyanin from Thermoleptolyngbya sp. O-77 | Descriptor: | C-phycocyanin alpha chain, C-phycocyanin beta chain, PHYCOCYANOBILIN | Authors: | Minato, T, Teramoto, T, Hung, N.K, Yamada, K, Ogo, S, Kakuta, Y, Yoon, K.S. | Deposit date: | 2021-03-23 | Release date: | 2021-11-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.77 Å) | Cite: | Non-conventional octameric structure of C-phycocyanin. Commun Biol, 4, 2021
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7EH7
| Cryo-EM structure of the octameric state of C-phycocyanin from Thermoleptolyngbya sp. O-77 | Descriptor: | C-phycocyanin alpha chain, C-phycocyanin beta chain, PHYCOCYANOBILIN | Authors: | Minato, T, Teramoto, T, Adachi, N, Hung, N.K, Yamada, K, Kawasaki, M, Akutsu, M, Moriya, T, Senda, T, Ogo, S, Kakuta, Y, Yoon, K.S. | Deposit date: | 2021-03-28 | Release date: | 2021-11-17 | Method: | ELECTRON MICROSCOPY (3.71 Å) | Cite: | Non-conventional octameric structure of C-phycocyanin. Commun Biol, 4, 2021
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7EFW
| Crystal structure of hexameric state of C-phycocyanin from Thermoleptolyngbya sp. O-77 | Descriptor: | C-phycocyanin alpha chain, C-phycocyanin beta chain, GLYCEROL, ... | Authors: | Minato, T, Teramoto, T, Hung, N.K, Yamada, K, Ogo, S, Kakuta, Y, Yoon, K.S. | Deposit date: | 2021-03-23 | Release date: | 2021-11-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Non-conventional octameric structure of C-phycocyanin. Commun Biol, 4, 2021
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7EH8
| Cryo-EM structure of the hexameric state of C-phycocyanin from Thermoleptolyngbya sp. O-77 | Descriptor: | C-phycocyanin alpha chain, C-phycocyanin beta chain, PHYCOCYANOBILIN | Authors: | Minato, T, Teramoto, T, Adachi, N, Hung, N.K, Yamada, K, Kawasaki, M, Akutsu, M, Moriya, T, Senda, T, Ogo, S, Kakuta, Y, Yoon, K.S. | Deposit date: | 2021-03-28 | Release date: | 2021-11-17 | Method: | ELECTRON MICROSCOPY (3.06 Å) | Cite: | Non-conventional octameric structure of C-phycocyanin. Commun Biol, 4, 2021
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