6IJY
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6ILI
| Crystal structure of human MTH1(G2K/D120N mutant) in complex with 8-oxo-dGTP at pH 6.5 | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2018-10-18 | Release date: | 2018-11-07 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (1.45 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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4XLZ
| N,N'-diacetylchitobiose deacetylase (SeMet derivative) from Pyrococcus furiosus in the presence of cadmium | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, CADMIUM ION, CHLORIDE ION, ... | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | Deposit date: | 2015-01-14 | Release date: | 2015-06-10 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.51 Å) | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus. Acta Crystallogr.,Sect.F, 71, 2015
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4XM1
| N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the presence of cadmium | Descriptor: | CADMIUM ION, CHLORIDE ION, GLYCEROL, ... | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | Deposit date: | 2015-01-14 | Release date: | 2015-06-10 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus. Acta Crystallogr.,Sect.F, 71, 2015
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6IU1
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4XM0
| N,N'-diacetylchitobiose deacetylase (SeMet derivative) from Pyrococcus furiosus in the absence of cadmium | Descriptor: | Uncharacterized protein, ZINC ION | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | Deposit date: | 2015-01-14 | Release date: | 2015-06-10 | Last modified: | 2019-12-18 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus. Acta Crystallogr.,Sect.F, 71, 2015
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4XM2
| N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the absence of cadmium | Descriptor: | Uncharacterized protein, ZINC ION | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | Deposit date: | 2015-01-14 | Release date: | 2015-06-10 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus. Acta Crystallogr.,Sect.F, 71, 2015
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6ITZ
| Peroxiredoxin from Thermococcus kodakaraensis | Descriptor: | Peroxiredoxin | Authors: | Nakamura, T, Himiyama, T. | Deposit date: | 2018-11-27 | Release date: | 2019-03-06 | Last modified: | 2019-07-17 | Method: | X-RAY DIFFRACTION (2.96 Å) | Cite: | Distinct molecular assembly of homologous peroxiredoxins from Pyrococcus horikoshii and Thermococcus kodakaraensis. J.Biochem., 166, 2019
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8Y1M
| Xylanase R from Bacillus sp. TAR-1 complexed with xylobiose. | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ACETATE ION, ... | Authors: | Nakamura, T, Kuwata, K, Takita, T, Mizutani, K, Mikami, B, Nakamura, S, Yasukawa, K. | Deposit date: | 2024-01-25 | Release date: | 2024-05-22 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Activity-stability trade-off observed in variants at position 315 of the GH10 xylanase XynR. Sci Rep, 14, 2024
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8XY0
| Activity-stability trade-off observed in variants at position 315 of the GH10 xylanase XynR | Descriptor: | CALCIUM ION, DI(HYDROXYETHYL)ETHER, Endo-1,4-beta-xylanase A | Authors: | Nakamura, T, Takita, T, Mizutani, K, Mikami, B, Nakamura, S, Yasukawa, K. | Deposit date: | 2024-01-19 | Release date: | 2024-05-22 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Activity-stability trade-off observed in variants at position 315 of the GH10 xylanase XynR. Sci Rep, 14, 2024
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2NVL
| Crystal structure of archaeal peroxiredoxin, thioredoxin peroxidase from Aeropyrum pernix K1 (sulfonic acid form) | Descriptor: | Probable peroxiredoxin | Authors: | Nakamura, T, Yamamoto, T, Abe, M, Matsumura, H, Hagihara, Y, Goto, T, Yamaguchi, T, Inoue, T. | Deposit date: | 2006-11-13 | Release date: | 2007-11-20 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.36 Å) | Cite: | Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate Proc.Natl.Acad.Sci.Usa, 105, 2008
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5XBQ
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5XBR
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5WS7
| Crystal structure of human MTH1(G2K/C87A/C104S mutant) in complex with 2-oxo-dATP | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, SODIUM ION, [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2016-12-05 | Release date: | 2017-01-04 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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6L9W
| Crystal structure of mouse TIFA (T9E/C36S mutant) | Descriptor: | TRAF-interacting protein with FHA domain-containing protein A | Authors: | Nakamura, T, Yamagata, Y. | Deposit date: | 2019-11-11 | Release date: | 2020-04-01 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Structural analysis of TIFA: Insight into TIFA-dependent signal transduction in innate immunity. Sci Rep, 10, 2020
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6L9V
| Crystal structure of mouse TIFA (T9D/C36S mutant) | Descriptor: | TRAF-interacting protein with FHA domain-containing protein A | Authors: | Nakamura, T, Yamagata, Y. | Deposit date: | 2019-11-11 | Release date: | 2020-04-01 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (3.05 Å) | Cite: | Structural analysis of TIFA: Insight into TIFA-dependent signal transduction in innate immunity. Sci Rep, 10, 2020
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6L9U
| Crystal structure of mouse TIFA | Descriptor: | TRAF-interacting protein with FHA domain-containing protein A | Authors: | Nakamura, T, Yamagata, Y. | Deposit date: | 2019-11-11 | Release date: | 2020-04-01 | Method: | X-RAY DIFFRACTION (2.601 Å) | Cite: | Structural analysis of TIFA: Insight into TIFA-dependent signal transduction in innate immunity. Sci Rep, 10, 2020
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6L0C
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8WWY
| Crystal structure of mouse TIFA/TIFAB heterodimer | Descriptor: | (2R,5R)-hexane-2,5-diol, TRAF-interacting protein with FHA domain-containing protein A, TRAF-interacting protein with FHA domain-containing protein B | Authors: | Nakamura, T. | Deposit date: | 2023-10-27 | Release date: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.79 Å) | Cite: | TIFAB regulates the TIFA-TRAF6 signaling pathway involved in innate immunity by forming a heterodimer complex with TIFA. Proc.Natl.Acad.Sci.USA, 121, 2024
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5GHI
| Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGTP | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, SODIUM ION | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2016-06-20 | Release date: | 2017-01-04 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.211 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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5GHO
| Crystal structure of human MTH1(G2K/D120A mutant) in complex with 8-oxo-dGTP | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, GLYCEROL, ... | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2016-06-20 | Release date: | 2017-01-04 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.191 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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5GHN
| Crystal structure of human MTH1(G2K/D120N mutant) in complex with 2-oxo-dATP | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, SODIUM ION, [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2016-06-20 | Release date: | 2017-01-04 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.391 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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5GHM
| Crystal structure of human MTH1(G2K/D120N mutant) in complex with 8-oxo-dGTP at pH 7.0 | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, SODIUM ION | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2016-06-20 | Release date: | 2017-01-04 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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5GHQ
| Crystal structure of human MTH1(G2K/D120A mutant) in complex with 2-oxo-dATP under high concentrations of 2-oxo-dATP | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, SODIUM ION, [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2016-06-20 | Release date: | 2017-01-04 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.181 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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5GHJ
| Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dATP | Descriptor: | 7,8-dihydro-8-oxoguanine triphosphatase, SODIUM ION, [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate | Authors: | Nakamura, T, Waz, S, Hirata, K, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2016-06-20 | Release date: | 2017-01-04 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity J. Biol. Chem., 292, 2017
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