5WVU
 
 | | Crystal structure of carboxypeptidase from Thermus thermophilus | | Descriptor: | GLYCEROL, Thermostable carboxypeptidase 1, ZINC ION | | Authors: | Okai, M, Nagata, K, Tanokura, M, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2016-12-29 | | Release date: | 2017-02-22 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Insight into the transition between the open and closed conformations of Thermus thermophilus carboxypeptidase.
Biochem. Biophys. Res. Commun., 484, 2017
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2JV4
 | | Structure Characterisation of PINA WW Domain and Comparison with other Group IV WW Domains, PIN1 and ESS1 | | Descriptor: | Peptidyl-prolyl cis/trans isomerase | | Authors: | Ng, C.A, Kato, Y, Tanokura, M, Brownlee, R.T.C. | | Deposit date: | 2007-09-11 | | Release date: | 2007-10-16 | | Last modified: | 2024-05-29 | | Method: | SOLUTION NMR | | Cite: | Structural characterisation of PinA WW domain and a comparison with other Group IV WW domains, Pin1 and Ess1
Biochim.Biophys.Acta, 1784, 2008
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5XOD
 | | Crystal structure of human Smad2-Ski complex | | Descriptor: | Mothers against decapentaplegic homolog 2, Ski oncogene | | Authors: | Miyazono, K, Moriwaki, S, Ito, T, Tanokura, M. | | Deposit date: | 2017-05-27 | | Release date: | 2018-03-28 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.851 Å) | | Cite: | Hydrophobic patches on SMAD2 and SMAD3 determine selective binding to cofactors
Sci Signal, 11, 2018
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5XOC
 | | Crystal structure of human Smad3-FoxH1 complex | | Descriptor: | Mothers against decapentaplegic homolog 3, Thioredoxin 1,Forkhead box protein H1 | | Authors: | Miyazono, K, Ito, T, Tanokura, M. | | Deposit date: | 2017-05-27 | | Release date: | 2018-03-28 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Hydrophobic patches on SMAD2 and SMAD3 determine selective binding to cofactors
Sci Signal, 11, 2018
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5ZOJ
 | | Crystal structure of human SMAD2-MAN1 complex | | Descriptor: | Inner nuclear membrane protein Man1, Mothers against decapentaplegic homolog 2 | | Authors: | Miyazono, K, Ohno, Y, Ito, T, Tanokura, M. | | Deposit date: | 2018-04-13 | | Release date: | 2018-10-10 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.794 Å) | | Cite: | Structural basis for receptor-regulated SMAD recognition by MAN1
Nucleic Acids Res., 46, 2018
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5ZOK
 | | Crystal structure of human SMAD1-MAN1 complex. | | Descriptor: | Inner nuclear membrane protein Man1, Mothers against decapentaplegic homolog 1 | | Authors: | Miyazono, K, Ito, T, Tanokura, M. | | Deposit date: | 2018-04-13 | | Release date: | 2018-10-17 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Structural basis for receptor-regulated SMAD recognition by MAN1
Nucleic Acids Res., 46, 2018
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2EGD
 | | Crystal structure of human S100A13 in the Ca2+-bound state | | Descriptor: | CALCIUM ION, Protein S100-A13 | | Authors: | Imai, F.L, Nagata, K, Yonezawa, N, Nakano, M, Tanokura, M. | | Deposit date: | 2007-02-28 | | Release date: | 2008-03-11 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal structure of human S100A13 in the Ca2+-bound state
Acta Crystallogr.,Sect.F, 64, 2008
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1ZOV
 | | Crystal Structure of Monomeric Sarcosine Oxidase from Bacillus sp. NS-129 | | Descriptor: | CHLORIDE ION, FLAVIN-ADENINE DINUCLEOTIDE, Monomeric sarcosine oxidase | | Authors: | Nagata, K, Sasaki, H, Ohtsuka, J, Hua, M, Okai, M, Kubota, K, Kamo, M, Ito, K, Ichikawa, T, Koyama, Y, Tanokura, M. | | Deposit date: | 2005-05-14 | | Release date: | 2006-05-23 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.86 Å) | | Cite: | Crystal structure of monomeric sarcosine oxidase from Bacillus sp. NS-129 reveals multiple conformations at the active-site loop
PROC.JPN.ACAD.,SER.B, 81, 2005
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5DNW
 | | Crystal structure of KAI2-like protein from Striga (apo state 1) | | Descriptor: | 1,2-ETHANEDIOL, FORMIC ACID, SODIUM ION, ... | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2015-09-10 | | Release date: | 2016-08-17 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.02 Å) | | Cite: | Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
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5DNU
 | | Crystal structure of Striga KAI2-like protein in complex with karrikin | | Descriptor: | 1,2-ETHANEDIOL, 3-methyl-2H-furo[2,3-c]pyran-2-one, BENZOIC ACID, ... | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2015-09-10 | | Release date: | 2016-08-17 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.2 Å) | | Cite: | Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
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5DNV
 | | Crystal structure of KAI2-like protein from Striga (apo state 2) | | Descriptor: | BENZOIC ACID, FORMIC ACID, ShKAI2iB | | Authors: | Xu, Y, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2015-09-10 | | Release date: | 2016-08-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.65 Å) | | Cite: | Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
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5GMT
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5H3E
 | | Crystal structure of mouse isocitrate dehydrogenases 2 K256Q mutant complexed with isocitrate | | Descriptor: | ISOCITRIC ACID, Isocitrate dehydrogenase [NADP], mitochondrial, ... | | Authors: | Xu, Y, Liu, L, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2016-10-23 | | Release date: | 2017-08-30 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.21 Å) | | Cite: | Studies on the regulatory mechanism of isocitrate dehydrogenase 2 using acetylation mimics
Sci Rep, 7, 2017
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5H3F
 | | Crystal structure of mouse isocitrate dehydrogenases 2 complexed with isocitrate | | Descriptor: | ISOCITRIC ACID, Isocitrate dehydrogenase [NADP], mitochondrial, ... | | Authors: | Xu, Y, Liu, L, Miyakawa, T, Nakamura, A, Tanokura, M. | | Deposit date: | 2016-10-23 | | Release date: | 2017-08-30 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.29 Å) | | Cite: | Studies on the regulatory mechanism of isocitrate dehydrogenase 2 using acetylation mimics
Sci Rep, 7, 2017
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5IFF
 | | Crystal structure of R.PabI-nonspecific DNA complex | | Descriptor: | DNA (5'-D(*GP*CP*AP*CP*TP*AP*GP*TP*TP*CP*GP*AP*AP*CP*TP*AP*GP*TP*GP*C)-3'), Uncharacterized protein | | Authors: | Wang, D, Miyazono, K, Tanokura, M. | | Deposit date: | 2016-02-26 | | Release date: | 2016-11-23 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Tetrameric structure of the restriction DNA glycosylase R.PabI in complex with nonspecific double-stranded DNA.
Sci Rep, 6, 2016
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1ULI
 | | Biphenyl dioxygenase (BphA1A2) derived from Rhodococcus sp. strain RHA1 | | Descriptor: | FE (II) ION, FE2/S2 (INORGANIC) CLUSTER, biphenyl dioxygenase large subunit, ... | | Authors: | Furusawa, Y, Nagarajan, V, Masai, E, Tanokura, M, Fukuda, M, Senda, T. | | Deposit date: | 2003-09-12 | | Release date: | 2004-09-28 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal Structure of the Terminal Oxygenase Component of Biphenyl Dioxygenase Derived from Rhodococcus sp. Strain RHA1
J.Mol.Biol., 342, 2004
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1ULJ
 | | Biphenyl dioxygenase (BphA1A2) in complex with the substrate | | Descriptor: | BIPHENYL, FE (II) ION, FE2/S2 (INORGANIC) CLUSTER, ... | | Authors: | Furusawa, Y, Nagarajan, V, Masai, E, Tanokura, M, Fukuda, M, Senda, T. | | Deposit date: | 2003-09-12 | | Release date: | 2004-09-28 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Crystal Structure of the Terminal Oxygenase Component of Biphenyl Dioxygenase Derived from Rhodococcus sp. Strain RHA1
J.Mol.Biol., 342, 2004
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1VFR
 | | THE MAJOR NAD(P)H:FMN OXIDOREDUCTASE FROM VIBRIO FISCHERI | | Descriptor: | FLAVIN MONONUCLEOTIDE, NAD(P)H:FMN OXIDOREDUCTASE | | Authors: | Koike, H, Sasaki, H, Kobori, T, Zenno, S, Saigo, K, Murphy, M.E.P, Adman, E.T, Tanokura, M. | | Deposit date: | 1998-01-09 | | Release date: | 1999-02-16 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | 1.8 A crystal structure of the major NAD(P)H:FMN oxidoreductase of a bioluminescent bacterium, Vibrio fischeri: overall structure, cofactor and substrate-analog binding, and comparison with related flavoproteins.
J.Mol.Biol., 280, 1998
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7CFA
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6JHJ
 | | Structure of Marine bacterial laminarinase mutant-E135A | | Descriptor: | CALCIUM ION, LamCAT | | Authors: | Yang, J, Xu, Y, Miyakawa, T, Tanokura, M, Long, L. | | Deposit date: | 2019-02-18 | | Release date: | 2019-04-03 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.69 Å) | | Cite: | Molecular Basis for Substrate Recognition and Catalysis by a Marine Bacterial Laminarinase.
Appl.Environ.Microbiol., 86, 2020
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6JO3
 | | Crystal structure of (S)-3-O-geranylgeranylglyceryl phosphate synthase from Thermoplasma acidophilum in complex with substrate sn-glycerol-1-phosphate | | Descriptor: | Geranylgeranylglyceryl phosphate synthase, SN-GLYCEROL-1-PHOSPHATE | | Authors: | Nemoto, N, Miyazono, K, Tanokura, M, Yamagishi, A. | | Deposit date: | 2019-03-20 | | Release date: | 2019-04-03 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Crystal structure of (S)-3-O-geranylgeranylglyceryl phosphate synthase from Thermoplasma acidophilum in complex with the substrate sn-glycerol 1-phosphate.
Acta Crystallogr.,Sect.F, 75, 2019
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7CO1
 | | Crystal structure of SMAD2 in complex with wild-type CBP | | Descriptor: | CREB-binding protein, Mothers against decapentaplegic homolog 2 | | Authors: | Miyazono, K, Wada, H, Ito, T, Tanokura, M. | | Deposit date: | 2020-08-03 | | Release date: | 2020-11-25 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | Structural basis for transcriptional coactivator recognition by SMAD2 in TGF-beta signaling.
Sci.Signal., 13, 2020
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6JH5
 | | Structure of Marine bacterial laminarinase | | Descriptor: | CALCIUM ION, LamCAT | | Authors: | Yang, J, Xu, Y, Miyakawa, T, Ru, L, Tanokura, M, Long, L. | | Deposit date: | 2019-02-17 | | Release date: | 2019-04-03 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.54 Å) | | Cite: | Molecular Basis for Substrate Recognition and Catalysis by a Marine Bacterial Laminarinase.
Appl.Environ.Microbiol., 86, 2020
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6JIA
 | | Marine bacterial laminarinase mutant E135A complex with laminaritetraose | | Descriptor: | CALCIUM ION, beta-D-glucopyranose-(1-3)-beta-D-glucopyranose-(1-3)-beta-D-glucopyranose-(1-3)-alpha-D-glucopyranose, laminarinase | | Authors: | Yang, J, Xu, Y, Miyakawa, T, Tanokura, M, Long, L. | | Deposit date: | 2019-02-20 | | Release date: | 2019-05-15 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Molecular Basis for Substrate Recognition and Catalysis by a Marine Bacterial Laminarinase.
Appl.Environ.Microbiol., 86, 2020
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6K31
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