4NYN
 
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4E19
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2EHG
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2Z1J
 | | Crystal structure of E.coli RNase HI surface charged mutant(Q4R/T40E/Q72H/Q76K/Q80E/T92K/Q105K/Q113R/Q115K/N143K/T145K) | | Descriptor: | Ribonuclease HI | | Authors: | You, D.J, Fukuchi, S, Nishikawa, K, Koga, Y, Takano, K, Kanaya, S. | | Deposit date: | 2007-05-08 | | Release date: | 2007-11-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.38 Å) | | Cite: | Protein Thermostabilization Requires a Fine-tuned Placement of Surface-charged Residues
J.Biochem.(Tokyo), 142, 2007
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2Z1H
 | | Crystal structure of E.coli RNase HI surface charged mutant(Q4R/T92K/Q105K/Q113R/Q115K/N143K/T145K) | | Descriptor: | Ribonuclease HI | | Authors: | You, D.J, Fukuchi, S, Nishikawa, K, Koga, Y, Takano, K, Kanaya, S. | | Deposit date: | 2007-05-08 | | Release date: | 2007-11-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Protein Thermostabilization Requires a Fine-tuned Placement of Surface-charged Residues
J.Biochem.(Tokyo), 142, 2007
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2Z1G
 | | Crystal structure of E.coli RNase HI surface charged mutant(Q4R/T40E/Q72H/Q76K/Q80E/T92K/Q105K) | | Descriptor: | Ribonuclease HI | | Authors: | You, D.J, Fukuchi, S, Nishikawa, K, Koga, Y, Takano, K, Kanaya, S. | | Deposit date: | 2007-05-08 | | Release date: | 2007-11-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Protein Thermostabilization Requires a Fine-tuned Placement of Surface-charged Residues
J.Biochem.(Tokyo), 142, 2007
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2Z1I
 | | Crystal structure of E.coli RNase HI surface charged mutant(Q4R/T40E/Q72H/Q76K/Q80E/T92K/Q105K/Q113R/Q115K) | | Descriptor: | Ribonuclease HI | | Authors: | You, D.J, Fukuchi, S, Nishikawa, K, Koga, Y, Takano, K, Kanaya, S. | | Deposit date: | 2007-05-08 | | Release date: | 2007-11-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Protein Thermostabilization Requires a Fine-tuned Placement of Surface-charged Residues
J.Biochem.(Tokyo), 142, 2007
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3QE4
 | | An evolved aminoacyl-tRNA Synthetase with atypical polysubstrate specificity | | Descriptor: | 4-cyano-L-phenylalanine, Tyrosyl-tRNA synthetase | | Authors: | Young, D.D, Young, T.S, Jahnz, M, Ahmad, I, Spraggon, G, Schultz, P.G. | | Deposit date: | 2011-01-19 | | Release date: | 2011-02-16 | | Last modified: | 2023-12-06 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | An Evolved Aminoacyl-tRNA Synthetase with Atypical Polysubstrate Specificity .
Biochemistry, 50, 2011
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6FWF
 | | Low resolution structure of Neisseria meningitidis qNOR | | Descriptor: | CALCIUM ION, FE (III) ION, Nitric-oxide reductase, ... | | Authors: | Young, D, Antonyuk, S, Tosha, T, Hisano, T, Hasnain, S, Shiro, Y. | | Deposit date: | 2018-03-06 | | Release date: | 2018-03-14 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (4.2 Å) | | Cite: | Characterization of the quinol-dependent nitric oxide reductase from the pathogen Neisseria meningitidis, an electrogenic enzyme.
Sci Rep, 8, 2018
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5LOL
 | | Glutathione-bound Dehydroascorbate Reductase 2 of Arabidopsis thaliana | | Descriptor: | GLUTATHIONE, GLYCEROL, Glutathione S-transferase DHAR2, ... | | Authors: | Young, D.R, Pallo, A, Bodra, N, Messens, J. | | Deposit date: | 2016-08-09 | | Release date: | 2017-06-07 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Arabidopsis thaliana dehydroascorbate reductase 2: Conformational flexibility during catalysis.
Sci Rep, 7, 2017
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6G4R
 | | Corynebacterium glutamicum OxyR C206S mutant, H2O2-bound | | Descriptor: | 1,2-ETHANEDIOL, HYDROGEN PEROXIDE, Hydrogen peroxide-inducible genes activator, ... | | Authors: | Young, D.R, Pedre, B.P, Messens, J.M. | | Deposit date: | 2018-03-28 | | Release date: | 2018-12-05 | | Last modified: | 2018-12-19 | | Method: | X-RAY DIFFRACTION (2.62 Å) | | Cite: | Structural snapshots of OxyR reveal the peroxidatic mechanism of H2O2sensing.
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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6G1B
 | | Corynebacterium glutamicum OxyR, oxidized form | | Descriptor: | 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE, FORMIC ACID, HYDROGEN PEROXIDE, ... | | Authors: | Young, D.R, Pedre, B.P, Messens, J.M. | | Deposit date: | 2018-03-21 | | Release date: | 2018-12-05 | | Last modified: | 2018-12-19 | | Method: | X-RAY DIFFRACTION (2.28 Å) | | Cite: | Structural snapshots of OxyR reveal the peroxidatic mechanism of H2O2sensing.
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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5NUF
 | | Cytosolic Malate Dehydrogenase 1 | | Descriptor: | 1,2-ETHANEDIOL, ACETATE ION, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Young, D, Messens, J, Huang, J, Reichheld, J.-P. | | Deposit date: | 2017-04-29 | | Release date: | 2018-01-10 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Self-protection of cytosolic malate dehydrogenase against oxidative stress in Arabidopsis.
J. Exp. Bot., 69, 2018
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6G1D
 | | Corynebacterium glutamicum OxyR C206 mutant | | Descriptor: | 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, FORMIC ACID, ... | | Authors: | Young, D.R, Pedre, B.P, Messens, J.M. | | Deposit date: | 2018-03-21 | | Release date: | 2018-12-05 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (1.992 Å) | | Cite: | Structural snapshots of OxyR reveal the peroxidatic mechanism of H2O2sensing.
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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6QFS
 | | Chargeless variant of the Cellulose-binding domain from Cellulomonas fimi | | Descriptor: | 1,2-ETHANEDIOL, 2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL, 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE, ... | | Authors: | Young, D.R, Hoejgaard, C, Messens, J, Winther, J.R. | | Deposit date: | 2019-01-10 | | Release date: | 2019-12-18 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Charge Interactions in a Highly Charge-depleted Protein
J.Am.Chem.Soc., 2021
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5NUE
 | | Cytosolic Malate Dehydrogenase 1 (peroxide-treated) | | Descriptor: | 1,2-ETHANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 2-ETHOXYETHANOL, ... | | Authors: | Young, D, Messens, J, Huang, J, Reichheld, J.-P. | | Deposit date: | 2017-04-29 | | Release date: | 2018-02-28 | | Last modified: | 2018-07-04 | | Method: | X-RAY DIFFRACTION (1.35000277 Å) | | Cite: | Self-protection of cytosolic malate dehydrogenase against oxidative stress in Arabidopsis.
J. Exp. Bot., 69, 2018
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5O84
 | | Glutathione S-transferase Tau 23 (partially oxidized) | | Descriptor: | 1,2-ETHANEDIOL, ACETATE ION, FORMIC ACID, ... | | Authors: | Young, D.R, Van Molle, I, Tossounian, M, Messens, J. | | Deposit date: | 2017-06-12 | | Release date: | 2017-10-25 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (1.88 Å) | | Cite: | Disulfide bond formation protects Arabidopsis thaliana glutathione transferase tau 23 from oxidative damage.
Biochim. Biophys. Acta, 1862, 2018
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6GF0
 | | Lysozyme structure determined from SFX data using a Sheet-on-Sheet chipless chip | | Descriptor: | Lysozyme C | | Authors: | Doak, R.B, Gorel, A, Foucar, L, Gruenbein, M.L, Hilpert, M, Kloos, M, Nass Kovacs, G, Roome, C, Shoeman, R.L, Stricker, M, Tono, K, You, D, Ueda, K, Sherrel, D, Owen, R, Barends, T.R.M, Schlichting, I. | | Deposit date: | 2018-04-27 | | Release date: | 2018-10-17 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (2.07 Å) | | Cite: | Crystallography on a chip - without the chip: sheet-on-sheet sandwich.
Acta Crystallogr D Struct Biol, 74, 2018
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4OEC
 | | Crystal structure of glycerophosphodiester phosphodiesterase from Thermococcus kodakarensis KOD1 | | Descriptor: | Glycerophosphoryl diester phosphodiesterase, MAGNESIUM ION | | Authors: | Atsuta, Y, You, D.J, Takano, K, Koga, Y, Kanaya, S. | | Deposit date: | 2014-01-13 | | Release date: | 2015-01-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of glycerophosphodiester phosphodiesterase from Thermococcus kodakarensis KOD1
To be Published
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4EB0
 | | Crystal structure of Leaf-branch compost bacterial cutinase homolog | | Descriptor: | LCC, THIOCYANATE ION | | Authors: | Sulaiman, S, You, D.J, Eiko, K, Koga, Y, Kanaya, S. | | Deposit date: | 2012-03-23 | | Release date: | 2013-03-27 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Crystal structure of Leaf-branch compost bacterial cutinase homolog
To be Published
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2E4L
 | | Thermodynamic and Structural Analysis of Thermolabile RNase HI from Shewanella oneidensis MR-1 | | Descriptor: | Ribonuclease HI | | Authors: | Tadokoro, T, You, D.J, Chon, H, Matsumura, H, Koga, Y, Takano, K, Kanaya, S. | | Deposit date: | 2006-12-13 | | Release date: | 2007-05-01 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structural, thermodynamic, and mutational analyses of a psychrotrophic RNase HI.
Biochemistry, 46, 2007
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3VN5
 | | Crystal structure of Aquifex aeolicus RNase H3 | | Descriptor: | Ribonuclease HIII | | Authors: | Jongruja, N, You, D.J, Eiko, K, Angkawidjaja, C, Koga, Y, Takano, K, Kanaya, S. | | Deposit date: | 2011-12-22 | | Release date: | 2012-12-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.98 Å) | | Cite: | Structure and characterization of RNase H3 from Aquifex aeolicus
Febs J., 279, 2012
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4IBN
 | | Crystal structure of LC9-RNase H1, a type 1 RNase H with the type 2 active-site motif | | Descriptor: | Ribonuclease H | | Authors: | Nguyen, T.-N, You, D.-J, Kanaya, E, Koga, Y, Kanaya, S. | | Deposit date: | 2012-12-09 | | Release date: | 2013-03-20 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.62 Å) | | Cite: | Crystal structure of metagenome-derived LC9-RNase H1 with atypical DEDN active site motif
Febs Lett., 587, 2013
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3VV2
 | | Crystal structure of complex form between S324A-subtilisin and mutant Tkpro | | Descriptor: | CALCIUM ION, CHLORIDE ION, PROPEPTIDE from Tk-subtilisin, ... | | Authors: | Uehara, R, Ueda, Y, You, D.J, Takano, K, Koga, Y, Kanaya, S. | | Deposit date: | 2012-07-12 | | Release date: | 2013-03-06 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.83 Å) | | Cite: | Accelerated maturation of Tk-subtilisin by a Leu Pro mutation at the C-terminus of the propeptide, which reduces the binding of the propeptide to Tk-subtilisin
Febs J., 280, 2013
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4JP8
 | | Crystal structure of Pro-F17H/S324A | | Descriptor: | CALCIUM ION, Tk-subtilisin | | Authors: | Yuzaki, K, You, D.J, Uehara, R, Koga, Y, Kanaya, S. | | Deposit date: | 2013-03-19 | | Release date: | 2014-01-29 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.21 Å) | | Cite: | Increase in activation rate of Pro-Tk-subtilisin by a single nonpolar-to-polar amino acid substitution at the hydrophobic core of the propeptide domain
Protein Sci., 22, 2013
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