1NFT
| OVOTRANSFERRIN, N-TERMINAL LOBE, IRON LOADED OPEN FORM | Descriptor: | FE (III) ION, NITRILOTRIACETIC ACID, PROTEIN (OVOTRANSFERRIN), ... | Authors: | Mizutani, K, Yamashita, H, Kurokawa, H, Mikami, B, Hirose, M. | Deposit date: | 1999-01-07 | Release date: | 1999-01-13 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Alternative structural state of transferrin. The crystallographic analysis of iron-loaded but domain-opened ovotransferrin N-lobe. J.Biol.Chem., 274, 1999
|
|
1IQ7
| Ovotransferrin, C-Terminal Lobe, Apo Form | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Ovotransferrin, SULFATE ION | Authors: | Mizutani, K, Muralidhara, B.K, Yamashita, H, Tabata, S, Mikami, B, Hirose, M. | Deposit date: | 2001-07-06 | Release date: | 2001-11-28 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Anion-mediated Fe3+ release mechanism in ovotransferrin C-lobe: a structurally identified SO4(2-) binding site and its implications for the kinetic pathway. J.Biol.Chem., 276, 2001
|
|
1IEJ
| OVOTRANSFERRIN, N-TERMINAL LOBE, HOLO FORM, AT 1.65 A RESOLUTION | Descriptor: | CARBONATE ION, FE (III) ION, OVOTRANSFERRIN | Authors: | Mizutani, K, Mikami, B, Hirose, M. | Deposit date: | 2001-04-10 | Release date: | 2001-06-20 | Last modified: | 2017-10-04 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Domain closure mechanism in transferrins: new viewpoints about the hinge structure and motion as deduced from high resolution crystal structures of ovotransferrin N-lobe. J.Mol.Biol., 309, 2001
|
|
1TFA
| OVOTRANSFERRIN, N-TERMINAL LOBE, APO FORM | Descriptor: | PROTEIN (OVOTRANSFERRIN), SULFATE ION | Authors: | Mizutani, K, Yamashita, H, Mikami, B, Hirose, M. | Deposit date: | 1999-01-07 | Release date: | 1999-01-13 | Last modified: | 2018-04-04 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Alternative structural state of transferrin. The crystallographic analysis of iron-loaded but domain-opened ovotransferrin N-lobe. J.Biol.Chem., 274, 1999
|
|
1V9F
| Crystal structure of catalytic domain of pseudouridine synthase RluD from Escherichia coli | Descriptor: | PHOSPHATE ION, Ribosomal large subunit pseudouridine synthase D | Authors: | Mizutani, K, Machida, Y, Unzai, S, Park, S.-Y, Tame, J.R.H. | Deposit date: | 2004-01-26 | Release date: | 2004-05-18 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli Biochemistry, 43, 2004
|
|
3VUP
| Beta-1,4-mannanase from the common sea hare Aplysia kurodai | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, Beta-1,4-mannanase, SULFATE ION | Authors: | Mizutani, K, Tsuchiya, S, Toyoda, M, Nanbu, Y, Tominaga, K, Yuasa, K, Takahashi, N, Tsuji, A, Mikami, B. | Deposit date: | 2012-07-04 | Release date: | 2012-10-17 | Method: | X-RAY DIFFRACTION (1.05 Å) | Cite: | Structure of beta-1,4-mannanase from the common sea hare Aplysia kurodai at 1.05 A resolution. Acta Crystallogr.,Sect.F, 68, 2012
|
|
3ABG
| X-ray Crystal Analysis of Bilirubin Oxidase from Myrothecium verrucaria at 2.3 angstrom Resolution using a Twin Crystal | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Bilirubin oxidase, COPPER (II) ION, ... | Authors: | Mizutani, K, Toyoda, M, Sagara, K, Takahashi, N, Sato, A, Kamitaka, Y, Tsujimura, S, Nakanishi, Y, Sugiura, T, Yamaguchi, S, Kano, K, Mikami, B. | Deposit date: | 2009-12-10 | Release date: | 2010-08-18 | Last modified: | 2023-07-26 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | X-ray analysis of bilirubin oxidase from Myrothecium verrucaria at 2.3 A resolution using a twinned crystal Acta Crystallogr.,Sect.F, 66, 2010
|
|
3AOU
| Structure of the Na+ unbound rotor ring modified with N,N f-Dicyclohexylcarbodiimide of the Na+-transporting V-ATPase | Descriptor: | DICYCLOHEXYLUREA, UNDECYL-MALTOSIDE, V-type sodium ATPase subunit K | Authors: | Mizutani, K, Yamamoto, M, Yamato, I, Kakinuma, Y, Shirouzu, M, Yokoyama, S, Iwata, S, Murata, T. | Deposit date: | 2010-10-06 | Release date: | 2011-08-17 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.14 Å) | Cite: | Structure of the rotor ring modified with N,N'-dicyclohexylcarbodiimide of the Na+-transporting vacuolar ATPase. Proc.Natl.Acad.Sci.USA, 108, 2011
|
|
3VM5
| |
2D3I
| Crystal Structure of Aluminum-Bound Ovotransferrin at 2.15 Angstrom Resolution | Descriptor: | ALUMINUM ION, BICARBONATE ION, Ovotransferrin | Authors: | Mizutani, K, Mikami, B, Aibara, S, Hirose, M. | Deposit date: | 2005-09-28 | Release date: | 2005-11-29 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.15 Å) | Cite: | Structure of aluminium-bound ovotransferrin at 2.15 Angstroms resolution. Acta Crystallogr.,Sect.D, 61, 2005
|
|
5AZD
| Crystal structure of thermophilic rhodopsin. | Descriptor: | Bacteriorhodopsin | Authors: | Mizutani, K, Hashimoto, N, Tsukamoto, T, Yamashita, K, Yamamoto, M, Sudo, Y, Murata, T. | Deposit date: | 2015-09-30 | Release date: | 2016-04-27 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | X-ray crystallographic structure of thermophilic rhodopsin: implications for high thermal stability and optogenetic availability. To Be Published
|
|
1V9K
| The crystal structure of the catalytic domain of pseudouridine synthase RluC from Escherichia coli | Descriptor: | Ribosomal large subunit pseudouridine synthase C, SULFATE ION | Authors: | Machida, Y, Mizutani, K, Unzai, S, Park, S.-Y, Tame, J.R.H. | Deposit date: | 2004-01-26 | Release date: | 2004-05-18 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli Biochemistry, 43, 2004
|
|
7CPL
| Xylanase R from Bacillus sp. TAR-1 | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, CALCIUM ION, Endo-1,4-beta-xylanase A, ... | Authors: | Kuwata, K, Suzuki, M, Takita, T, Nakatani, K, Li, T, Katano, Y, Kojima, K, Mizutani, K, Mikami, B, Yatsunami, R, Nakamura, S, Yasukawa, K. | Deposit date: | 2020-08-07 | Release date: | 2020-09-02 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.52 Å) | Cite: | Insight into the mechanism of thermostabilization of GH10 xylanase from Bacillus sp. strain TAR-1 by the mutation of S92 to E. Biosci.Biotechnol.Biochem., 85, 2021
|
|
7CBD
| Catalytic domain of Cellulomonas fimi Cel6B | Descriptor: | Exoglucanase A | Authors: | Nakamura, A, Ishiwata, D, Visootsat, A, Uchiyama, T, Mizutani, K, Kaneko, S, Murata, T, Igarashi, K, Iino, R. | Deposit date: | 2020-06-12 | Release date: | 2020-08-26 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | Domain architecture divergence leads to functional divergence in binding and catalytic domains of bacterial and fungal cellobiohydrolases. J.Biol.Chem., 295, 2020
|
|
7CPK
| Xylanase R from Bacillus sp. TAR-1 | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, CALCIUM ION, Endo-1,4-beta-xylanase A, ... | Authors: | Kuwata, K, Suzuki, M, Takita, T, Nakatani, K, Li, T, Katano, Y, Kojima, K, Mizutani, K, Mikami, B, Yatsunami, R, Nakamura, S, Yasukawa, K. | Deposit date: | 2020-08-07 | Release date: | 2020-09-02 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Insight into the mechanism of thermostabilization of GH10 xylanase from Bacillus sp. strain TAR-1 by the mutation of S92 to E. Biosci.Biotechnol.Biochem., 85, 2021
|
|
5KNC
| Crystal structure of the 3 ADP-bound V1 complex | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, GLYCEROL, MAGNESIUM ION, ... | Authors: | Suzuki, K, Mizutani, K, Maruyama, S, Shimono, K, Imai, F.L, Muneyuki, E, Kakinuma, Y, Ishizuka-Katsura, Y, Shirouzu, M, Yokoyama, S, Yamato, I, Murata, T. | Deposit date: | 2016-06-28 | Release date: | 2016-11-02 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.015 Å) | Cite: | Crystal structures of the ATP-binding and ADP-release dwells of the V1 rotary motor Nat Commun, 7, 2016
|
|
5KNB
| Crystal structure of the 2 ADP-bound V1 complex | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, GLYCEROL, MAGNESIUM ION, ... | Authors: | Suzuki, K, Mizutani, K, Maruyama, S, Shimono, K, Imai, F.L, Muneyuki, E, Kakinuma, Y, Ishizuka-Katsura, Y, Shirouzu, M, Yokoyama, S, Yamato, I, Murata, T. | Deposit date: | 2016-06-28 | Release date: | 2016-11-02 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.251 Å) | Cite: | Crystal structures of the ATP-binding and ADP-release dwells of the V1 rotary motor Nat Commun, 7, 2016
|
|
5KND
| Crystal structure of the Pi-bound V1 complex | Descriptor: | 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, GLYCEROL, MAGNESIUM ION, ... | Authors: | Suzuki, K, Mizutani, K, Maruyama, S, Shimono, K, Imai, F.L, Muneyuki, E, Kakinuma, Y, Ishizuka-Katsura, Y, Shirouzu, M, Yokoyama, S, Yamato, I, Murata, T. | Deposit date: | 2016-06-28 | Release date: | 2016-11-02 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.888 Å) | Cite: | Crystal structures of the ATP-binding and ADP-release dwells of the V1 rotary motor Nat Commun, 7, 2016
|
|
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
|
|
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
|
|
8YVW
| Crystal structure of D12N mutant of L-azetidine-2-carboxylate hydrolase | Descriptor: | (S)-2-haloacid dehalogenase, FORMIC ACID, IMIDAZOLE, ... | Authors: | Toyoda, M, Mizutani, K, Mikami, B, Wackett, L.P, Esaki, N, Kurihara, T. | Deposit date: | 2024-03-29 | Release date: | 2024-05-08 | Method: | X-RAY DIFFRACTION (1.19 Å) | Cite: | Research for the crystal structure of L-azetidine-2-carboxylate hydrolase To Be Published
|
|
8YWO
| Crystal structure of L-azetidine-2-carboxylate hydrolase soaked in (S)-azetidine-2-carboxylic acid | Descriptor: | (2S)-azetidine-2-carboxylic acid, (S)-2-haloacid dehalogenase | Authors: | Toyoda, M, Mizutani, K, Mikami, B, Wackett, L.P, Esaki, N, Kurihara, T. | Deposit date: | 2024-03-31 | Release date: | 2024-05-08 | Method: | X-RAY DIFFRACTION (1.58 Å) | Cite: | Research for the crystal structure of L-azetidine-2-carboxylate hydrolase To Be Published
|
|
4KEQ
| Crystal structure of 4-pyridoxolactonase, 5-pyridoxolactone bound | Descriptor: | 1,2-ETHANEDIOL, 4-pyridoxolactonase, 7-hydroxy-6-methylfuro[3,4-c]pyridin-3(1H)-one, ... | Authors: | Kobayashi, J, Yoshikane, Y, Baba, S, Mizutani, K, Takahashi, N, Mikami, B, Yagi, T. | Deposit date: | 2013-04-26 | Release date: | 2014-04-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.279 Å) | Cite: | Structure of 4-pyridoxolactonase from Mesorhizobium loti. Acta Crystallogr.,Sect.F, 70, 2014
|
|
4KEP
| Crystal structure of 4-pyridoxolactonase, wild-type | Descriptor: | 1,2-ETHANEDIOL, 4-pyridoxolactonase, ACETATE ION, ... | Authors: | Kobayashi, J, Yoshikane, Y, Baba, S, Mizutani, K, Takahashi, N, Mikami, B, Yagi, T. | Deposit date: | 2013-04-26 | Release date: | 2014-04-09 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.83 Å) | Cite: | Structure of 4-pyridoxolactonase from Mesorhizobium loti. Acta Crystallogr.,Sect.F, 70, 2014
|
|
4JY2
| Crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase, native and unliganded form | Descriptor: | 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase, BETA-MERCAPTOETHANOL, FLAVIN-ADENINE DINUCLEOTIDE, ... | Authors: | Kobayashi, J, Yoshida, H, Kamitori, S, Hayashi, H, Mizutani, K, Takahashi, N, Mikami, B, Yagi, T. | Deposit date: | 2013-03-28 | Release date: | 2014-04-02 | Method: | X-RAY DIFFRACTION (1.935 Å) | Cite: | Crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase To be Published
|
|