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
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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
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1OUD
| CONTRIBUTION OF HYDROPHOBIC RESIDUES TO THE STABILITY OF HUMAN LYSOZYME: X-RAY STRUCTURE OF THE V121A MUTANT | Descriptor: | LYSOZYME, SODIUM ION | Authors: | Takano, K, Yamagata, Y, Fujii, S, Yutani, K. | Deposit date: | 1996-08-23 | Release date: | 1997-02-12 | Last modified: | 2021-11-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of the hydrophobic effect to the stability of human lysozyme: calorimetric studies and X-ray structural analyses of the nine valine to alanine mutants. Biochemistry, 36, 1997
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8I09
| Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with butyl gallate | Descriptor: | CYSTEINE, PHOSPHATE ION, Serine acetyltransferase, ... | Authors: | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | Deposit date: | 2023-01-10 | Release date: | 2023-11-22 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics. Front Microbiol, 14, 2023
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8I06
| Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with CoA | Descriptor: | COENZYME A, CYSTEINE, Serine acetyltransferase | Authors: | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | Deposit date: | 2023-01-10 | Release date: | 2023-11-22 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics. Front Microbiol, 14, 2023
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8I04
| Crystal structure of serine acetyltransferase from Salmonella typhimurium complexed with serine | Descriptor: | PHOSPHATE ION, SERINE, Serine acetyltransferase | Authors: | Toyomoto, T, Ono, K, Shiba, T, Momitani, K, Zhang, T, Tsutsuki, H, Ishikawa, T, Hoso, K, Hamada, K, Rahman, A, Zhong, H, Akaike, T, Yamamoto, K, Matsuoka, M, Hanaoka, K, Niidome, T, Sawa, T. | Deposit date: | 2023-01-10 | Release date: | 2023-11-22 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Alkyl gallates inhibit serine O -acetyltransferase in bacteria and enhance susceptibility of drug-resistant Gram-negative bacteria to antibiotics. Front Microbiol, 14, 2023
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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
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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
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6QIS
| Crystal structure of CAG repeats with synthetic CMBL3a compound (model II) | Descriptor: | CMBL3a, RNA (5'-R(*GP*CP*AP*GP*CP*AP*GP*C)-3'), SULFATE ION | Authors: | Kiliszek, A, Blaszczyk, L, Rypniewski, W, Nakatani, K. | Deposit date: | 2019-01-21 | Release date: | 2019-09-25 | Last modified: | 2024-05-15 | Method: | X-RAY DIFFRACTION (1.99 Å) | Cite: | Structural insights into synthetic ligands targeting A-A pairs in disease-related CAG RNA repeats. Nucleic Acids Res., 47, 2019
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1WQO
| CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME | Descriptor: | CHLORIDE ION, LYSOZYME, SODIUM ION | Authors: | Yamagata, Y, Kubota, M, Sumikawa, Y, Funahashi, J, Fujii, S, Yutani, K. | Deposit date: | 1998-02-09 | Release date: | 1998-07-01 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine --> phenylalanine mutants. Biochemistry, 37, 1998
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1WQP
| CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME | Descriptor: | CHLORIDE ION, LYSOZYME, SODIUM ION | Authors: | Yamagata, Y, Kubota, M, Sumikawa, Y, Funahashi, J, Fujii, S, Yutani, K. | Deposit date: | 1998-02-09 | Release date: | 1998-07-01 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine --> phenylalanine mutants. Biochemistry, 37, 1998
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1WQM
| CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME | Descriptor: | CHLORIDE ION, LYSOZYME, SODIUM ION | Authors: | Yamagata, Y, Kubota, M, Sumikawa, Y, Funahashi, J, Fujii, S, Yutani, K. | Deposit date: | 1998-02-09 | Release date: | 1998-07-01 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine --> phenylalanine mutants. Biochemistry, 37, 1998
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1WQN
| CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME | Descriptor: | CHLORIDE ION, LYSOZYME, SODIUM ION | Authors: | Yamagata, Y, Kubota, M, Sumikawa, Y, Funahashi, J, Fujii, S, Yutani, K. | Deposit date: | 1998-02-09 | Release date: | 1998-07-01 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine --> phenylalanine mutants. Biochemistry, 37, 1998
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1WQQ
| CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME | Descriptor: | CHLORIDE ION, LYSOZYME, SODIUM ION | Authors: | Yamagata, Y, Kubota, M, Sumikawa, Y, Funahashi, J, Fujii, S, Yutani, K. | Deposit date: | 1998-02-09 | Release date: | 1998-07-01 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine --> phenylalanine mutants. Biochemistry, 37, 1998
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1WQR
| CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME | Descriptor: | CHLORIDE ION, LYSOZYME, SODIUM ION | Authors: | Yamagata, Y, Kubota, M, Sumikawa, Y, Funahashi, J, Fujii, S, Yutani, K. | Deposit date: | 1998-02-09 | Release date: | 1998-07-01 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of hydrogen bonds to the conformational stability of human lysozyme: calorimetry and X-ray analysis of six tyrosine --> phenylalanine mutants. Biochemistry, 37, 1998
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3FE0
| X-ray crystal structure of wild type human lysozyme in D2O | Descriptor: | Lysozyme C | Authors: | Chiba-Kamoshida, K, Matsui, T, Chatake, T, Ohhara, T, Ostermann, A, Tanaka, I, Yutani, K, Niimura, N. | Deposit date: | 2008-11-27 | Release date: | 2009-12-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Site-specific softening of peptide bonds by localized deuterium observed by neutron crystallography of human lysozyme hydrogen To be Published
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1EQ4
| CRYSTAL STRUCTURES OF SALT BRIDGE MUTANTS OF HUMAN LYSOZYME | Descriptor: | LYSOZYME, SODIUM ION | Authors: | Takano, K, Tsuchimori, K, Yamagata, Y, Yutani, K. | Deposit date: | 2000-04-03 | Release date: | 2000-04-19 | Last modified: | 2021-11-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of salt bridges near the surface of a protein to the conformational stability. Biochemistry, 39, 2000
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1C43
| MUTANT HUMAN LYSOZYME WITH FOREIGN N-TERMINAL RESIDUES | Descriptor: | PROTEIN (HUMAN LYSOZYME), SODIUM ION | Authors: | Takano, K, Tsuchimori, K, Yamagata, Y, Yutani, K. | Deposit date: | 1999-08-03 | Release date: | 1999-08-20 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Effect of foreign N-terminal residues on the conformational stability of human lysozyme. Eur.J.Biochem., 266, 1999
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1C45
| MUTANT HUMAN LYSOZYME WITH FOREIGN N-TERMINAL RESIDUES | Descriptor: | PROTEIN (LYSOZYME), SODIUM ION | Authors: | Takano, K, Tsuchimori, K, Yamagata, Y, Yutani, K. | Deposit date: | 1999-08-03 | Release date: | 1999-08-20 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Effect of foreign N-terminal residues on the conformational stability of human lysozyme. Eur.J.Biochem., 266, 1999
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1C46
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1EQ5
| CRYSTAL STRUCTURES OF SALT BRIDGE MUTANTS OF HUMAN LYSOZYME | Descriptor: | LYSOZYME, SODIUM ION | Authors: | Takano, K, Tsuchimori, K, Yamagata, Y, Yutani, K. | Deposit date: | 2000-04-03 | Release date: | 2000-04-19 | Last modified: | 2021-11-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of salt bridges near the surface of a protein to the conformational stability. Biochemistry, 39, 2000
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1EQE
| CRYSTAL STRUCTURES OF SALT BRIDGE MUTANTS OF HUMAN LYSOZYME | Descriptor: | LYSOZYME, SODIUM ION | Authors: | Takano, K, Tsuchimori, K, Yamagata, Y, Yutani, K. | Deposit date: | 2000-04-04 | Release date: | 2000-04-19 | Last modified: | 2021-11-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Contribution of salt bridges near the surface of a protein to the conformational stability. Biochemistry, 39, 2000
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1C7P
| CRYSTAL STRUCTURE OF MUTANT HUMAN LYSOZYME WITH FOUR EXTRA RESIDUES (EAEA) AT THE N-TERMINAL | Descriptor: | LYSOZYME, SODIUM ION | Authors: | Goda, S, Takano, K, Yamagata, Y, Katakura, Y, Yutani, K. | Deposit date: | 2000-02-29 | Release date: | 2000-04-05 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Effect of extra N-terminal residues on the stability and folding of human lysozyme expressed in Pichia pastoris. Protein Eng., 13, 2000
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1Z8W
| Structure of Mutant Pyrrolidone Carboxyl Peptidase (E192I) from a Hyperthermophile, Pyrococcus furiosus | Descriptor: | Pyrrolidone-carboxylate peptidase | Authors: | Kaushik, J.K, Yamagata, Y, Ogasahara, K, Yutani, K. | Deposit date: | 2005-03-31 | Release date: | 2006-06-13 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Completely buried, non-ion-paired glutamic acid contributes favorably to the conformational stability of pyrrolidone carboxyl peptidases from hyperthermophiles. Biochemistry, 45, 2006
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1Z8X
| Structure of Mutant Pyrrolidone Carboxyl Peptidase (E192V) from a Hyperthermophile, Pyrococcus furiosus | Descriptor: | Pyrrolidone-carboxylate peptidase | Authors: | Kaushik, J.K, Yamagata, Y, Ogasahara, K, Yutani, K. | Deposit date: | 2005-03-31 | Release date: | 2006-06-13 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Completely buried, non-ion-paired glutamic acid contributes favorably to the conformational stability of pyrrolidone carboxyl peptidases from hyperthermophiles. Biochemistry, 45, 2006
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