3WN8
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![BU of 3wn8 by Molmil](/molmil-images/mine/3wn8) | Crystal Structure of Collagen-Model Peptide, (POG)3-PRG-(POG)4 | Descriptor: | collagen-like peptide | Authors: | Okuyama, K, Haga, M, Noguchi, K, Tanaka, T. | Deposit date: | 2013-12-06 | Release date: | 2014-08-13 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.45 Å) | Cite: | Preferred side-chain conformation of arginine residues in a triple-helical structure. Biopolymers, 101, 2014
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3X28
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![BU of 3x28 by Molmil](/molmil-images/mine/3x28) | Crystal structure of Nitrile Hydratase mutant bR56K | Descriptor: | CHLORIDE ION, FE (III) ION, MAGNESIUM ION, ... | Authors: | Yamanaka, Y, Hashimoto, K, Noguchi, K, Yohda, M, Odaka, M. | Deposit date: | 2014-12-12 | Release date: | 2015-12-23 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Reaction intermediate of nitrile hydratase determined by time-resolved crystallography reveals the cysteine-sulfenic acid ligand to be a catalytic nucleophile To be Published
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3A08
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![BU of 3a08 by Molmil](/molmil-images/mine/3a08) | Structure of (PPG)4-OOG-(PPG)4, monoclinic, twinned crystal | Descriptor: | collagen-like peptide | Authors: | Okuyama, K, Morimoto, T, Wu, G, Noguchi, K, Mizuno, K, Bachinger, H.P. | Deposit date: | 2009-03-06 | Release date: | 2010-01-12 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.22 Å) | Cite: | Two crystal modifications of (Pro-Pro-Gly)4-Hyp-Hyp-Gly-(Pro-Pro-Gly)4 reveal the puckering preference of Hyp(X) in the Hyp(X):Hyp(Y) and Hyp(X):Pro(Y) stacking pairs in collagen helices. Acta Crystallogr.,Sect.D, 66, 2010
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3ABN
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![BU of 3abn by Molmil](/molmil-images/mine/3abn) | Crystal structure of (Pro-Pro-Gly)4-Hyp-Asp-Gly-(Pro-Pro-Gly)4 at 1.02 A | Descriptor: | collagen-like peptide | Authors: | Okuyama, K, Shimura, M, Kawaguchi, T, Noguchi, K, Mizuno, K, Bachinger, H.P. | Deposit date: | 2009-12-16 | Release date: | 2010-12-01 | Last modified: | 2013-11-27 | Method: | X-RAY DIFFRACTION (1.02 Å) | Cite: | Crystal structure of the collagen model peptide (Pro-Pro-Gly)4 -Hyp-Asp-Gly-(Pro-Pro-Gly)4 at 1.0 angstrom resolution. Biopolymers, 99, 2013
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3A14
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![BU of 3a14 by Molmil](/molmil-images/mine/3a14) | Crystal structure of DXR from Thermotoga maritima, in complex with NADPH | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 1-deoxy-D-xylulose 5-phosphate reductoisomerase, MAGNESIUM ION, ... | Authors: | Takenoya, M, Ohtaki, A, Noguchi, K, Sasaki, Y, Ohsawa, K, Yohda, M, Yajima, S. | Deposit date: | 2009-03-25 | Release date: | 2010-04-07 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structure of 1-deoxy-d-xylulose 5-phosphate reductoisomerase from the hyperthermophile Thermotoga maritima for insights into the coordination of conformational changes and an inhibitor binding. J.Struct.Biol., 2010
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3A1K
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![BU of 3a1k by Molmil](/molmil-images/mine/3a1k) | Crystal structure of Rhodococcus sp. N771 Amidase | Descriptor: | Amidase | Authors: | Ohtaki, A, Noguchi, K, Sato, Y, Murata, K, Odaka, M, Yohda, M. | Deposit date: | 2009-04-09 | Release date: | 2009-11-03 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.17 Å) | Cite: | Structure and characterization of amidase from Rhodococcus sp. N-771: Insight into the molecular mechanism of substrate recognition Biochim.Biophys.Acta, 1804, 2010
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3A06
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![BU of 3a06 by Molmil](/molmil-images/mine/3a06) | Crystal structure of DXR from Thermooga maritia, in complex with fosmidomycin and NADPH | Descriptor: | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, 3-[FORMYL(HYDROXY)AMINO]PROPYLPHOSPHONIC ACID, MAGNESIUM ION, ... | Authors: | Takenoya, M, Ohtaki, A, Noguchi, K, Sasaki, Y, Ohsawa, K, Yohda, M, Yajima, S. | Deposit date: | 2009-03-02 | Release date: | 2010-03-16 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structure of 1-deoxy-d-xylulose 5-phosphate reductoisomerase from the hyperthermophile Thermotoga maritima for insights into the coordination of conformational changes and an inhibitor binding J.Struct.Biol., 170, 2010
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3A1I
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![BU of 3a1i by Molmil](/molmil-images/mine/3a1i) | Crystal structure of Rhodococcus sp. N-771 Amidase complexed with Benzamide | Descriptor: | Amidase, BENZAMIDE | Authors: | Ohtaki, A, Noguchi, K, Sato, Y, Murata, K, Odaka, M, Yohda, M. | Deposit date: | 2009-04-03 | Release date: | 2009-10-27 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.32 Å) | Cite: | Structure and Characterization of Amidase from Rhodococcus sp. N-771: Insight into the Molecular Mechanism of Substrate Recognition Biochim.Biophys.Acta, 2009
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3A8G
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![BU of 3a8g by Molmil](/molmil-images/mine/3a8g) | Crystal structure of Nitrile Hydratase mutant S113A complexed with Trimethylacetonitrile | Descriptor: | 2,2-dimethylpropanenitrile, FE (III) ION, MAGNESIUM ION, ... | Authors: | Yamanaka, Y, Hashimoto, K, Ohtaki, A, Noguchi, K, Yohda, M, Odaka, M. | Deposit date: | 2009-10-06 | Release date: | 2010-04-14 | Last modified: | 2021-11-10 | Method: | X-RAY DIFFRACTION (1.11 Å) | Cite: | Kinetic and structural studies on roles of the serine ligand and a strictly conserved tyrosine residue in nitrile hydratase J.Biol.Inorg.Chem., 15, 2010
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3A8M
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![BU of 3a8m by Molmil](/molmil-images/mine/3a8m) | Crystal structure of Nitrile Hydratase mutant Y72F complexed with Trimethylacetonitrile | Descriptor: | 2,2-dimethylpropanenitrile, FE (III) ION, MAGNESIUM ION, ... | Authors: | Yamanaka, Y, Hashimoto, K, Ohtaki, A, Noguchi, K, Yohda, M, Odaka, M. | Deposit date: | 2009-10-06 | Release date: | 2010-04-14 | Last modified: | 2021-11-10 | Method: | X-RAY DIFFRACTION (1.32 Å) | Cite: | Kinetic and structural studies on roles of the serine ligand and a strictly conserved tyrosine residue in nitrile hydratase J.Biol.Inorg.Chem., 15, 2010
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3A8L
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![BU of 3a8l by Molmil](/molmil-images/mine/3a8l) | Crystal structure of photo-activation state of Nitrile Hydratase mutant S113A | Descriptor: | FE (III) ION, Nitrile hydratase subunit alpha, Nitrile hydratase subunit beta | Authors: | Yamanaka, Y, Hashimoto, K, Ohtaki, A, Noguchi, K, Yohda, M, Odaka, M. | Deposit date: | 2009-10-06 | Release date: | 2010-04-14 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.63 Å) | Cite: | Kinetic and structural studies on roles of the serine ligand and a strictly conserved tyrosine residue in nitrile hydratase J.Biol.Inorg.Chem., 15, 2010
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3A8H
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![BU of 3a8h by Molmil](/molmil-images/mine/3a8h) | Crystal structure of Nitrile Hydratase mutant S113A complexed with Trimethylacetamide | Descriptor: | 2,2-dimethylpropanamide, FE (III) ION, Nitrile hydratase subunit alpha, ... | Authors: | Yamanaka, Y, Hashimoto, K, Ohtaki, A, Noguchi, K, Yohda, M, Odaka, M. | Deposit date: | 2009-10-06 | Release date: | 2010-04-14 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.66 Å) | Cite: | Kinetic and structural studies on roles of the serine ligand and a strictly conserved tyrosine residue in nitrile hydratase J.Biol.Inorg.Chem., 15, 2010
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3A8O
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![BU of 3a8o by Molmil](/molmil-images/mine/3a8o) | Crystal structure of Nitrile Hydratase complexed with Trimethylacetamide | Descriptor: | 2,2-dimethylpropanamide, FE (III) ION, Nitrile hydratase subunit alpha, ... | Authors: | Yamanaka, Y, Hashimoto, K, Ohtaki, A, Noguchi, K, Yohda, M, Odaka, M. | Deposit date: | 2009-10-07 | Release date: | 2010-04-14 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.47 Å) | Cite: | Kinetic and structural studies on roles of the serine ligand and a strictly conserved tyrosine residue in nitrile hydratase J.Biol.Inorg.Chem., 15, 2010
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3VQJ
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![BU of 3vqj by Molmil](/molmil-images/mine/3vqj) | Crystal Structutre of Thiobacillus thioparus THI115 Carbonyl Sulfide Hydrolase | Descriptor: | Carbonyl sulfide hydrolase, SODIUM ION, ZINC ION | Authors: | Katayama, Y, Noguchi, K, Ogawa, T, Ohtaki, A, Odaka, M, Yohda, M. | Deposit date: | 2012-03-24 | Release date: | 2013-02-27 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | Carbonyl Sulfide Hydrolase from Thiobacillus thioparus Strain THI115 Is One of the beta-Carbonic Anhydrase Family Enzymes J.Am.Chem.Soc., 135, 2013
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3VRK
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![BU of 3vrk by Molmil](/molmil-images/mine/3vrk) | Crystal Structutre of Thiobacillus thioparus THI115 Carbonyl Sulfide Hydrolase / Thiocyanate complex | Descriptor: | Carbonyl sulfide hydrolase, SODIUM ION, THIOCYANATE ION, ... | Authors: | Katayama, Y, Noguchi, K, Ogawa, T, Ohtaki, A, Odaka, M, Yohda, M. | Deposit date: | 2012-04-11 | Release date: | 2013-02-27 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.33 Å) | Cite: | Carbonyl Sulfide Hydrolase from Thiobacillus thioparus Strain THI115 Is One of the beta-Carbonic Anhydrase Family Enzymes J.Am.Chem.Soc., 135, 2013
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3VYH
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![BU of 3vyh by Molmil](/molmil-images/mine/3vyh) | Crystal structure of aW116R mutant of nitrile hydratase from Pseudonocardia thermophilla | Descriptor: | COBALT (II) ION, Cobalt-containing nitrile hydratase subunit alpha, Cobalt-containing nitrile hydratase subunit beta | Authors: | Yamanaka, Y, Sato, M, Arakawa, T, Namima, S, Hori, S, Ohtaki, A, Noguchi, K, Katayama, Y, Yohda, M, Odaka, M. | Deposit date: | 2012-09-25 | Release date: | 2013-11-13 | Last modified: | 2023-12-06 | Method: | X-RAY DIFFRACTION (1.63 Å) | Cite: | Effects of argnine residue around the substrate pocket on the substrate specificity of thiocyanate hydrolase To be published
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3VYG
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![BU of 3vyg by Molmil](/molmil-images/mine/3vyg) | Crystal structure of Thiocyanate hydrolase mutant R136W | Descriptor: | COBALT (III) ION, L(+)-TARTARIC ACID, Thiocyanate hydrolase subunit alpha, ... | Authors: | Yamanaka, Y, Sato, M, Arakawa, T, Namima, S, Hori, S, Ohtaki, A, Noguchi, K, Katayama, Y, Yohda, M, Odaka, M. | Deposit date: | 2012-09-25 | Release date: | 2013-11-13 | Last modified: | 2023-12-06 | Method: | X-RAY DIFFRACTION (1.72 Å) | Cite: | Effects of argnine residue around the substrate pocket on the substrate specificity of thiocyanate hydrolase To be published
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3WE1
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![BU of 3we1 by Molmil](/molmil-images/mine/3we1) | Crystal structure of Dengue 4 Envelope protein domain III (ED3) | Descriptor: | Envelope protein E | Authors: | Elahi, M, Islam, M.M, Noguchi, K, Yohda, M, Toh, H, Kuroda, Y. | Deposit date: | 2013-06-27 | Release date: | 2014-01-22 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.278 Å) | Cite: | Computational prediction and experimental characterization of a "size switch type repacking" during the evolution of dengue envelope protein domain III (ED3). Biochim.Biophys.Acta, 1844, 2014
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2ZJX
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![BU of 2zjx by Molmil](/molmil-images/mine/2zjx) | Bovine pancreatic trypsin inhibitor (BPTI) containing only the [5,55] disulfide bond | Descriptor: | Pancreatic trypsin inhibitor, SULFATE ION | Authors: | Islam, M.M, Sohya, S, Noguchi, K, Yohda, M, Kuroda, Y. | Deposit date: | 2008-03-11 | Release date: | 2008-10-21 | Last modified: | 2021-11-10 | Method: | X-RAY DIFFRACTION (1.09 Å) | Cite: | Crystal structure of an extensively simplified variant of bovine pancreatic trypsin inhibitor in which over one-third of the residues are alanines Proc.Natl.Acad.Sci.Usa, 105, 2008
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3AUG
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![BU of 3aug by Molmil](/molmil-images/mine/3aug) | A simplified BPTI variant with poly Pro amino acid tag (C5P) at the C-terminus | Descriptor: | Bovine pancreatic trypsin inhibitor, SULFATE ION | Authors: | Islam, M.M, Kato, A, Khan, M.M.A, Noguchi, K, Yohda, M, Kidokoro, S.I, Kuroda, Y. | Deposit date: | 2011-02-03 | Release date: | 2012-02-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.398 Å) | Cite: | Effect of amino acid mutations of protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published
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3AUD
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![BU of 3aud by Molmil](/molmil-images/mine/3aud) | Simplified BPTI variant with poly Asn amino acid tag (C5N) at the C-terminus | Descriptor: | Bovine pancreatic trypsin inhibitor | Authors: | Islam, M.M, Kato, A, Khan, M.M.A, Noguchi, K, Yohda, M, Kidokoro, S.I, Kuroda, Y. | Deposit date: | 2011-02-03 | Release date: | 2012-02-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.943 Å) | Cite: | Effect of amino acid mutations on protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published
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2ZVX
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![BU of 2zvx by Molmil](/molmil-images/mine/2zvx) | Structure of a BPTI-[5,55] variant containing Gly/Val at the 14/38th positions | Descriptor: | Pancreatic trypsin inhibitor, SULFATE ION | Authors: | Islam, M.M, Sohya, S, Noguchi, K, Yohda, M, Kuroda, Y. | Deposit date: | 2008-11-24 | Release date: | 2009-10-13 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.09 Å) | Cite: | Thermodynamic and structural analysis of highly stabilized BPTIs by single and double mutations Proteins, 77, 2009
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3AUB
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![BU of 3aub by Molmil](/molmil-images/mine/3aub) | A simplified BPTI variant stabilized by the A14G and A38V substitutions | Descriptor: | Bovine Pancreatic trypsin inhibitor | Authors: | Islam, M.M, Kato, A, Khan, M.M.A, Noguchi, K, Yohda, M, Kidokoro, S.I, Kuroda, Y. | Deposit date: | 2011-02-03 | Release date: | 2012-02-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1 Å) | Cite: | Effect of amino acid mutations of protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published
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3AUI
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![BU of 3aui by Molmil](/molmil-images/mine/3aui) | A simplified BPTI variant with poly Glu amino acid tag (C3E) at the C-terminus | Descriptor: | Bovine pancreatic trypsin inhibitor, SULFATE ION | Authors: | Islam, M.M, Kato, A, Khan, M.M.A, Noguchi, K, Yohda, M, Kidokoro, S.I, Kuroda, Y. | Deposit date: | 2011-02-03 | Release date: | 2012-02-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.851 Å) | Cite: | Effect of amino acid mutations on protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published
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3AUC
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![BU of 3auc by Molmil](/molmil-images/mine/3auc) | A simplified BPTI variant with poly SER (C5S) amino acid tag at the c-terminus | Descriptor: | Bovine pancreatic trypsin inhibitor, SULFATE ION | Authors: | Islam, M.M, Kato, A, Khan, M.M.A, Noguchi, K, Yohda, M, Kidokoro, S.I, Kuroda, Y. | Deposit date: | 2011-02-03 | Release date: | 2012-02-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.91 Å) | Cite: | Effect of amino acid mutations on protein's solubility, function and structure characterized using short poly amino acid peptide tags To be Published
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