1UK8
| Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with n-valerate | Descriptor: | 2-hydroxy-6-oxo-7-methylocta-2,4-dienoate hydrolase, PENTANOIC ACID | Authors: | Fushinobu, S, Jun, S.-Y, Hidaka, M, Nojiri, H, Yamane, H, Shoun, H, Omori, T, Wakagi, T. | Deposit date: | 2003-08-19 | Release date: | 2004-09-14 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | A Series of Crystal Structures of a meta-Cleavage Product Hydrolase from Pseudomonas fluorescens IP01 (CumD) Complexed with Various Cleavage Products BIOSCI.BIOTECHNOL.BIOCHEM., 69, 2005
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1UK7
| Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with n-butyrate | Descriptor: | 2-hydroxy-6-oxo-7-methylocta-2,4-dienoate hydrolase, butanoic acid | Authors: | Fushinobu, S, Jun, S.-Y, Hidaka, M, Nojiri, H, Yamane, H, Shoun, H, Omori, T, Wakagi, T. | Deposit date: | 2003-08-19 | Release date: | 2004-09-14 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | A Series of Crystal Structures of a meta-Cleavage Product Hydrolase from Pseudomonas fluorescens IP01 (CumD) Complexed with Various Cleavage Products BIOSCI.BIOTECHNOL.BIOCHEM., 69, 2005
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1UKA
| Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with (S)-2-methylbutyrate | Descriptor: | 2-METHYLBUTANOIC ACID, 2-hydroxy-6-oxo-7-methylocta-2,4-dienoate hydrolase | Authors: | Fushinobu, S, Jun, S.-Y, Hidaka, M, Nojiri, H, Yamane, H, Shoun, H, Omori, T, Wakagi, T. | Deposit date: | 2003-08-19 | Release date: | 2004-09-14 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | A Series of Crystal Structures of a meta-Cleavage Product Hydrolase from Pseudomonas fluorescens IP01 (CumD) Complexed with Various Cleavage Products BIOSCI.BIOTECHNOL.BIOCHEM., 69, 2005
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1UKB
| Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with benzoate | Descriptor: | 2-hydroxy-6-oxo-7-methylocta-2,4-dienoate hydrolase, BENZOIC ACID | Authors: | Fushinobu, S, Jun, S.-Y, Hidaka, M, Nojiri, H, Yamane, H, Shoun, H, Omori, T, Wakagi, T. | Deposit date: | 2003-08-19 | Release date: | 2004-09-14 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | A Series of Crystal Structures of a meta-Cleavage Product Hydrolase from Pseudomonas fluorescens IP01 (CumD) Complexed with Various Cleavage Products BIOSCI.BIOTECHNOL.BIOCHEM., 69, 2005
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1UK9
| Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with isovalerate | Descriptor: | 2-hydroxy-6-oxo-7-methylocta-2,4-dienoate hydrolase, ISOVALERIC ACID | Authors: | Fushinobu, S, Jun, S.-Y, Hidaka, M, Nojiri, H, Yamane, H, Shoun, H, Omori, T, Wakagi, T. | Deposit date: | 2003-08-19 | Release date: | 2004-09-14 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | A Series of Crystal Structures of a meta-Cleavage Product Hydrolase from Pseudomonas fluorescens IP01 (CumD) Complexed with Various Cleavage Products BIOSCI.BIOTECHNOL.BIOCHEM., 69, 2005
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3AD9
| Heterotetrameric Sarcosine Oxidase from Corynebacterium sp. U-96 sarcosine-reduced form | Descriptor: | FLAVIN MONONUCLEOTIDE, FLAVIN-ADENINE DINUCLEOTIDE, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ... | Authors: | Suzuki, H, Moriguchi, T, Ida, K. | Deposit date: | 2010-01-15 | Release date: | 2010-08-25 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Channeling and conformational changes in the heterotetrameric sarcosine oxidase from Corynebacterium sp. U-96. J.Biochem., 148, 2010
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7VF3
| Plexin B1 extracellular fragment in complex with lasso-grafted PB1m7 peptide | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, DI(HYDROXYETHYL)ETHER, Plexin-B1, ... | Authors: | Sugano, N.N, Hirata, K, Yamashita, K, Yamamoto, M, Arimori, T, Takagi, J. | Deposit date: | 2021-09-10 | Release date: | 2022-08-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.29 Å) | Cite: | De novo Fc-based receptor dimerizers differentially modulate PlexinB1 function. Structure, 30, 2022
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7VG7
| Plexin B1 extracellular fragment in complex with lasso-grafted PB1m6A9 peptide | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-B1, TRIETHYLENE GLYCOL, ... | Authors: | Sugano, N.N, Hirata, K, Yamashita, K, Yamamoto, M, Arimori, T, Takagi, J. | Deposit date: | 2021-09-14 | Release date: | 2022-08-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | De novo Fc-based receptor dimerizers differentially modulate PlexinB1 function. Structure, 30, 2022
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5WKT
| 3.2-Angstrom In situ Mylar structure of bovine opsin at 100 K | Descriptor: | Rhodopsin, SULFATE ION, Transducin Galpha peptide, ... | Authors: | Broecker, J, Morizumi, T, Ou, W.-L, Ernst, O.P. | Deposit date: | 2017-07-25 | Release date: | 2017-12-13 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | High-throughput in situ X-ray screening of and data collection from protein crystals at room temperature and under cryogenic conditions. Nat Protoc, 13, 2018
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5XAU
| Crystal structure of integrin binding fragment of laminin-511 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ... | Authors: | Takizawa, M, Arimori, T, Kitago, Y, Takagi, J, Sekiguchi, K. | Deposit date: | 2017-03-15 | Release date: | 2017-09-20 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Mechanistic basis for the recognition of laminin-511 by alpha 6 beta 1 integrin. Sci Adv, 3, 2017
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7XM1
| Cryo-EM structure of mTIP60-Ba (metal-ion induced TIP60 (K67E) complex with barium ions | Descriptor: | BARIUM ION, TIP60 K67E mutant | Authors: | Ohara, N, Kawakami, N, Arai, R, Adachi, N, Moriya, T, Kawasaki, M, Miyamoto, K. | Deposit date: | 2022-04-24 | Release date: | 2023-01-04 | Last modified: | 2023-11-29 | Method: | ELECTRON MICROSCOPY (3.96 Å) | Cite: | Reversible Assembly of an Artificial Protein Nanocage Using Alkaline Earth Metal Ions. J.Am.Chem.Soc., 145, 2023
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1IOD
| CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE COAGULATION FACTOR X BINDING PROTEIN FROM SNAKE VENOM AND THE GLA DOMAIN OF FACTOR X | Descriptor: | CALCIUM ION, COAGULATION FACTOR X BINDING PROTEIN, COAGULATION FACTOR X GLA DOMAIN | Authors: | Mizuno, H, Fujimoto, Z, Atoda, H, Morita, T. | Deposit date: | 2001-02-27 | Release date: | 2001-06-27 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Crystal structure of an anticoagulant protein in complex with the Gla domain of factor X. Proc.Natl.Acad.Sci.Usa, 98, 2001
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1WQ8
| Crystal structure of Vammin, a VEGF-F from a snake venom | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, Vascular endothelial growth factor toxin | Authors: | Suto, K, Yamazaki, Y, Morita, T, Mizuno, H. | Deposit date: | 2004-09-23 | Release date: | 2004-12-07 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Crystal structures of novel vascular endothelial growth factors (VEGF) from snake venoms: insight into selective VEGF binding to kinase insert domain-containing receptor but not to fms-like tyrosine kinase-1. J.Biol.Chem., 280, 2005
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1V7P
| Structure of EMS16-alpha2-I domain complex | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, EMS16 A chain, ... | Authors: | Horii, K, Okuda, D, Morita, T, Mizuno, H. | Deposit date: | 2003-12-19 | Release date: | 2004-09-07 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Crystal structure of EMS16 in complex with the integrin alpha2-I domain J.Mol.Biol., 341, 2004
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1WQ9
| Crystal structure of VR-1, a VEGF-F from a snake venom | Descriptor: | Vascular endothelial growth factor | Authors: | Suto, K, Yamazaki, Y, Morita, T, Mizuno, H. | Deposit date: | 2004-09-24 | Release date: | 2004-12-07 | Last modified: | 2019-12-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structures of novel vascular endothelial growth factors (VEGF) from snake venoms: insight into selective VEGF binding to kinase insert domain-containing receptor but not to fms-like tyrosine kinase-1. J.Biol.Chem., 280, 2005
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1UKM
| Crystal structure of EMS16, an Antagonist of collagen receptor integrin alpha2beta1 (GPIa/IIa) | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, EMS16 A chain, ... | Authors: | Horii, K, Okuda, D, Morita, T, Mizuno, H. | Deposit date: | 2003-08-27 | Release date: | 2003-11-04 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Structural characterization of EMS16, an Antagonist of collagen receptor (GPIa/IIa) from the venom of Echis multisquamatus Biochemistry, 42, 2003
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2ZAM
| Crystal structure of mouse SKD1/VPS4B apo-form | Descriptor: | Vacuolar protein sorting-associating protein 4B | Authors: | Inoue, M, Kawasaki, M, Kamikubo, H, Kataoka, M, Kato, R, Yoshimori, T, Wakatsuki, S. | Deposit date: | 2007-10-08 | Release date: | 2008-10-07 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.5 Å) | Cite: | Nucleotide-dependent conformational changes and assembly of the AAA ATPase SKD1/VPS4B Traffic, 9, 2008
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2ZAO
| Crystal structure of mouse SKD1/VPS4B ADP-form | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Vacuolar protein sorting-associating protein 4B | Authors: | Inoue, M, Kawasaki, M, Kamikubo, H, Kataoka, M, Kato, R, Yoshimori, T, Wakatsuki, S. | Deposit date: | 2007-10-08 | Release date: | 2008-10-07 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Nucleotide-dependent conformational changes and assembly of the AAA ATPase SKD1/VPS4B Traffic, 9, 2008
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2ZAN
| Crystal structure of mouse SKD1/VPS4B ATP-form | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, Vacuolar protein sorting-associating protein 4B | Authors: | Inoue, M, Kawasaki, M, Kamikubo, H, Kataoka, M, Kato, R, Yoshimori, T, Wakatsuki, S. | Deposit date: | 2007-10-08 | Release date: | 2008-10-07 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Nucleotide-dependent conformational changes and assembly of the AAA ATPase SKD1/VPS4B Traffic, 9, 2008
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3A0A
| Structure of (PPG)4-OPG-(PPG)4, monoclinic, twinned crystal | Descriptor: | collagen-like peptide | Authors: | Okuyama, K, Morimoto, T, Hongo, C, Katagiri, A, Tanaka, Y, Nishino, N. | Deposit date: | 2009-03-13 | Release date: | 2010-03-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.36 Å) | Cite: | Crystal structure of (PPG)4-OPG-(PPG)4 To be Published
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3A0M
| Structure of (PPG)4-OVG-(PPG)4, monoclinic, twinned crystal | Descriptor: | collagen-like peptide | Authors: | Okuyama, K, Morimoto, T, Mizuno, K, Bachinger, H.P. | Deposit date: | 2009-03-21 | Release date: | 2010-03-02 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.02 Å) | Cite: | Stabilization of triple-helical structures of collagen peptides containing a Hyp-Thr-Gly, Hyp-Val-Gly, or Hyp-Ser-Gly sequence. Biopolymers, 95, 2011
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1VRQ
| Crystal Structure of Heterotetrameric Sarcosine Oxidase from Corynebacterium sp. U-96 in complex with Folinic Acid | Descriptor: | FLAVIN MONONUCLEOTIDE, FLAVIN-ADENINE DINUCLEOTIDE, N,N-DIMETHYLGLYCINE, ... | Authors: | Ida, K, Moriguchi, T, Suzuki, H. | Deposit date: | 2005-04-27 | Release date: | 2005-07-05 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structure of heterotetrameric sarcosine oxidase from Corynebacterium sp. U-96 BIOCHEM.BIOPHYS.RES.COMMUN., 333, 2005
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1X2W
| Crystal Structure of Apo-Habu IX-bp at pH 4.6 | Descriptor: | CHLORIDE ION, Coagulation factor IX/X-binding protein A chain, Coagulation factor IX/factor X-binding protein B chain, ... | Authors: | Suzuki, N, Fujimoto, Z, Morita, T, Fukamizu, A, Mizuno, H. | Deposit date: | 2005-04-26 | Release date: | 2005-10-04 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.29 Å) | Cite: | pH-Dependent Structural Changes at Ca(2+)-binding sites of Coagulation Factor IX-binding Protein J.Mol.Biol., 353, 2005
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1X31
| Crystal Structure of Heterotetrameric Sarcosine Oxidase from Corynebacterium sp. U-96 | Descriptor: | FLAVIN MONONUCLEOTIDE, FLAVIN-ADENINE DINUCLEOTIDE, N,N-DIMETHYLGLYCINE, ... | Authors: | Ida, K, Moriguchi, T, Suzuki, H. | Deposit date: | 2005-04-27 | Release date: | 2005-07-05 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.15 Å) | Cite: | Crystal structure of heterotetrameric sarcosine oxidase from Corynebacterium sp. U-96 BIOCHEM.BIOPHYS.RES.COMMUN., 333, 2005
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1X2T
| Crystal Structure of Habu IX-bp at pH 6.5 | Descriptor: | CALCIUM ION, Coagulation factor IX/X-binding protein A chain, Coagulation factor IX/factor X-binding protein B chain, ... | Authors: | Suzuki, N, Fujimoto, Z, Morita, T, Fukamizu, A, Mizuno, H. | Deposit date: | 2005-04-26 | Release date: | 2005-10-04 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.72 Å) | Cite: | pH-Dependent Structural Changes at Ca(2+)-binding sites of Coagulation Factor IX-binding Protein J.Mol.Biol., 353, 2005
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