5YD4
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5YD5
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1UFU
| Crystal structure of ligand binding domain of immunoglobulin-like transcript 2 (ILT2; LIR-1) | Descriptor: | Immunoglobulin-like transcript 2 | Authors: | Shiroishi, M, Amano, K, Rasubala, L, Tsumoto, K, Kumagai, I, Kohda, D, Maenaka, K. | Deposit date: | 2003-06-10 | Release date: | 2004-08-10 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Kinetic and thermodynamic properties of the interaction between Immunoglobulin like transcript (ILT) and MHC class I To be Published
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7CMF
| Crystal structure of human P-cadherin REC12 (monomer) in complex with 2-(5-chloro-2-methyl-1H-indol-3-yl)ethan-1-amine (inhibitor) | Descriptor: | 2-(5-chloro-2-methyl-1H-indol-3-yl)ethan-1-amine, CALCIUM ION, Cadherin-3 | Authors: | Senoo, A, Ito, S, Ueno, G, Nagatoishi, S, Tsumoto, K. | Deposit date: | 2020-07-27 | Release date: | 2021-09-15 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Regulation of cadherin dimerization by chemical fragments as a trigger to inhibit cell adhesion Commun Biol, 4, 2021
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7CME
| Crystal structure of human P-cadherin MEC12 (X dimer) in complex with 2-(5-chloro-2-methyl-1H-indol-3-yl)ethan-1-amine (inhibitor) | Descriptor: | 2-(5-chloro-2-methyl-1H-indol-3-yl)ethan-1-amine, CALCIUM ION, Cadherin-3, ... | Authors: | Senoo, A, Ito, S, Ueno, G, Nagatoishi, S, Tsumoto, K. | Deposit date: | 2020-07-27 | Release date: | 2021-09-15 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.45 Å) | Cite: | Regulation of cadherin dimerization by chemical fragments as a trigger to inhibit cell adhesion Commun Biol, 4, 2021
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1J1P
| Crystal structure of HyHEL-10 Fv mutant LS91A complexed with hen egg white lysozyme | Descriptor: | Ig VH,anti-lysozyme, Lysozyme C, lysozyme binding Ig kappa chain V23-J2 region | Authors: | Yokota, A, Tsumoto, K, Shiroishi, M, Kondo, H, Kumagai, I. | Deposit date: | 2002-12-13 | Release date: | 2003-01-14 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | The Role of Hydrogen Bonding via Interfacial Water Molecules in Antigen-Antibody Complexation. THE HyHEL-10-HEL INTERACTION J.BIOL.CHEM., 278, 2003
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1J08
| Crystal structure of glutaredoxin-like protein from Pyrococcus horikoshii | Descriptor: | glutaredoxin-like protein | Authors: | Tanaka, Y, Tanabe, E, Tsumoto, K, Kumagai, I, Yao, M, Tanaka, I. | Deposit date: | 2002-11-11 | Release date: | 2003-05-11 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Protein disulfide isomerase from hyperthermophile as an additives of refolding of an immunoglobulin-folded protein To be Published
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1J05
| The crystal structure of anti-carcinoembryonic antigen monoclonal antibody T84.66 Fv fragment | Descriptor: | GLYCEROL, PHOSPHATE ION, anti-CEA mAb T84.66, ... | Authors: | Kondo, H, Nishimura, Y, Shiroishi, M, Asano, R, Noro, N, Tsumoto, K, Kumagai, I. | Deposit date: | 2002-11-01 | Release date: | 2003-12-16 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | The crystal structure of anti-carcinoembryonic antigen monoclonal antibody T84.66 Fv fragment To be Published
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1J1O
| Crystal Structure of HyHEL-10 Fv mutant LY50F complexed with hen egg white lysozyme | Descriptor: | Ig VH,anti-lysozyme, Lysozyme C, lysozyme binding Ig kappa chain V23-J2 region | Authors: | Yokota, A, Tsumoto, K, Shiroishi, M, Kondo, H, Kumagai, I. | Deposit date: | 2002-12-13 | Release date: | 2003-01-14 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | The Role of Hydrogen Bonding via Interfacial Water Molecules in Antigen-Antibody Complexation. THE HyHEL-10-HEL INTERACTION J.BIOL.CHEM., 278, 2003
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1J1X
| Crystal Structure of HyHEL-10 Fv mutant LS93A complexed with hen egg white lysozyme | Descriptor: | Ig VH,anti-lysozyme, Lysozyme C, lysozyme binding Ig kappa chain V23-J2 region | Authors: | Yokota, A, Tsumoto, K, Shiroishi, M, Kondo, H, Kumagai, I. | Deposit date: | 2002-12-20 | Release date: | 2003-01-14 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | The Role of Hydrogen Bonding via Interfacial Water Molecules in Antigen-Antibody Complexation. THE HyHEL-10-HEL INTERACTION J.BIOL.CHEM., 278, 2003
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1J2V
| Crystal Structure of CutA1 from Pyrococcus Horikoshii | Descriptor: | 102AA long hypothetical periplasmic divalent cation tolerance protein CUTA | Authors: | Tanaka, Y, Sakai, N, Yasutake, Y, Yao, M, Tsumoto, K, Kumagai, I, Tanaka, I. | Deposit date: | 2003-01-11 | Release date: | 2004-01-13 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural implications for heavy metal-induced reversible assembly and aggregation of a protein: the case of Pyrococcus horikoshii CutA. Febs Lett., 556, 2004
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3VTM
| Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Indium-porphyrin | Descriptor: | GLYCEROL, Iron-regulated surface determinant protein H, PROTOPORPHYRIN IX CONTAINING INDIUM | Authors: | Vu, N.T, Caaveiro, J.M.M, Moriwaki, Y, Tsumoto, K. | Deposit date: | 2012-05-31 | Release date: | 2013-05-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Selective binding of antimicrobial porphyrins to the heme-receptor IsdH-NEAT3 of Staphylococcus aureus Protein Sci., 22, 2013
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1WT5
| The Crystal Structure Of A Humanized Antibody Fv 528 | Descriptor: | ANTI EGFR ANTIBODY FV REGION | Authors: | Makabe, K, Tsumoto, K, Asano, R, Kondo, H, Kumagai, I. | Deposit date: | 2004-11-16 | Release date: | 2005-05-16 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Thermodynamic consequences of mutations in vernier zone residues of a humanized anti-human epidermal growth factor receptor murine antibody, 528 J.Biol.Chem., 283, 2008
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3VUA
| Apo IsdH-NEAT3 in space group P3121 at a resolution of 1.85 A | Descriptor: | ACETATE ION, GLYCEROL, Iron-regulated surface determinant protein H, ... | Authors: | Vu, N.T, Caaveiro, J.M.M, Moriwaki, Y, Tsumoto, K. | Deposit date: | 2012-06-26 | Release date: | 2013-06-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.85 Å) | Cite: | Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Indium-porphyrin To be Published
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2Z4Q
| Crystal structure of a murine antibody FAB 528 | Descriptor: | CADMIUM ION, CHLORIDE ION, anti egfr antibody fab, ... | Authors: | Nakanishi, T, Tsumoto, K, Asano, R, Kondo, H, Kumagai, I. | Deposit date: | 2007-06-22 | Release date: | 2007-10-30 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Thermodynamic consequences of mutations in vernier zone residues of a humanized anti-human epidermal growth factor receptor murine antibody, 528 J.Biol.Chem., 283, 2008
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7CUE
| Crystal structure of HID2 bound to human Hemoglobin | Descriptor: | Amino acid ABC transporter substrate-binding protein, Hemoglobin subunit alpha, Hemoglobin subunit beta, ... | Authors: | Caaveiro, J.M.M, Hoshino, M, Tsumoto, K. | Deposit date: | 2020-08-22 | Release date: | 2021-07-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.75 Å) | Cite: | Structural basis for the recognition of human hemoglobin by the Shr protein from Streptococcus pyogenes To Be Published
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7CUD
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7CYM
| Crystal structure of LI-Cadherin EC1-4 | 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: | Caaveiro, J.M.M, Yui, A, Tsumoto, K. | Deposit date: | 2020-09-03 | Release date: | 2021-08-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Mechanism of dimerization and structural features of human LI-cadherin. J.Biol.Chem., 297, 2021
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5YQ5
| Crystal structure of human osteomodulin | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Osteomodulin, PHOSPHATE ION | Authors: | Caaveiro, J.M.M, Tashima, T, Tsumoto, K. | Deposit date: | 2017-11-05 | Release date: | 2018-04-25 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.17 Å) | Cite: | Molecular basis for governing the morphology of type-I collagen fibrils by Osteomodulin. Commun Biol, 1, 2018
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4YRD
| Crystal structure of CapF with inhibitor 3-isopropenyl-tropolone | Descriptor: | 2-hydroxy-3-(prop-1-en-2-yl)cyclohepta-2,4,6-trien-1-one, Capsular polysaccharide synthesis enzyme Cap5F, ZINC ION | Authors: | Nakano, K, Chigira, T, Miyafusa, T, Nagatoishi, S, Caaveiro, J.M.M, Tsumoto, K. | Deposit date: | 2015-03-15 | Release date: | 2015-10-21 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.44 Å) | Cite: | Discovery and characterization of natural tropolones as inhibitors of the antibacterial target CapF from Staphylococcus aureus. Sci Rep, 5, 2015
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3VWI
| High resolution crystal structure of FraC in the monomeric form | Descriptor: | AMMONIUM ION, CHLORIDE ION, Fragaceatoxin C, ... | Authors: | Tanaka, K, Morante, K, Caaveiro, J.M.M, Gonzalez-Manas, J.M, Tsumoto, K. | Deposit date: | 2012-08-23 | Release date: | 2013-08-28 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural basis for self-assembly of a cytolytic pore lined by protein and lipid Nat Commun, 6, 2015
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5AZ2
| Crystal structure of the Fab fragment of 9E5, a murine monoclonal antibody specific for human epiregulin | Descriptor: | anti-human epiregulin antibody 9E5 Fab heavy chain, anti-human epiregulin antibody 9E5 Fab light chain | Authors: | Kado, Y, Mizohata, E, Nagatoishi, S, Iijima, M, Shinoda, K, Miyafusa, T, Nakayama, T, Yoshizumi, T, Sugiyama, A, Kawamura, T, Lee, Y.H, Matsumura, H, Doi, H, Fujitani, H, Kodama, T, Shibasaki, Y, Tsumoto, K, Inoue, T. | Deposit date: | 2015-09-16 | Release date: | 2015-12-09 | Last modified: | 2020-02-26 | Method: | X-RAY DIFFRACTION (1.603 Å) | Cite: | Epiregulin Recognition Mechanisms by Anti-epiregulin Antibody 9E5: STRUCTURAL, FUNCTIONAL, AND MOLECULAR DYNAMICS SIMULATION ANALYSES J.Biol.Chem., 291, 2016
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2D31
| Crystal structure of disulfide-linked HLA-G dimer | Descriptor: | 9-mer peptide from Histone H2A, Beta-2-microglobulin, HLA class I histocompatibility antigen, ... | Authors: | Shiroishi, M, Kuroki, K, Ose, T, Rasubala, L, Shiratori, I, Arase, H, Tsumoto, K, Kumagai, I, Kohda, D, Maenaka, K. | Deposit date: | 2005-09-23 | Release date: | 2006-03-14 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Efficient Leukocyte Ig-like Receptor Signaling and Crystal Structure of Disulfide-linked HLA-G Dimer J.Biol.Chem., 281, 2006
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5BTQ
| Crystal structure of human heme oxygenase 1 H25R with biliverdin bound | Descriptor: | BILIVERDINE IX ALPHA, Heme oxygenase 1, SULFATE ION | Authors: | Caaveiro, J.M.M, Morante, K, Sigala, P, Tsumoto, K. | Deposit date: | 2015-06-03 | Release date: | 2016-06-08 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.08 Å) | Cite: | In-Cell Enzymology To Probe His-Heme Ligation in Heme Oxygenase Catalysis Biochemistry, 55, 2016
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5BPG
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