7FI3
| Archaeal oligopeptide permease A (OppA) from Thermococcus kodakaraensis in complex with an endogenous pentapeptide | Descriptor: | ABC-type dipeptide/oligopeptide transport system, GLYCEROL, HEXAETHYLENE GLYCOL, ... | Authors: | Yokoyama, H, Kamei, N, Konishi, K, Hara, K, Hashimoto, H. | Deposit date: | 2021-07-30 | Release date: | 2022-04-13 | Last modified: | 2022-06-22 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural basis for peptide recognition by archaeal oligopeptide permease A. Proteins, 90, 2022
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4XZG
| Crystal structure of HIRAN domain of human HLTF | Descriptor: | Helicase-like transcription factor | Authors: | Ikegaya, Y, Hara, K, Hashimoto, H. | Deposit date: | 2015-02-04 | Release date: | 2015-04-15 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Structure of a Novel DNA-binding Domain of Helicase-like Transcription Factor (HLTF) and Its Functional Implication in DNA Damage Tolerance J.Biol.Chem., 290, 2015
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1T1R
| Crystal Structure of the Reductoisomerase Complexed with a Bisphosphonate | Descriptor: | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, SULFATE ION, [(ISOQUINOLIN-1-YLAMINO)-PHOSPHONO-METHYL]-PHOSPHONIC ACID | Authors: | Yajima, S, Hara, K, Sanders, J.M, Yin, F, Ohsawa, K, Wiesner, J, Jomaa, H, Oldfield, E. | Deposit date: | 2004-04-17 | Release date: | 2004-09-14 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Crystallographic Structures of Two Bisphosphonate:1-Deoxyxylulose-5-Phosphate Reductoisomerase Complexes J.Am.Chem.Soc., 126, 2004
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1T1S
| Crystal Structure of the Reductoisomerase Complexed with a Bisphosphonate | Descriptor: | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, MAGNESIUM ION, SULFATE ION, ... | Authors: | Yajima, S, Hara, K, Sanders, J.M, Yin, F, Ohsawa, K, Wiesner, J, Jomaa, H, Oldfield, E. | Deposit date: | 2004-04-17 | Release date: | 2004-09-14 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Crystallographic Structures of Two Bisphosphonate:1-Deoxyxylulose-5-Phosphate Reductoisomerase Complexes J.Am.Chem.Soc., 126, 2004
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1V3M
| Crystal structure of F283Y mutant cyclodextrin glycosyltransferase complexed with a pseudo-tetraose derived from acarbose | Descriptor: | 4,6-dideoxy-alpha-D-xylo-hexopyranose-(1-4)-beta-D-galactopyranose, 6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4-ENE-1,2,3-TRIOL, CALCIUM ION, ... | Authors: | Kanai, R, Haga, K, Akiba, T, Yamane, K, Harata, K. | Deposit date: | 2003-11-03 | Release date: | 2004-08-03 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Role of Phe283 in enzymatic reaction of cyclodextrin glycosyltransferase from alkalophilic Bacillus sp.1011: Substrate binding and arrangement of the catalytic site PROTEIN SCI., 13, 2004
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1V3K
| Crystal structure of F283Y mutant cyclodextrin glycosyltransferase | Descriptor: | CALCIUM ION, Cyclomaltodextrin glucanotransferase | Authors: | Kanai, R, Haga, K, Akiba, T, Yamane, K, Harata, K. | Deposit date: | 2003-11-03 | Release date: | 2004-08-03 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Role of Phe283 in enzymatic reaction of cyclodextrin glycosyltransferase from alkalophilic Bacillus sp.1011: substrate binding and arrangement of the catalytic site PROTEIN SCI., 13, 2004
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1UKQ
| Crystal structure of cyclodextrin glucanotransferase complexed with a pseudo-maltotetraose derived from acarbose | Descriptor: | 6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4-ENE-1,2,3-TRIOL, CALCIUM ION, Cyclomaltodextrin glucanotransferase, ... | Authors: | Haga, K, Kanai, R, Sakamoto, O, Harata, K, Yamane, K. | Deposit date: | 2003-09-01 | Release date: | 2004-02-24 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Effects of Essential Carbohydrate/Aromatic Stacking Interaction with Tyr100 and Phe259 on Substrate Binding of Cyclodextrin Glycosyltransferase from Alkalophilic Bacillus sp. 1011 J.Biochem.(Tokyo), 134, 2003
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1UKS
| Crystal structure of F183L/F259L mutant cyclodextrin glucanotransferase complexed with a pseudo-maltotetraose derived from acarbose | Descriptor: | 4,6-dideoxy-alpha-D-xylo-hexopyranose-(1-4)-beta-D-galactopyranose, 6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4-ENE-1,2,3-TRIOL, CALCIUM ION, ... | Authors: | Haga, K, Kanai, R, Sakamoto, O, Harata, K, Yamane, K. | Deposit date: | 2003-09-01 | Release date: | 2004-02-24 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Effects of Essential Carbohydrate/Aromatic Stacking Interaction with Tyr100 and Phe259 on Substrate Binding of Cyclodextrin Glycosyltransferase from Alkalophilic Bacillus sp. 1011 J.Biochem.(Tokyo), 134, 2003
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1UKT
| Crystal structure of Y100L mutant cyclodextrin glucanotransferase compexed with an acarbose | Descriptor: | 4,6-dideoxy-alpha-D-xylo-hexopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-beta-D-galactopyranose, 6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4-ENE-1,2,3-TRIOL, CALCIUM ION, ... | Authors: | Haga, K, Kanai, R, Sakamoto, O, Harata, K, Yamane, K. | Deposit date: | 2003-09-01 | Release date: | 2004-02-24 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Effects of Essential Carbohydrate/Aromatic Stacking Interaction with Tyr100 and Phe259 on Substrate Binding of Cyclodextrin Glycosyltransferase from Alkalophilic Bacillus sp. 1011 J.Biochem.(Tokyo), 134, 2003
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4U4P
| Crystal structure of the human condensin SMC hinge domain heterodimer with short coiled coils | Descriptor: | Structural maintenance of chromosomes protein 2, Structural maintenance of chromosomes protein 4 | Authors: | Uchiyama, S, Kawahara, K, Hosokawa, Y, Fukakusa, S, Oki, H, Nakamura, S, Noda, M, Takino, R, Miyahara, Y, Maruno, T, Kobayashi, Y, Ohkubo, T, Fukui, K. | Deposit date: | 2014-07-24 | Release date: | 2015-08-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.89 Å) | Cite: | Structural basis for dimer information and DNA recognition of human SMC proteins to be published
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1B7R
| VERIFICATION OF SPMP USING MUTANT HUMAN LYSOZYMES | Descriptor: | PROTEIN (LYSOZYME), SODIUM ION | Authors: | Takano, K, Ota, M, Ogasahara, K, Yamagata, Y, Nishikawa, K, Yutani, K. | Deposit date: | 1999-01-25 | Release date: | 1999-02-02 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Experimental verification of the 'stability profile of mutant protein' (SPMP) data using mutant human lysozymes. Protein Eng., 12, 1999
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1B7M
| VERIFICATION OF SPMP USING MUTANT HUMAN LYSOZYMES | Descriptor: | PROTEIN (LYSOZYME), SODIUM ION | Authors: | Takano, K, Ota, M, Ogasahara, K, Yamagata, Y, Nishikawa, K, Yutani, K. | Deposit date: | 1999-01-24 | Release date: | 1999-01-27 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Experimental verification of the 'stability profile of mutant protein' (SPMP) data using mutant human lysozymes. Protein Eng., 12, 1999
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1B7Q
| VERIFICATION OF SPMP USING MUTANT HUMAN LYSOZYMES | Descriptor: | PROTEIN (LYSOZYME), SODIUM ION | Authors: | Takano, K, Ota, M, Ogasahara, K, Yamagata, Y, Nishikawa, K, Yutani, K. | Deposit date: | 1999-01-25 | Release date: | 1999-02-02 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Experimental verification of the 'stability profile of mutant protein' (SPMP) data using mutant human lysozymes. Protein Eng., 12, 1999
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1AKL
| ALKALINE PROTEASE FROM PSEUDOMONAS AERUGINOSA IFO3080 | Descriptor: | ALKALINE PROTEASE, CALCIUM ION, ZINC ION | Authors: | Miyatake, H, Hata, Y, Fujii, T, Hamada, K, Morihara, K, Katsube, Y. | Deposit date: | 1995-09-16 | Release date: | 1996-03-08 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structure of the unliganded alkaline protease from Pseudomonas aeruginosa IFO3080 and its conformational changes on ligand binding. J.Biochem.(Tokyo), 118, 1995
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1GDE
| CRYSTAL STRUCTURE OF PYROCOCCUS PROTEIN A-1 E-FORM | Descriptor: | ASPARTATE AMINOTRANSFERASE, GLUTAMIC ACID, PYRIDOXAL-5'-PHOSPHATE | Authors: | Ura, H, Harata, K, Matsui, I, Kuramitsu, S. | Deposit date: | 2000-09-23 | Release date: | 2001-09-23 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Temperature dependence of the enzyme-substrate recognition mechanism. J.Biochem., 129, 2001
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1UIX
| Coiled-coil structure of the RhoA-binding domain in Rho-kinase | Descriptor: | Rho-associated kinase | Authors: | Shimizu, T, Ihara, K, Maesaki, R, Amano, M, Kaibuchi, K, Hakoshima, T. | Deposit date: | 2003-07-23 | Release date: | 2003-10-21 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Parallel coiled-coil association of the RhoA-binding domain in Rho-kinase J.Biol.Chem., 278, 2003
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1UJB
| Structure of the protein histidine phosphatase SixA | Descriptor: | CALCIUM ION, Phosphohistidine phosphatase sixA | Authors: | Hamada, K, Kato, M, Shimizu, T, Ihara, K, Mizuno, T, Hakoshima, T. | Deposit date: | 2003-07-31 | Release date: | 2005-01-25 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.06 Å) | Cite: | Crystal structure of the protein histidine phosphatase SixA in the multistep His-Asp phosphorelay. Genes Cells, 10, 2005
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1UJC
| Structure of the protein histidine phosphatase SixA complexed with tungstate | Descriptor: | CALCIUM ION, Phosphohistidine phosphatase sixA, TUNGSTATE(VI)ION | Authors: | Hamada, K, Kato, M, Shimizu, T, Ihara, K, Mizuno, T, Hakoshima, T. | Deposit date: | 2003-07-31 | Release date: | 2005-01-25 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Crystal structure of the protein histidine phosphatase SixA in the multistep His-Asp phosphorelay. Genes Cells, 10, 2005
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3ALR
| Crystal structure of Nanos | Descriptor: | Nanos protein, ZINC ION | Authors: | Hashimoto, H, Hara, K, Hishiki, A, Kawaguchi, S, Shichijo, N, Nakamura, K, Unzai, S, Tamaru, Y, Shimizu, T, Sato, M. | Deposit date: | 2010-08-06 | Release date: | 2011-02-02 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Crystal structure of zinc-finger domain of Nanos and its functional implications Embo Rep., 11, 2010
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3VU7
| Crystal structure of REV1-REV7-REV3 ternary complex | Descriptor: | DNA polymerase zeta catalytic subunit, DNA repair protein REV1, Mitotic spindle assembly checkpoint protein MAD2B | Authors: | Kikuchi, S, Hara, K, Shimizu, T, Sato, M, Hashimoto, H. | Deposit date: | 2012-06-20 | Release date: | 2012-08-08 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Structural basis of recruitment of DNA polymerase [zeta] by interaction between REV1 and REV7 proteins J.Biol.Chem., 287, 2012
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2EIX
| The Structure of Physarum polycephalum cytochrome b5 reductase | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, IODIDE ION, ... | Authors: | Kim, S.W, Suga, M, Ogasahara, K, Ikegami, T, Minami, Y, Yubisui, T, Tsukihara, T. | Deposit date: | 2007-03-14 | Release date: | 2007-04-17 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.56 Å) | Cite: | Structure of Physarum polycephalum cytochrome b5 reductase at 1.56 A resolution. Acta Crystallogr.,Sect.F, 63, 2007
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1A0A
| PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4/DNA COMPLEX | Descriptor: | DNA (5'-D(*CP*TP*AP*GP*TP*CP*CP*CP*AP*CP*GP*TP*GP*TP*GP*AP*G )-3'), DNA (5'-D(*CP*TP*CP*AP*CP*AP*CP*GP*TP*GP*GP*GP*AP*CP*TP*AP*G )-3'), PROTEIN (PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4) | Authors: | Shimizu, T, Toumoto, A, Ihara, K, Shimizu, M, Kyogoku, Y, Ogawa, N, Oshima, Y, Hakoshima, T. | Deposit date: | 1997-11-27 | Release date: | 1998-03-18 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystal structure of PHO4 bHLH domain-DNA complex: flanking base recognition. EMBO J., 16, 1997
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8YTD
| Crystal Structure of TrkA D5 domain in complex with two different macrocyclic peptides | Descriptor: | 1,2-ETHANEDIOL, High affinity nerve growth factor receptor, Macrocyclic Peptide | Authors: | Yamada, T, Mihara, K, Ueda, T, Yamauchi, D, Shimizu, M, Ando, A, Mayumi, K, Nakata, Z, Mikamiyama, H. | Deposit date: | 2024-03-25 | Release date: | 2024-07-10 | Last modified: | 2024-07-24 | Method: | X-RAY DIFFRACTION (2.34 Å) | Cite: | Discovery and Hit to Lead Optimization of Macrocyclic Peptides as Novel Tropomyosin Receptor Kinase A Antagonists. J.Med.Chem., 67, 2024
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8YTE
| Crystal Structure of TrkA D5 domain in complex with macrocyclic peptide | Descriptor: | 1,2-ETHANEDIOL, AMINOMETHYLAMIDE, High affinity nerve growth factor receptor, ... | Authors: | Yamada, T, Mihara, K, Ueda, T, Yamauchi, D, Shimizu, M, Ando, A, Mayumi, K, Nakata, Z, Mikamiyama, H. | Deposit date: | 2024-03-25 | Release date: | 2024-07-10 | Last modified: | 2024-07-24 | Method: | X-RAY DIFFRACTION (2.26 Å) | Cite: | Discovery and Hit to Lead Optimization of Macrocyclic Peptides as Novel Tropomyosin Receptor Kinase A Antagonists. J.Med.Chem., 67, 2024
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2EFD
| Ara7/AtVps9a | Descriptor: | Similarity to vacuolar protein sorting-associated protein VPS9, Small GTP-binding protein-like | Authors: | Uejima, T, Ihara, K, Wakatsuki, S. | Deposit date: | 2007-02-22 | Release date: | 2008-02-26 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system J.Biol.Chem., 285, 2010
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