7EF9
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![BU of 7ef9 by Molmil](/molmil-images/mine/7ef9) | Crystal structure of mouse MUTYH in complex with DNA containing AP site analogue:8-oxoG (Form II) | Descriptor: | Adenine DNA glycosylase, DNA (5'-D(*AP*TP*GP*AP*GP*AP*CP*(8OG)P*GP*GP*GP*AP*CP*T)-3'), DNA (5'-D(*TP*AP*GP*TP*CP*CP*CP*(3DR)P*GP*TP*CP*TP*C)-3'), ... | Authors: | Nakamura, T, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2021-03-21 | Release date: | 2021-06-23 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (1.97 Å) | Cite: | Structure of the mammalian adenine DNA glycosylase MUTYH: insights into the base excision repair pathway and cancer. Nucleic Acids Res., 49, 2021
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7EF8
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![BU of 7ef8 by Molmil](/molmil-images/mine/7ef8) | Crystal structure of mouse MUTYH in complex with DNA containing AP site analogue:8-oxoG (Form I) | Descriptor: | Adenine DNA glycosylase, DNA (5'-D(*TP*AP*GP*TP*CP*CP*CP*(3DR)P*GP*TP*CP*TP*C)-3'), DNA (5'-D(*TP*GP*AP*GP*AP*CP*(8OG)P*GP*GP*GP*AP*CP*T)-3'), ... | Authors: | Nakamura, T, Nakabeppu, Y, Yamagata, Y. | Deposit date: | 2021-03-21 | Release date: | 2021-06-23 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.45 Å) | Cite: | Structure of the mammalian adenine DNA glycosylase MUTYH: insights into the base excision repair pathway and cancer. Nucleic Acids Res., 49, 2021
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7EFA
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6KX0
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![BU of 6kx0 by Molmil](/molmil-images/mine/6kx0) | Crystal structure of SN-101 mAb non-liganded form | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, Fab Fragment-SN-101-Heavy chain, Fab Fragment-SN-101-Light chain | Authors: | Wakui, H, Tanaka, Y, Kato, K, Ose, T, Matsumoto, I, Min, Y, Tachibana, T, Nishimura, S.-I. | Deposit date: | 2019-09-09 | Release date: | 2020-07-29 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.404 Å) | Cite: | A straightforward approach to antibodies recognising cancer specific glycopeptidic neoepitopes Chem Sci, 11, 2020
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6KX1
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![BU of 6kx1 by Molmil](/molmil-images/mine/6kx1) | Crystal structure of SN-101 mAb in complex with MUC1 glycopeptide | Descriptor: | 2-acetamido-2-deoxy-alpha-D-galactopyranose, Fab Fragment-SN-101-Heavy chain, Fab Fragment-SN-101-Light chain, ... | Authors: | Wakui, H, Tanaka, Y, Kato, K, Ose, T, Matsumoto, I, Min, Y, Tachibana, T, Nishimura, S.-I. | Deposit date: | 2019-09-09 | Release date: | 2020-07-29 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.773 Å) | Cite: | A straightforward approach to antibodies recognising cancer specific glycopeptidic neoepitopes Chem Sci, 11, 2020
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5FCL
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![BU of 5fcl by Molmil](/molmil-images/mine/5fcl) | Crystal structure of Cas1 from Pectobacterium atrosepticum | Descriptor: | CRISPR-associated endonuclease Cas1 | Authors: | Wilkinson, M.E, Nakatani, Y, Opel-Reading, H.K, Fineran, P.C, Krause, K.L. | Deposit date: | 2015-12-15 | Release date: | 2016-03-16 | Last modified: | 2024-03-06 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Structural plasticity and in vivo activity of Cas1 from the type I-F CRISPR-Cas system. Biochem.J., 473, 2016
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5HJ7
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![BU of 5hj7 by Molmil](/molmil-images/mine/5hj7) | Glutamate Racemase Mycobacterium tuberculosis (MurI) with bound D-glutamate, 2.3 Angstrom resolution, X-ray diffraction | Descriptor: | D-GLUTAMIC ACID, Glutamate racemase | Authors: | Poen, S, Nakatani, Y, Krause, K. | Deposit date: | 2016-01-12 | Release date: | 2016-05-25 | Last modified: | 2024-03-06 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Exploring the structure of glutamate racemase from Mycobacterium tuberculosis as a template for anti-mycobacterial drug discovery. Biochem. J., 473, 2016
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5H6O
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![BU of 5h6o by Molmil](/molmil-images/mine/5h6o) | Porphobilinogen deaminase from Vibrio Cholerae | Descriptor: | 3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid, MAGNESIUM ION, Porphobilinogen deaminase | Authors: | Funamizu, T, Chen, M, Tanaka, Y, Ishimori, K, Uchida, T. | Deposit date: | 2016-11-14 | Release date: | 2017-11-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.702 Å) | Cite: | Porphobilinogen deaminase from Vibrio Cholerae To Be Published
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5Z46
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![BU of 5z46 by Molmil](/molmil-images/mine/5z46) | Crystal structure of prenyltransferase AmbP1 pH8 complexed with GSPP and cis-indolyl vinyl isonitrile | Descriptor: | 3-[(Z)-2-isocyanoethenyl]-1H-indole, AmbP1, GERANYL S-THIOLODIPHOSPHATE, ... | Authors: | Awakawa, T, Nakashima, Y, Mori, T, Abe, I. | Deposit date: | 2018-01-10 | Release date: | 2018-06-06 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.999 Å) | Cite: | Molecular Insight into the Mg2+-Dependent Allosteric Control of Indole Prenylation by Aromatic Prenyltransferase AmbP1 Angew. Chem. Int. Ed. Engl., 57, 2018
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5ZN7
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![BU of 5zn7 by Molmil](/molmil-images/mine/5zn7) | |
6AL3
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![BU of 6al3 by Molmil](/molmil-images/mine/6al3) | Lys49 PLA2 BPII derived from the venom of Protobothrops flavoviridis. | Descriptor: | Basic phospholipase A2 BP-II, SULFATE ION | Authors: | Matsui, T, Kamata, S, Suzuki, A, Oda-Ueda, N, Ogawa, T, Tanaka, Y. | Deposit date: | 2018-09-05 | Release date: | 2019-01-16 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.57 Å) | Cite: | SDS-induced oligomerization of Lys49-phospholipase A2from snake venom. Sci Rep, 9, 2019
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5CEM
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5CEK
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3B0U
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![BU of 3b0u by Molmil](/molmil-images/mine/3b0u) | tRNA-dihydrouridine synthase from Thermus thermophilus in complex with tRNA fragment | Descriptor: | FLAVIN MONONUCLEOTIDE, RNA (5'-R(*GP*GP*(H2U)P*A)-3'), tRNA-dihydrouridine synthase | Authors: | Yu, F, Tanaka, Y, Yamashita, K, Nakamura, A, Yao, M, Tanaka, I. | Deposit date: | 2011-06-14 | Release date: | 2011-12-14 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.948 Å) | Cite: | Molecular basis of dihydrouridine formation on tRNA Proc.Natl.Acad.Sci.USA, 108, 2011
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5DE0
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![BU of 5de0 by Molmil](/molmil-images/mine/5de0) | Dye-decolorizing protein from V. cholerae | Descriptor: | Deferrochelatase, PROTOPORPHYRIN IX CONTAINING FE | Authors: | Uchida, T, Sasaki, M, Tanaka, Y, Yao, M. | Deposit date: | 2015-08-25 | Release date: | 2015-10-21 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.24 Å) | Cite: | A Dye-Decolorizing Peroxidase from Vibrio cholerae. Biochemistry, 54, 2015
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3B0V
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![BU of 3b0v by Molmil](/molmil-images/mine/3b0v) | tRNA-dihydrouridine synthase from Thermus thermophilus in complex with tRNA | Descriptor: | FLAVIN MONONUCLEOTIDE, tRNA, tRNA-dihydrouridine synthase | Authors: | Yu, F, Tanaka, Y, Yamashita, K, Nakamura, A, Yao, M, Tanaka, I. | Deposit date: | 2011-06-14 | Release date: | 2011-12-14 | Last modified: | 2017-10-11 | Method: | X-RAY DIFFRACTION (3.51 Å) | Cite: | Molecular basis of dihydrouridine formation on tRNA Proc.Natl.Acad.Sci.USA, 108, 2011
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3AZV
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![BU of 3azv by Molmil](/molmil-images/mine/3azv) | Crystal structure of the receptor binding domain | Descriptor: | D/C mosaic neurotoxin, SULFATE ION | Authors: | Nuemket, N, Tanaka, Y, Tsukamoto, K, Tsuji, T, Nakamura, K, Kozaki, S, Yao, M, Tanaka, I. | Deposit date: | 2011-06-02 | Release date: | 2011-12-28 | Last modified: | 2017-10-11 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Structural and mutational analyses of the receptor binding domain of botulinum D/C mosaic neurotoxin: insight into the ganglioside binding mechanism Biochem.Biophys.Res.Commun., 411, 2011
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3AZW
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![BU of 3azw by Molmil](/molmil-images/mine/3azw) | Crystal structure of the receptor binding domain | Descriptor: | D/C mosaic neurotoxin, SULFATE ION | Authors: | Nuemket, N, Tanaka, Y, Tsukamoto, K, Tsuji, T, Nakamura, K, Kozaki, S, Yao, M, Tanaka, I. | Deposit date: | 2011-06-02 | Release date: | 2011-12-28 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.99 Å) | Cite: | Structural and mutational analyses of the receptor binding domain of botulinum D/C mosaic neurotoxin: insight into the ganglioside binding mechanism Biochem.Biophys.Res.Commun., 411, 2011
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5B12
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![BU of 5b12 by Molmil](/molmil-images/mine/5b12) | Crystal structure of the B-type halohydrin hydrogen-halide-lyase mutant F71W/Q125T/D199H from Corynebacterium sp. N-1074 | Descriptor: | CHLORIDE ION, Halohydrin epoxidase B | Authors: | Watanabe, F, Yu, F, Ohtaki, A, Yamanaka, Y, Noguchi, K, Odaka, M, Yohda, M. | Deposit date: | 2015-11-17 | Release date: | 2016-08-03 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.721 Å) | Cite: | Improvement of enantioselectivity of the B-type halohydrin hydrogen-halide-lyase from Corynebacterium sp. N-1074 J.Biosci.Bioeng., 122, 2016
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3B0P
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![BU of 3b0p by Molmil](/molmil-images/mine/3b0p) | tRNA-dihydrouridine synthase from Thermus thermophilus | Descriptor: | FLAVIN MONONUCLEOTIDE, tRNA-dihydrouridine synthase | Authors: | Yu, F, Tanaka, Y, Yamashita, K, Nakamura, A, Yao, M, Tanaka, I. | Deposit date: | 2011-06-12 | Release date: | 2011-12-14 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Molecular basis of dihydrouridine formation on tRNA Proc.Natl.Acad.Sci.USA, 108, 2011
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5B19
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![BU of 5b19 by Molmil](/molmil-images/mine/5b19) | Picrophilus torridus aspartate racemase | Descriptor: | Aspartate racemase, L(+)-TARTARIC ACID | Authors: | Aihara, T, Ito, T, Yamanaka, Y, Noguchi, K, Odaka, M, Sekine, M, Homma, H, Yohda, M. | Deposit date: | 2015-11-30 | Release date: | 2016-06-22 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.851 Å) | Cite: | Structural and functional characterization of aspartate racemase from the acidothermophilic archaeon Picrophilus torridus Extremophiles, 20, 2016
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2EL2
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![BU of 2el2 by Molmil](/molmil-images/mine/2el2) | Structural study of Project ID PH0725 from Pyrococcus horikoshii OT3 (L185M) | Descriptor: | S-ADENOSYL-L-HOMOCYSTEINE, SODIUM ION, diphthine synthase | Authors: | Asada, Y, Tanaka, Y, Pampa, K, Matsuura, Y, Kunishima, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-03-26 | Release date: | 2007-10-02 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural study of Project ID PH0725 from Pyrococcus horikoshii OT3 (L185M) To be Published
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2EKB
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![BU of 2ekb by Molmil](/molmil-images/mine/2ekb) | Structural study of Project ID TTHB049 from Thermus thermophilus HB8 (L19M) | Descriptor: | Alpha-ribazole-5'-phosphate phosphatase, SODIUM ION | Authors: | Asada, Y, Taketa, M, Tanaka, Y, Matsuura, Y, Kunishima, N, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-03-22 | Release date: | 2007-09-25 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural study of Project ID TTHB049 from Thermus thermophilus HB8 (L19M) To be Published
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8IFC
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![BU of 8ifc by Molmil](/molmil-images/mine/8ifc) | Arbekacin-bound E.coli 70S ribosome in the PURE system | Descriptor: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | Authors: | Tomono, J, Asano, K, Chiashi, T, Tanaka, Y, Yokoyama, T. | Deposit date: | 2023-02-17 | Release date: | 2024-02-14 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (2.9 Å) | Cite: | Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside. J.Biochem., 175, 2024
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8IFD
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![BU of 8ifd by Molmil](/molmil-images/mine/8ifd) | Dibekacin-added human 80S ribosome | Descriptor: | 18S ribosomal RNA, 28S ribosomal RNA, 40S ribosomal protein S10, ... | Authors: | Tomono, J, Asano, K, Chiashi, T, Tanaka, Y, Yokoyama, T. | Deposit date: | 2023-02-17 | Release date: | 2024-02-14 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (2.59 Å) | Cite: | Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside. J.Biochem., 175, 2024
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