6IZP
 
 | | Solution structure of the complex of naphthyridine carbamate dimer and an RNA with UGGAA-UGGAA pentad | | 分子名称: | 3-[3-[(7-methyl-1,8-naphthyridin-2-yl)carbamoyloxy]propylamino]propyl ~{N}-(7-methyl-1,8-naphthyridin-2-yl)carbamate, RNA (29-MER) | | 著者 | Nagano, K, Shibata, T, Nakatani, K, Kawai, G. | | 登録日 | 2018-12-20 | | 公開日 | 2019-12-25 | | 最終更新日 | 2023-06-14 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Small molecule targeting r(UGGAA)n disrupts RNA foci and alleviates disease phenotype in Drosophila model
Nat Commun, 12, 2021
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1GD7
 | | CRYSTAL STRUCTURE OF A BIFUNCTIONAL PROTEIN (CSAA) WITH EXPORT-RELATED CHAPERONE AND TRNA-BINDING ACTIVITIES. | | 分子名称: | CSAA PROTEIN | | 著者 | Shibata, T, Inoue, Y, Vassylyev, D.G, Kawaguchi, S, Yokoyama, S, Muller, J, Linde, D, Kuramitsu, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2000-09-22 | | 公開日 | 2001-09-22 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | The crystal structure of the ttCsaA protein: an export-related chaperone from Thermus thermophilus.
EMBO J., 20, 2001
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4TWZ
 | | Crystal Structure Analysis of E Coli. RecA Protein | | 分子名称: | MAGNESIUM ION, Protein RecA | | 著者 | Hikima, T, Hiraki, T, Furuse, M, Ikawa, S, Iwasaki, W, Shibata, T, Kamiya, N. | | 登録日 | 2014-07-02 | | 公開日 | 2015-07-08 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | | 主引用文献 | Loop L1 governs the DNA-binding specificity and order for RecA-catalyzed reactions in homologous recombination and DNA repair
Nucleic Acids Res., 43, 2015
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3GJK
 | | crystal structure of a DNA duplex containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one | | 分子名称: | 5'-D(*CP*GP*CP*GP*AP*A)-3', 5'-D(P*TP*TP*(B7C)P*GP*CP*G)-3', POTASSIUM ION | | 著者 | Takenaka, A, Juan, E.C.M, Shimizu, S, Haraguchi, T, Xiao, M, Kurose, T, Ohkubo, A, Sekine, M, Shibata, T, Millington, C.L, Williams, D.M. | | 登録日 | 2009-03-09 | | 公開日 | 2010-03-31 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | Insights into the stabilizing contributions of bicyclic cytosine analogues: crystal structures of DNA duplexes containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one
To be Published
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3GJL
 | | crystal structure of a DNA duplex containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one | | 分子名称: | 5'-D(*CP*GP*CP*GP*AP*A)-3', 5'-D(P*TP*TP*(B7C)P*GP*CP*G)-3', SODIUM ION | | 著者 | Takenaka, A, Juan, E.C.M, Shimizu, S, Haraguchi, T, Xiao, M, Kurose, T, Ohkubo, A, Sekine, M, Shibata, T, Millington, C.L, Williams, D.M. | | 登録日 | 2009-03-09 | | 公開日 | 2010-03-31 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (1.92 Å) | | 主引用文献 | Insights into the stabilizing contributions of bicyclic cytosine analogues: crystal structures of DNA duplexes containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one
To be Published
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3GJJ
 | | crystal structure of a DNA duplex containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one | | 分子名称: | 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE, 5'-D(*CP*GP*CP*GP*AP*AP*TP*(B7C)P*CP*GP*CP*G)-3' | | 著者 | Takenaka, A, Juan, E.C.M, Shimizu, S, Haraguchi, T, Xiao, M, Kurose, T, Ohkubo, A, Sekine, M, Shibata, T, Millington, C.L, Williams, D.M. | | 登録日 | 2009-03-09 | | 公開日 | 2010-03-31 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.9 Å) | | 主引用文献 | Insights into the stabilizing contributions of bicyclic cytosine analogues: crystal structures of DNA duplexes containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one
To be Published
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2RPD
 | | Mhr1p-bound ssDNA | | 分子名称: | DNA (5'-D(*DTP*DAP*DCP*DG)-3') | | 著者 | Masuda, T, Ito, Y, Shibata, T, Mikawa, T. | | 登録日 | 2008-05-15 | | 公開日 | 2009-05-26 | | 最終更新日 | 2022-03-16 | | 実験手法 | SOLUTION NMR | | 主引用文献 | A non-canonical DNA structure enables homologous recombination in various genetic systems
J.Biol.Chem., 284, 2009
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2RPF
 | | RecO-bound ssDNA | | 分子名称: | DNA (5'-D(*DTP*DAP*DCP*DG)-3') | | 著者 | Masuda, T, Ito, Y, Shibata, T, Mikawa, T. | | 登録日 | 2008-05-15 | | 公開日 | 2009-05-26 | | 最終更新日 | 2022-03-16 | | 実験手法 | SOLUTION NMR | | 主引用文献 | A non-canonical DNA structure enables homologous recombination in various genetic systems
J.Biol.Chem., 284, 2009
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2RPH
 | | RecT-bound ssDNA | | 分子名称: | DNA (5'-D(*DTP*DAP*DCP*DG)-3') | | 著者 | Masuda, T, Ito, Y, Shibata, T, Mikawa, T. | | 登録日 | 2008-05-15 | | 公開日 | 2009-05-26 | | 最終更新日 | 2023-06-14 | | 実験手法 | SOLUTION NMR | | 主引用文献 | A non-canonical DNA structure enables homologous recombination in various genetic systems
J.Biol.Chem., 284, 2009
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2RPE
 | | hsRad51-bound ssDNA | | 分子名称: | DNA (5'-D(*DTP*DAP*DCP*DG)-3') | | 著者 | Masuda, T, Ito, Y, Shibata, T, Mikawa, T. | | 登録日 | 2008-05-15 | | 公開日 | 2009-05-26 | | 最終更新日 | 2023-06-14 | | 実験手法 | SOLUTION NMR | | 主引用文献 | A non-canonical DNA structure enables homologous recombination in various genetic systems
J.Biol.Chem., 284, 2009
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3REC
 | | ESCHERICHIA COLI RECA PROTEIN-BOUND DNA, NMR, 1 STRUCTURE | | 分子名称: | DNA (5'-D(*TP*A)-3') | | 著者 | Nishinaka, T, Ito, Y, Yokoyama, S, Shibata, T. | | 登録日 | 1997-04-17 | | 公開日 | 1997-10-22 | | 最終更新日 | 2022-03-16 | | 実験手法 | SOLUTION NMR | | 主引用文献 | An extended DNA structure through deoxyribose-base stacking induced by RecA protein.
Proc.Natl.Acad.Sci.USA, 94, 1997
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1AA3
 | | C-TERMINAL DOMAIN OF THE E. COLI RECA, NMR, MINIMIZED AVERAGE STRUCTURE | | 分子名称: | RECA | | 著者 | Aihara, H, Ito, Y, Kurumizaka, H, Terada, T, Yokoyama, S, Shibata, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 1997-01-22 | | 公開日 | 1997-07-23 | | 最終更新日 | 2024-04-10 | | 実験手法 | SOLUTION NMR | | 主引用文献 | An interaction between a specified surface of the C-terminal domain of RecA protein and double-stranded DNA for homologous pairing.
J.Mol.Biol., 274, 1997
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4R07
 | | Crystal structure of human TLR8 in complex with ORN06 | | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 3'-O-[(R)-{[(2R,3aR,4R,6R,6aR)-6-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-2-hydroxy-2-oxidotetrahydrofuro[3,4-d][1,3,2]dioxaphosphol-4-yl]methoxy}(hydroxy)phosphoryl]uridine 5'-(dihydrogen phosphate), ... | | 著者 | Tanji, H, Ohto, U, Shibata, T, Taoka, M, Yamauchi, Y, Isobe, T, Miyake, K, Shimizu, T. | | 登録日 | 2014-07-30 | | 公開日 | 2015-01-14 | | 最終更新日 | 2020-07-29 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Toll-like receptor 8 senses degradation products of single-stranded RNA
Nat.Struct.Mol.Biol., 22, 2015
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1EW1
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1B22
 | | RAD51 (N-TERMINAL DOMAIN) | | 分子名称: | DNA REPAIR PROTEIN RAD51 | | 著者 | Aihara, H, Ito, Y, Kurumizaka, H, Yokoyama, S, Shibata, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 1998-12-04 | | 公開日 | 1999-12-03 | | 最終更新日 | 2023-12-27 | | 実験手法 | SOLUTION NMR | | 主引用文献 | The N-terminal domain of the human Rad51 protein binds DNA: structure and a DNA binding surface as revealed by NMR.
J.Mol.Biol., 290, 1999
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1IPA
 | | CRYSTAL STRUCTURE OF RNA 2'-O RIBOSE METHYLTRANSFERASE | | 分子名称: | RNA 2'-O-RIBOSE METHYLTRANSFERASE | | 著者 | Nureki, O, Shirouzu, M, Hashimoto, K, Ishitani, R, Terada, T, Tamakoshi, M, Oshima, T, Chijimatsu, M, Takio, K, Vassylyev, D.G, Shibata, T, Inoue, Y, Kuramitsu, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2001-05-02 | | 公開日 | 2002-07-10 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | | 主引用文献 | An enzyme with a deep trefoil knot for the active-site architecture.
Acta Crystallogr.,Sect.D, 58, 2002
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1J1H
 | | Solution structure of a tmRNA-binding protein, SmpB, from Thermus thermophilus | | 分子名称: | Small Protein B | | 著者 | Someya, T, Nameki, N, Hosoi, H, Suzuki, S, Hatanaka, H, Fujii, M, Terada, T, Shirouzu, M, Inoue, Y, Shibata, T, Kuramitsu, S, Yokoyama, S, Kawai, G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2002-12-04 | | 公開日 | 2003-02-11 | | 最終更新日 | 2023-12-27 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Solution structure of a tmRNA-binding protein, SmpB, from Thermus thermophilus
FEBS Lett., 535, 2003
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1IQU
 | | Crystal structure of photolyase-thymine complex | | 分子名称: | FLAVIN-ADENINE DINUCLEOTIDE, PHOSPHATE ION, THYMINE, ... | | 著者 | Komori, H, Masui, R, Kuramitsu, S, Yokoyama, S, Shibata, T, Inoue, Y, Miki, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2001-08-03 | | 公開日 | 2002-05-08 | | 最終更新日 | 2023-10-25 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | Crystal structure of thermostable DNA photolyase: pyrimidine-dimer recognition mechanism.
Proc.Natl.Acad.Sci.USA, 98, 2001
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1IQR
 | | Crystal structure of DNA photolyase from Thermus thermophilus | | 分子名称: | FLAVIN-ADENINE DINUCLEOTIDE, PHOSPHATE ION, photolyase | | 著者 | Komori, H, Masui, R, Kuramitsu, S, Yokoyama, S, Shibata, T, Inoue, Y, Miki, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2001-07-27 | | 公開日 | 2001-11-28 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | | 主引用文献 | Crystal structure of thermostable DNA photolyase: pyrimidine-dimer recognition mechanism.
Proc.Natl.Acad.Sci.USA, 98, 2001
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1RRB
 | | THE RAS-BINDING DOMAIN OF RAF-1 FROM RAT, NMR, 1 STRUCTURE | | 分子名称: | RAF PROTO-ONCOGENE SERINE/THREONINE-PROTEIN KINASE | | 著者 | Terada, T, Ito, Y, Shirouzu, M, Tateno, M, Hashimoto, K, Kigawa, T, Ebisuzaki, T, Takio, K, Shibata, T, Yokoyama, S, Smith, B.O, Laue, E.D, Cooper, J.A, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 1998-03-26 | | 公開日 | 1999-03-30 | | 最終更新日 | 2022-03-02 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Nuclear magnetic resonance and molecular dynamics studies on the interactions of the Ras-binding domain of Raf-1 with wild-type and mutant Ras proteins.
J.Mol.Biol., 286, 1999
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1KN0
 | | Crystal Structure of the human Rad52 protein | | 分子名称: | Rad52 | | 著者 | Kagawa, W, Kurumizaka, H, Ishitani, R, Fukai, S, Nureki, O, Shibata, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2001-12-18 | | 公開日 | 2002-09-04 | | 最終更新日 | 2024-03-13 | | 実験手法 | X-RAY DIFFRACTION (2.85 Å) | | 主引用文献 | Crystal structure of the homologous-pairing domain from the human Rad52 recombinase in the undecameric form.
Mol.Cell, 10, 2002
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1WOT
 | | Structure of putative minimal nucleotidyltransferase | | 分子名称: | PUTATIVE MINIMAL NUCLEOTIDYLTRANSFERASE | | 著者 | Suzuki, S, Hatanaka, H, Hondoh, T, Okumura, A, Kuroda, Y, Kuramitsu, S, Shibata, T, Inoue, Y, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2004-08-25 | | 公開日 | 2004-09-07 | | 最終更新日 | 2022-03-02 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Structure of Putative Minimal Nucleotidyltransferase
To be Published
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1V8L
 | | Structure Analysis of the ADP-ribose pyrophosphatase complexed with ADP-ribose | | 分子名称: | ADENOSINE-5-DIPHOSPHORIBOSE, ADP-ribose pyrophosphatase | | 著者 | Yoshiba, S, Ooga, T, Nakagawa, N, Shibata, T, Inoue, Y, Yokoyama, S, Kuramitsu, S, Masui, R, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2004-01-10 | | 公開日 | 2004-10-19 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | | 主引用文献 | Structural insights into the Thermus thermophilus ADP-ribose pyrophosphatase mechanism via crystal structures with the bound substrate and metal
J.Biol.Chem., 279, 2004
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1V8R
 | | Crystal structure analysis of the ADP-ribose pyrophosphatase complexed with ADP-ribose and Zn | | 分子名称: | ADENOSINE-5-DIPHOSPHORIBOSE, ADP-ribose pyrophosphatase, ZINC ION | | 著者 | Yoshiba, S, Ooga, T, Nakagawa, N, Shibata, T, Inoue, Y, Yokoyama, S, Kuramitsu, S, Masui, R, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2004-01-14 | | 公開日 | 2005-02-22 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Structural insights into the Thermus thermophilus ADP-ribose pyrophosphatase mechanism via crystal structures with the bound substrate and metal
J.Biol.Chem., 279, 2004
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1V8Y
 | | Crystal structure analysis of the ADP-ribose pyrophosphatase of E86Q mutant, complexed with ADP-ribose and Zn | | 分子名称: | ADENOSINE-5-DIPHOSPHORIBOSE, ADP-ribose pyrophosphatase, ZINC ION | | 著者 | Yoshiba, S, Ooga, T, Nakagawa, N, Shibata, T, Inoue, Y, Yokoyama, S, Kuramitsu, S, Masui, R, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | 登録日 | 2004-01-15 | | 公開日 | 2004-10-19 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.65 Å) | | 主引用文献 | Structural insights into the Thermus thermophilus ADP-ribose pyrophosphatase mechanism via crystal structures with the bound substrate and metal
J.Biol.Chem., 279, 2004
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