PDB: 446 件ウェブページステータス検索Chemie searchBIRD

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7REX	PreQ1-1 (type-1) riboswitch in complex with tandem stacked metabolites 分子名称: 7-DEAZA-7-AMINOMETHYL-GUANINE, MAGNESIUM ION, RNA (34-MER) 著者 Jenkins, J.L, Schroeder, G.M, Wedekind, J.E. 登録日 2021-07-13 公開日 2021-12-29 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 A small RNA that cooperatively senses two stacked metabolites in one pocket for gene control Nat Commun, 13, 2022
5KPY	Structure of a 5-hydroxytryptophan aptamer 分子名称: 5-hydroxy-L-tryptophan, 5-hydroxytryptophan RNA aptamer, IRIDIUM HEXAMMINE ION, ... 著者 Batey, R.T, Porter, E, Merck, M. 登録日 2016-07-05 公開日 2017-01-11 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 Recurrent RNA motifs as scaffolds for genetically encodable small-molecule biosensors. Nat. Chem. Biol., 13, 2017
7EAF	Crystal structure of SAM-I riboswitch with the Actinomyces-1 k-turn 分子名称: BARIUM ION, RNA (94-MER), S-ADENOSYLMETHIONINE, ... 著者 Huang, L, Lilley, D.M.J. 登録日 2021-03-07 公開日 2021-06-02 最終更新日 2023-11-29 実験手法 X-RAY DIFFRACTION (2.85 Å) 主引用文献 Structure and folding of four putative kink turns identified in structured RNA species in a test of structural prediction rules. Nucleic Acids Res., 49, 2021
8FW4	Crystal structure of the adenosylcobalamin riboswitch holo conformation in absence of ligand 分子名称: MAGNESIUM ION, RNA (210-MER) 著者 Stagno, J.R, Wang, Y.-X. 登録日 2023-01-20 公開日 2023-07-26 最終更新日 2024-05-22 実験手法 X-RAY DIFFRACTION (4.3 Å) 主引用文献 Crystal structure of cobalamin ribositch in holo conformation without ligand Nucleic Acids Res., 2023
6WTR	Structure of Human pir-miRNA-300 Apical Loop Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2020-05-03 公開日 2021-05-05 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (3.082 Å) 主引用文献 Structures of microRNA-precursor apical junctions and loops revealed by scaffold-directed crystallography: importance of non-canonical base pairs in processing To Be Published
6WTL	Structure of Human pir-miRNA-19b-2 Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2020-05-03 公開日 2021-05-05 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.85 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
8TJV	Tetrahymena Ribozyme scaffolded Fluoride riboswitch 分子名称: FLUORIDE ION, MAGNESIUM ION, POTASSIUM ION, ... 著者 Langeberg, C.J, Kieft, J.S. 登録日 2023-07-24 公開日 2023-11-01 最終更新日 2023-11-22 実験手法 ELECTRON MICROSCOPY (2.99 Å) 主引用文献 A generalizable scaffold-based approach for structure determination of RNAs by cryo-EM. Nucleic Acids Res., 51, 2023
4TZZ	Co-crystals of the Ternary Complex Containing a T-box Stem I RNA, its Cognate tRNAGly, and B. subtilis YbxF protein, treated by removing lithium sulfate and increasing PEG3350 concentration from 20% to 45% post crystallization 分子名称: MAGNESIUM ION, Ribosome-associated protein L7Ae-like, T-box Stem I RNA, ... 著者 Zhang, J, Ferre-D'Amare, A.R. 登録日 2014-07-11 公開日 2014-09-10 最終更新日 2023-11-15 実験手法 X-RAY DIFFRACTION (3.64 Å) 主引用文献 Dramatic Improvement of Crystals of Large RNAs by Cation Replacement and Dehydration. Structure, 22, 2014
6N5P	Structure of Human pir-miRNA-340 Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2018-11-22 公開日 2019-11-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.991 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
6N5T	Structure of Human pir-miRNA-378a Apical Loop Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2018-11-22 公開日 2019-11-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.787 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
6N5K	Structure of Human pir-miRNA-449c Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2018-11-22 公開日 2019-11-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (3.098 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
6N5O	Structure of Human pir-miRNA-202 Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2018-11-22 公開日 2019-11-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.708 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
6N5S	Structure of Human pir-miRNA-320b-2 Apical Loop and One-base-pair Stem Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, GUANOSINE-5'-MONOPHOSPHATE, MAGNESIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2018-11-22 公開日 2019-11-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.802 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
6N5N	Structure of Human pir-miRNA-208a Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2018-11-22 公開日 2019-11-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.951 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
6N5Q	Structure of Human pir-miRNA-378a Apical Loop and One-base-pair Fused to the YdaO Riboswitch Scaffold 分子名称: (2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide, MAGNESIUM ION, POTASSIUM ION, ... 著者 Shoffner, G.M, Peng, Z, Guo, F. 登録日 2018-11-22 公開日 2019-11-27 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.946 Å) 主引用文献 Three-dimensional structures of pri-miRNA apical junctions and loops revealed by scaffold-directed crystallography To Be Published
5FJ1	Structure of the standard kink turn HmKt-7 as stem loop in P212121 space group 分子名称: HMKT-7, MAGNESIUM ION, SODIUM ION 著者 Huang, L, Lilley, D.M.J. 登録日 2015-10-05 公開日 2016-05-25 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (2.75 Å) 主引用文献 A Critical Base Pair in K-Turns Determines the Conformational Class Adopted, and Correlates with Biological Function. Nucleic Acids Res., 44, 2016
5FJ0	Structure of the standard kink turn HmKt-7 as simple duplex in P4222 space group 分子名称: HMKT-7, MAGNESIUM ION 著者 Huang, L, Lilley, D.M.J. 登録日 2015-10-05 公開日 2016-09-28 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 A Critical Base Pair in K-Turns Determines the Conformational Class Adopted, and Correlates with Biological Function. Nucleic Acids Res., 44, 2016
5FJ4	Structure of the standard kink turn HmKt-7 as stem loop bound with U1A and L7Ae proteins 分子名称: 50S RIBOSOMAL PROTEIN L7AE, HMKT-7, U1 SMALL NUCLEAR RIBONUCLEOPROTEIN A 著者 Huang, L, Lilley, D.M.J. 登録日 2015-10-06 公開日 2016-05-25 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (2.95 Å) 主引用文献 A Critical Base Pair in K-Turns Determines the Conformational Class Adopted, and Correlates with Biological Function. Nucleic Acids Res., 44, 2016
3B4A	T. tengcongensis glmS ribozyme with G40A mutation, bound to glucosamine-6-phosphate 分子名称: 2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose, MAGNESIUM ION, glmS ribozyme RNA, ... 著者 Klein, D.J, Ferre-D'Amare, A.R. 登録日 2007-10-23 公開日 2007-12-11 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.7 Å) 主引用文献 Essential Role of an Active-Site Guanine in glmS Ribozyme Catalysis. J.Am.Chem.Soc., 129, 2007
3B4B	T. tengcongensis glmS ribozyme with G40A mutation, bound to glucosamine-6-phosphate and a substrate RNA with a 2'5'-phosphodiester linkage 分子名称: 2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose, 3'-DEOXYADENOSINE, MAGNESIUM ION, ... 著者 Klein, D.J, Ferre-D'Amare, A.R. 登録日 2007-10-23 公開日 2007-12-11 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.7 Å) 主引用文献 Essential Role of an Active-Site Guanine in glmS Ribozyme Catalysis. J.Am.Chem.Soc., 129, 2007
3B4C	T. tengcongensis glmS ribozyme bound to glucosamine-6-phosphate and a substrate RNA with a 2'5'-phosphodiester linkage 分子名称: 2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose, 3'-DEOXYADENOSINE, MAGNESIUM ION, ... 著者 Klein, D.J, Ferre-D'Amare, A.R. 登録日 2007-10-23 公開日 2007-12-11 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (3 Å) 主引用文献 Essential Role of an Active-Site Guanine in glmS Ribozyme Catalysis. J.Am.Chem.Soc., 129, 2007
2NZ4	Structural investigation of the GlmS ribozyme bound to its catalytic cofactor 分子名称: 2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose, GlmS ribozyme, MAGNESIUM ION, ... 著者 Cochrane, J.C. 登録日 2006-11-22 公開日 2007-01-16 最終更新日 2023-12-27 実験手法 X-RAY DIFFRACTION (2.498 Å) 主引用文献 Structural Investigation of the GlmS Ribozyme Bound to Its Catalytic Cofactor Chem.Biol., 14, 2007
3V7Q	Crystal structure of B. subtilis YlxQ at 1.55 A resolution 分子名称: CITRIC ACID, POTASSIUM ION, Probable ribosomal protein ylxQ 著者 Baird, N.J, Zhang, J, Hamma, T, Ferre-D'Amare, A.R. 登録日 2011-12-21 公開日 2012-03-07 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (1.55 Å) 主引用文献 YbxF and YlxQ are bacterial homologs of L7Ae and bind K-turns but not K-loops. Rna, 18, 2012
4CS1	Crystal structure of a simple duplex kink turn, HmKt-7 with 2 Mg bound. 分子名称: 5'-(*GP*GP*CP*GP*AP*AP*GP*AP*AP*CP*CP*GP*GP*GP *GP*AP*GP*CP*CP)-3', MAGNESIUM ION 著者 Huang, L, Lilley, D.M.J. 登録日 2014-03-03 公開日 2014-11-19 最終更新日 2023-12-20 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 A Critical Base Pair in K-Turns that Confers Folding Characteristics and Correlates with Biological Function. Nat.Commun., 5, 2014
7Q7Z	Crystal structure of the methyltransferase-ribozyme 1 (with 1-benzylamine-adenosine) 分子名称: GUANINE, MAGNESIUM ION, RNA 1, ... 著者 Mieczkowski, M, Hoebartner, C. 登録日 2021-11-09 公開日 2022-03-23 最終更新日 2024-01-31 実験手法 X-RAY DIFFRACTION (3.26 Å) 主引用文献 Structure and mechanism of the methyltransferase ribozyme MTR1. Nat.Chem.Biol., 18, 2022

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