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

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8G00	Cryo-EM structure of 3DVA component 0 of Escherichia coli que-PEC (paused elongation complex) RNA Polymerase minus preQ1 ligand 分子名称: DNA (31-MER), DNA (39-mer), DNA-directed RNA polymerase subunit alpha, ... 著者 Porta, J.C, Chauvier, A, Deb, I, Ellinger, E, Frank, A.T, Meze, K, Ohi, M.D, Walter, N.G. 登録日 2023-01-31 公開日 2023-06-21 最終更新日 2024-06-19 実験手法 ELECTRON MICROSCOPY (3.4 Å) 主引用文献 Structural basis for control of bacterial RNA polymerase pausing by a riboswitch and its ligand. Nat.Struct.Mol.Biol., 30, 2023
8G2W	Cryo-EM structure of 3DVA component 2 of Escherichia coli que-PEC (paused elongation complex) RNA Polymerase minus preQ1 ligand 分子名称: DNA (31-MER), DNA (39-MER), DNA-directed RNA polymerase subunit alpha, ... 著者 Porta, J.C, Chauvier, A, Deb, I, Ellinger, E, Frank, A.T, Meze, K, Ohi, M.D, Walter, N.G. 登録日 2023-02-06 公開日 2023-06-21 最終更新日 2024-06-19 実験手法 ELECTRON MICROSCOPY (3.7 Å) 主引用文献 Structural basis for control of bacterial RNA polymerase pausing by a riboswitch and its ligand. Nat.Struct.Mol.Biol., 30, 2023
2QBZ	Structure of the M-Box Riboswitch Aptamer Domain 分子名称: M-Box RNA, ykoK riboswitch aptamer, MAGNESIUM ION, ... 著者 Dann III, C.E, Winkler, W.C. 登録日 2007-06-18 公開日 2007-09-18 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Structure and mechanism of a metal-sensing regulatory RNA Cell(Cambridge,Mass.), 130, 2007
2KXM	Solution NMR Structure of the 27 nucleotide engineered neomycin sensing riboswitch RNA-ribostmycin complex 分子名称: RIBOSTAMYCIN, RNA (27-MER) 著者 Duchardt-Ferner, E, Weigand, J.E, Ohlenschlager, O, Schmidtke, S.R, Suess, B, Wohnert, J. 登録日 2010-05-10 公開日 2011-04-20 最終更新日 2024-05-01 実験手法 SOLUTION NMR 主引用文献 Highly modular structure and ligand binding by conformational capture in a minimalistic riboswitch. Angew.Chem.Int.Ed.Engl., 49, 2010
4FRN	Crystal structure of the cobalamin riboswitch regulatory element 分子名称: BARIUM ION, Cobalamin riboswitch aptamer domain, Hydroxocobalamin 著者 Reyes, F.E, Johnson, J.E, Polaski, J.T, Batey, R.T. 登録日 2012-06-26 公開日 2012-10-17 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (3.43 Å) 主引用文献 B12 cofactors directly stabilize an mRNA regulatory switch. Nature, 492, 2012
4FRG	Crystal structure of the cobalamin riboswitch aptamer domain 分子名称: Hydroxocobalamin, IRIDIUM (III) ION, MAGNESIUM ION, ... 著者 Reyes, F.E, Johnson, J.E, Polaski, J.T, Batey, R.T. 登録日 2012-06-26 公開日 2012-10-17 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.95 Å) 主引用文献 B12 cofactors directly stabilize an mRNA regulatory switch. Nature, 492, 2012
4TZX	Vibrio Vulnificus Adenine Riboswitch variant, grown in Mg2+ 分子名称: ADENINE, MAGNESIUM ION, Vibrio vulnificus Adenine Riboswitch 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 2023-09-27 実験手法 X-RAY DIFFRACTION (2.01 Å) 主引用文献 Dramatic Improvement of Crystals of Large RNAs by Cation Replacement and Dehydration. Structure, 22, 2014
4TZY	Vibrio vulnificus Adenine Riboswitch Variant, grown in both Sr2+ and Mg2+ 分子名称: ADENINE, MAGNESIUM ION, STRONTIUM ION, ... 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 2023-09-27 実験手法 X-RAY DIFFRACTION (2.57 Å) 主引用文献 Dramatic Improvement of Crystals of Large RNAs by Cation Replacement and Dehydration. Structure, 22, 2014
6CK4	G96A mutant of the PRPP riboswitch from T. mathranii bound to ppGpp 分子名称: (4S)-2-METHYL-2,4-PENTANEDIOL, GUANOSINE-5',3'-TETRAPHOSPHATE, GUANOSINE-5'-TRIPHOSPHATE, ... 著者 Reiss, C.W, Knappenberger, A.J, Strobel, S.A. 登録日 2018-02-27 公開日 2018-06-20 最終更新日 2024-03-13 実験手法 X-RAY DIFFRACTION (3.097 Å) 主引用文献 Structures of two aptamers with differing ligand specificity reveal ruggedness in the functional landscape of RNA. Elife, 7, 2018
6CK5	PRPP riboswitch from T. mathranii bound to PRPP 分子名称: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose, BARIUM ION, MAGNESIUM ION, ... 著者 Knappenberger, A.J, Reiss, C.W, Strobel, S.A. 登録日 2018-02-27 公開日 2018-06-20 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.49 Å) 主引用文献 Structures of two aptamers with differing ligand specificity reveal ruggedness in the functional landscape of RNA. Elife, 7, 2018
4MGN	Co-crystal structure of the G. kaustophilus glyQS T box riboswitch Stem I in complex with tRNA 分子名称: MAGNESIUM ION, glyQS T box riboswitch, tRNA-glycine 著者 Grigg, J.C, Ke, A. 登録日 2013-08-28 公開日 2013-10-23 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (3.2 Å) 主引用文献 Structural Determinants for Geometry and Information Decoding of tRNA by T Box Leader RNA. Structure, 21, 2013
3V7E	Crystal structure of YbxF bound to the SAM-I riboswitch aptamer 分子名称: COBALT HEXAMMINE(III), MAGNESIUM ION, Ribosome-associated protein L7Ae-like, ... 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 (2.8 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
5FJC	SAM-I riboswitch bearing the H. marismortui Kt-7 variant C-2bU 分子名称: BARIUM ION, MAGNESIUM ION, POTASSIUM ION, ... 著者 Huang, L, Lilley, D.M.J. 登録日 2015-10-07 公開日 2016-05-25 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (1.71 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
3TZR	Structure of a Riboswitch-like RNA-ligand complex from the Hepatitis C Virus Internal Ribosome Entry Site 分子名称: (8R)-8-[(dimethylamino)methyl]-1-[3-(dimethylamino)propyl]-1,7,8,9-tetrahydrochromeno[5,6-d]imidazol-2-amine, 5'-R(*CP*GP*AP*GP*GP*AP*AP*CP*UP*AP*CP*UP*GP*UP*CP*UP*UP*CP*CP*C)-3', 5'-R(*GP*GP*UP*CP*GP*UP*GP*CP*AP*GP*CP*CP*UP*CP*GP*G)-3', ... 著者 Dibrov, S.M, Ding, K, Brunn, N, Parker, M.A, Bergdahl, B.M, Wyles, D.L, Hermann, T. 登録日 2011-09-27 公開日 2012-03-21 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (2.212 Å) 主引用文献 Structure of a Riboswitch in the Hepatitis C Virus Internal Ribosome Entry Site To be Published
6VWV	Transitional unit cell 2 of adenine riboswitch aptamer crystal phase transition upon ligand binding 分子名称: ADENINE, MAGNESIUM ION, POTASSIUM ION, ... 著者 Stagno, J.R, Wang, Y.-X. 登録日 2020-02-20 公開日 2020-11-11 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (3 Å) 主引用文献 Synchronous RNA conformational changes trigger ordered phase transitions in crystals. Nat Commun, 12, 2021
6VWT	Transitional unit cell 1 of adenine riboswitch aptamer crystal phase transition upon ligand binding 分子名称: ADENINE, MAGNESIUM ION, adenine riboswitch aptamer variant 著者 Stagno, J.R, Wang, Y.-X. 登録日 2020-02-20 公開日 2020-11-11 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (3.03 Å) 主引用文献 Synchronous RNA conformational changes trigger ordered phase transitions in crystals. Nat Commun, 12, 2021
2LI4	Solution structure of a shortened antiterminator hairpin from a Mg2+ riboswitch 分子名称: RNA (32-MER) 著者 Korth, M.M.T, Sigel, R.K.O. 登録日 2011-08-22 公開日 2012-08-22 最終更新日 2024-05-01 実験手法 SOLUTION NMR 主引用文献 Solution structure of a shortened antiterminator hairpin from a Mg2+ riboswitch To be Published
1Y27	G-riboswitch-guanine complex 分子名称: Bacillus subtilis xpt, GUANINE 著者 Serganov, A, Yuan, Y.R, Patel, D.J. 登録日 2004-11-20 公開日 2004-12-28 最終更新日 2023-08-23 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 Structural Basis for Discriminative Regulation of Gene Expression by Adenine- and Guanine-Sensing mRNAs Chem.Biol., 11, 2004
7E9I	Crystal structure of a class I PreQ1 riboswitch aptamer (wild-type) complexed with a cognate ligand-derived photoaffinity probe 分子名称: 2-azanyl-5-[[2-(3-but-3-ynyl-1,2-diazirin-3-yl)ethylamino]methyl]-1,7-dihydropyrrolo[2,3-d]pyrimidin-4-one, 33-mer RNA, SULFATE ION 著者 Numata, T, Schneekloth, J.S. 登録日 2021-03-04 公開日 2021-11-17 最終更新日 2023-11-29 実験手法 X-RAY DIFFRACTION (2.8 Å) 主引用文献 A chemical probe based on the PreQ 1 metabolite enables transcriptome-wide mapping of binding sites. Nat Commun, 12, 2021
7E9E	Crystal structure of a class I PreQ1 riboswitch aptamer (ab13-14) complexed with a cognate ligand-derived photoaffinity probe 分子名称: 2-azanyl-5-[[2-(3-but-3-ynyl-1,2-diazirin-3-yl)ethylamino]methyl]-1,7-dihydropyrrolo[2,3-d]pyrimidin-4-one, 33-mer RNA, MAGNESIUM ION, ... 著者 Numata, T, Schneekloth, J.S. 登録日 2021-03-04 公開日 2021-11-17 最終更新日 2023-11-29 実験手法 X-RAY DIFFRACTION (1.57 Å) 主引用文献 A chemical probe based on the PreQ 1 metabolite enables transcriptome-wide mapping of binding sites. Nat Commun, 12, 2021
5BTP	Fusobacterium ulcerans ZTP riboswitch bound to ZMP 分子名称: AMINOIMIDAZOLE 4-CARBOXAMIDE RIBONUCLEOTIDE, MAGNESIUM ION, POTASSIUM ION, ... 著者 Jones, C.P, Ferre-D'Amare, A.R. 登録日 2015-06-03 公開日 2015-08-12 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (2.816 Å) 主引用文献 Recognition of the bacterial alarmone ZMP through long-distance association of two RNA subdomains. Nat.Struct.Mol.Biol., 22, 2015
6XKN	Class III PreQ1 riboswitch mutant A52G 分子名称: 7-DEAZA-7-AMINOMETHYL-GUANINE, Class III PreQ1 riboswitch 著者 Srivastava, K.Y, Jenkins, J.L, Wedekind, J.E. 登録日 2020-06-26 公開日 2021-12-29 最終更新日 2024-06-19 実験手法 X-RAY DIFFRACTION (2.73 Å) 主引用文献 New insights into Class III PreQ1 metabolite binding To Be Published
7TZS	Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17) 分子名称: 1-(quinoxalin-6-yl)methanamine, MAGNESIUM ION, POTASSIUM ION, ... 著者 Nuthanakanti, A, Serganov, A. 登録日 2022-02-16 公開日 2022-05-25 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.21 Å) 主引用文献 SHAPE-enabled fragment-based ligand discovery for RNA. Proc.Natl.Acad.Sci.USA, 119, 2022
7TZR	Crystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16) 分子名称: MAGNESIUM ION, N-methyl-1-(quinoxalin-6-yl)methanamine, POTASSIUM ION, ... 著者 Nuthanakanti, A, Serganov, A. 登録日 2022-02-16 公開日 2022-05-25 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.7 Å) 主引用文献 SHAPE-enabled fragment-based ligand discovery for RNA. Proc.Natl.Acad.Sci.USA, 119, 2022
3UCU	The c-di-GMP-I riboswitch bound to pGpG 分子名称: MAGNESIUM ION, RNA (92-MER), U1 small nuclear ribonucleoprotein A, ... 著者 Smith, K.D, Strobel, S.A. 登録日 2011-10-27 公開日 2012-01-04 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.8 Å) 主引用文献 Structural and biochemical characterization of linear dinucleotide analogues bound to the c-di-GMP-I aptamer. Biochemistry, 51, 2012

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