PDB: 72678 resultsInfo pagesStatus searchChemie searchBIRD

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3OVS	How the CCA-adding Enzyme Selects Adenine over Cytosine in Position 76 of tRNA Descriptor: 1,2-ETHANEDIOL, CALCIUM ION, CCA-Adding Enzyme, ... Authors: Pan, B.C, Xiong, Y, Steitz, T.A. Deposit date: 2010-09-17 Release date: 2010-12-01 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.8 Å) Cite: How the CCA-Adding Enzyme Selects Adenine over Cytosine at Position 76 of tRNA. Science, 330, 2010
7WM4	Cryo-EM structure of tetrameric TLR3 in complex with dsRNA (90 bp) Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, RNA (81-MER), ... Authors: Sakaniwa, K, Ohto, U, Shimizu, T. Deposit date: 2022-01-14 Release date: 2023-01-25 Last modified: 2023-08-30 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: TLR3 forms a laterally aligned multimeric complex along double-stranded RNA for efficient signal transduction. Nat Commun, 14, 2023
3IZ4	Modified E. coli tmRNA in the resume state with the tRNA-like domain in the ribosomal P site interacting with the SmpB Descriptor: Modified E. coli transfer-messenger RNA, SsrA-binding protein Authors: Hashem, Y, Fu, J, Frank, J. Deposit date: 2010-09-21 Release date: 2010-10-20 Last modified: 2024-02-21 Method: ELECTRON MICROSCOPY (13.6 Å) Cite: Visualizing the transfer-messenger RNA as the ribosome resumes translation. Embo J., 29, 2010
3AEV	Crystal structure of a/eIF2alpha-aDim2p-rRNA complex from Pyrococcus horikoshii OT3 Descriptor: Putative uncharacterized protein PH1566, RNA (5'-R(*GP*GP*AP*UP*CP*AP*CP*CP*UP*CP*C)-3'), Translation initiation factor 2 subunit alpha Authors: Tanokura, M, Jia, M.Z, Nagata, K. Deposit date: 2010-02-10 Release date: 2010-04-21 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (2.8 Å) Cite: An archaeal Dim2-like protein, aDim2p, forms a ternary complex with a/eIF2 alpha and the 3' end fragment of 16S rRNA J.Mol.Biol., 398, 2010
2AZ2	Flock House virus B2-dsRNA Complex (P4122) Descriptor: 5'-R(*GP*CP*AP*(5BU)P*GP*GP*AP*CP*GP*CP*GP*(5BU)P*CP*CP*AP*(5BU)P*GP*C)-3', B2 protein Authors: Chao, J.A, Lee, J.H, Chapados, B.R, Debler, E.W, Schneemann, A, Williamson, J.R. Deposit date: 2005-09-09 Release date: 2005-10-11 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Dual modes of RNA-silencing suppression by Flock House virus protein B2. Nat.Struct.Mol.Biol., 12, 2005
6VPB	A novel membrane-bound 6-phosphogluconate dehydrogenase from the acetic acid bacteria Gluconacetobacter diazotrophicus (Gd6PGD) Descriptor: 6-phosphogluconate dehydrogenase, DI(HYDROXYETHYL)ETHER, ISOPROPYL ALCOHOL, ... Authors: Rodriguez-Romero, A, Rodriguez-Hernandez, A. Deposit date: 2020-02-02 Release date: 2020-07-22 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (1.87 Å) Cite: The structure of a novel membrane-associated 6-phosphogluconate dehydrogenase from Gluconacetobacter diazotrophicus (Gd6PGD) reveals a subfamily of short-chain 6PGDs. Febs J., 288, 2021
6SVS	Crystal Structure of U:A-U-rich RNA triple helix with 11 consecutive base triples Descriptor: ADENOSINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE, CALCIUM ION, GLYCEROL, ... Authors: Ruszkowska, A, Ruszkowski, M, Hulewicz, J.P, Dauter, Z, Brown, J.A. Deposit date: 2019-09-18 Release date: 2020-01-01 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Molecular structure of a U•A-U-rich RNA triple helix with 11 consecutive base triples. Nucleic Acids Res., 48, 2020
1DI2	CRYSTAL STRUCTURE OF A DSRNA-BINDING DOMAIN COMPLEXED WITH DSRNA: MOLECULAR BASIS OF DOUBLE-STRANDED RNA-PROTEIN INTERACTIONS Descriptor: DOUBLE STRANDED RNA BINDING PROTEIN A, RNA (5'-R(*GP*GP*CP*GP*CP*GP*CP*GP*CP*C)-3') Authors: Ryter, J.M, Schultz, S.C. Deposit date: 1999-11-28 Release date: 1999-12-02 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Molecular basis of double-stranded RNA-protein interactions: structure of a dsRNA-binding domain complexed with dsRNA. EMBO J., 17, 1998
4MDX	Crystal structure of Bacillus subtilis MazF in complex with RNA Descriptor: IODIDE ION, RNA, mRNA, ... Authors: Simanshu, D.K, Patel, D.J. Deposit date: 2013-08-23 Release date: 2013-10-23 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Structural Basis of mRNA Recognition and Cleavage by Toxin MazF and Its Regulation by Antitoxin MazE in Bacillus subtilis. Mol.Cell, 52, 2013
8OVD	Respiratory supercomplex (III2-IV2) from Mycobacterium smegmatis Descriptor: (1R)-2-(dodecanoyloxy)-1-[(phosphonooxy)methyl]ethyl tetradecanoate, (2R)-2-(hexadecanoyloxy)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9S)-9-methyloctadecanoate, (2S)-1-(hexadecanoyloxy)propan-2-yl (10S)-10-methyloctadecanoate, ... Authors: Kovalova, T, Krol, S, Sjostrand, D, Riepl, D, Gamiz-Hernandez, A, Brzezinski, P, Kaila, V, Hogbom, M. Deposit date: 2023-04-25 Release date: 2024-07-17 Method: ELECTRON MICROSCOPY (2.3 Å) Cite: Long-range charge transfer mechanism of the III 2 IV 2 mycobacterial supercomplex. Nat Commun, 15, 2024
8OVC	Respiratory supercomplex (III2-IV2) from Mycobacterium smegmatis Descriptor: (1R)-2-(dodecanoyloxy)-1-[(phosphonooxy)methyl]ethyl tetradecanoate, (2R)-2-(hexadecanoyloxy)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9S)-9-methyloctadecanoate, (2S)-1-(hexadecanoyloxy)propan-2-yl (10S)-10-methyloctadecanoate, ... Authors: Kovalova, T, Krol, S, Sjostrand, D, Riepl, D, Gamiz-Hernandez, A, Brzezinski, P, Kaila, V, Hogbom, M. Deposit date: 2023-04-25 Release date: 2024-07-17 Method: ELECTRON MICROSCOPY (2.8 Å) Cite: Long-range charge transfer mechanism of the III 2 IV 2 mycobacterial supercomplex. Nat Commun, 15, 2024
1OB5	T. aquaticus elongation factor EF-Tu complexed with the antibiotic enacyloxin IIa, a GTP analog, and Phe-tRNA Descriptor: ELONGATION FACTOR TU, ENACYLOXIN IIA, MAGNESIUM ION, ... Authors: Dahlberg, C, Nielsen, R.C, Parmeggiani, A, Nyborg, J, Nissen, P. Deposit date: 2003-01-24 Release date: 2005-10-13 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (3.1 Å) Cite: Enacyloxin Iia Pinpoints a Binding Pocket of Elongation Factor TU for Development of Novel Antibiotics. J.Biol.Chem., 281, 2006
6DPB	Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with an RNA/DNA Hybrid: Reaction in 8 mM Mn2+ and 200 mM K+ for 40 s at 21 C Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*AP*TP*GP*T)-3'), GLYCEROL, ... Authors: Samara, N.L, Yang, W. Deposit date: 2018-06-09 Release date: 2018-08-15 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (1.324 Å) Cite: Cation trafficking propels RNA hydrolysis. Nat. Struct. Mol. Biol., 25, 2018
6EOJ	PolyA polymerase module of the cleavage and polyadenylation factor (CPF) from Saccharomyces cerevisiae Descriptor: Polyadenylation factor subunit 2,Polyadenylation factor subunit 2, Protein CFT1, ZINC ION, ... Authors: Casanal, A, Kumar, A, Hill, C.H, Emsley, P, Passmore, L.A. Deposit date: 2017-10-09 Release date: 2017-11-15 Last modified: 2024-05-15 Method: ELECTRON MICROSCOPY (3.55 Å) Cite: Architecture of eukaryotic mRNA 3'-end processing machinery. Science, 358, 2017
2BE0	Complex Between Paromomycin Derivative JS5-39 and the 16S-Rrna A-Site. Descriptor: (2S,3S,4R,5R,6R)-5-AMINO-2-(AMINOMETHYL)-6-((2R,3R,4R,5S)-5-((1R,2R,3S,5R,6S)-3,5-DIAMINO-2-((2S,3R,4R,5S,6R)-3-AMINO-4 ,5-DIHYDROXY-6-(HYDROXYMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-6-HYDROXYCYCLOHEXYLOXY)-2-(HYDROXYMETHYL)-4-(2-((R)-PIPERIDI N-3-YLMETHYLAMINO)ETHOXY)-TETRAHYDROFURAN-3-YLOXY)-TETRAHYDRO-2H-PYRAN-3,4-DIOL, 5'-R(*CP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3' Authors: Francois, B, Westhof, E. Deposit date: 2005-10-21 Release date: 2005-12-20 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.63 Å) Cite: Antibacterial aminoglycosides with a modified mode of binding to the ribosomal-RNA decoding site ANGEW.CHEM.INT.ED.ENGL., 43, 2004
6DPA	Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with an RNA/DNA Hybrid: Reaction in 4 mM Mn2+ and 200 mM K+ for 40 s at 21 C Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*AP*TP*GP*T)-3'), GLYCEROL, ... Authors: Samara, N.L, Yang, W. Deposit date: 2018-06-09 Release date: 2018-08-15 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (1.489 Å) Cite: Cation trafficking propels RNA hydrolysis. Nat. Struct. Mol. Biol., 25, 2018
6DPF	Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with an RNA/DNA Hybrid: Reaction in 40 mM Mn2+ and 200 mM K+ for 40 s at 21 C Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*AP*TP*GP*T)-3'), GLYCEROL, ... Authors: Samara, N.L, Yang, W. Deposit date: 2018-06-09 Release date: 2018-08-15 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (1.56 Å) Cite: Cation trafficking propels RNA hydrolysis. Nat. Struct. Mol. Biol., 25, 2018
7XSP	Structure of gRAMP-target RNA Descriptor: RAMP superfamily protein, RNA (35-MER), RNA (5'-R(P*GP*GP*GP*GP*CP*AP*GP*AP*AP*AP*AP*UP*UP*GP*G)-3'), ... Authors: Feng, Y, Zhang, L.X. Deposit date: 2022-05-15 Release date: 2022-11-09 Last modified: 2024-07-03 Method: ELECTRON MICROSCOPY (2.89 Å) Cite: Target RNA activates the protease activity of Craspase to confer antiviral defense. Mol.Cell, 82, 2022
7XSR	Structure of Craspase-target RNA Descriptor: CHAT domain protein, RAMP superfamily protein, RNA (34-MER), ... Authors: Feng, Y, Zhang, L. Deposit date: 2022-05-15 Release date: 2022-11-09 Last modified: 2024-07-03 Method: ELECTRON MICROSCOPY (2.97 Å) Cite: Target RNA activates the protease activity of Craspase to confer antiviral defense. Mol.Cell, 82, 2022
7ELT	Crystal structure of Mycobacterium tuberculosis tryptophanyl-tRNA synthetase complexed with Trp-AMP Descriptor: TRYPTOPHANYL-5'AMP, Tryptophan--tRNA ligase Authors: Xu, M, Chen, S. Deposit date: 2021-04-12 Release date: 2022-02-16 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Investigate Natural Product Indolmycin and the Synthetically Improved Analogue Toward Antimycobacterial Agents. Acs Chem.Biol., 17, 2022
7ENS	Crystal structure of Mycobacterium tuberculosis tryptophanyl-tRNA synthetase complexed with Indolmycin and ATP Descriptor: (5S)-5-[(1R)-1-(1H-indol-3-yl)ethyl]-2-(methylamino)-1,3-oxazol-4(5H)-one, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Xu, M, Chen, S. Deposit date: 2021-04-19 Release date: 2022-02-16 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Investigate Natural Product Indolmycin and the Synthetically Improved Analogue Toward Antimycobacterial Agents. Acs Chem.Biol., 17, 2022
7ENT	Crystal structure of Mycobacterium tuberculosis tryptophanyl-tRNA synthetase complexed with Y-13 and ATP Descriptor: (5S)-2-(methylamino)-5-[(1R)-1-(4-methyl-1H-indol-3-yl)ethyl]-1,3-oxazol-4-one, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Xu, M, Chen, S. Deposit date: 2021-04-19 Release date: 2022-02-16 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Investigate Natural Product Indolmycin and the Synthetically Improved Analogue Toward Antimycobacterial Agents. Acs Chem.Biol., 17, 2022
1I9V	CRYSTAL STRUCTURE ANALYSIS OF A TRNA-NEOMYCIN COMPLEX Descriptor: MAGNESIUM ION, NEOMYCIN, PHENYLALANINE TRANSFER RNA Authors: Mikkelsen, N.E, Johansson, K, Virtanen, A, Kirsebom, L.A. Deposit date: 2001-03-21 Release date: 2001-06-04 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Aminoglycoside binding displaces a divalent metal ion in a tRNA-neomycin B complex. Nat.Struct.Biol., 8, 2001
3K0J	Crystal structure of the E. coli ThiM riboswitch in complex with thiamine pyrophosphate and the U1A crystallization module Descriptor: MAGNESIUM ION, RNA (87-MER), THIAMINE DIPHOSPHATE, ... Authors: Kulshina, N, Edwards, T.E, Ferre-D'Amare, A.R. Deposit date: 2009-09-24 Release date: 2009-12-22 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (3.1 Å) Cite: Thermodynamic analysis of ligand binding and ligand binding-induced tertiary structure formation by the thiamine pyrophosphate riboswitch. Rna, 16, 2010
2YH1	Model of human U2AF65 tandem RRM1 and RRM2 domains with eight-site uridine binding Descriptor: 5'-R(*UP*UP*UP*UP*UP*UP*UP*UP*UP)-3', SPLICING FACTOR U2AF 65 KDA SUBUNIT Authors: Mackereth, C.D, Madl, T, Simon, B, Zanier, K, Gasch, A, Sattler, M. Deposit date: 2011-04-26 Release date: 2011-07-20 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: Multi-Domain Conformational Selection Underlies Pre-Mrna Splicing Regulation by U2Af Nature, 475, 2011

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