PDB: 499 resultsInfo pagesStatus searchChemie searchBIRD

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7SWF	Cryo-EM structure of Arabidopsis Ago10-guide-target RNA complex in a central duplex conformation Descriptor: MAGNESIUM ION, Protein argonaute 10, RNA (5'-R(P*CP*CP*AP*UP*UP*GP*UP*CP*AP*CP*AP*CP*UP*CP*CP*AP*A)-3'), ... Authors: Xiao, Y, MacRae, I.J. Deposit date: 2021-11-19 Release date: 2022-08-03 Last modified: 2022-10-05 Method: ELECTRON MICROSCOPY (3.79 Å) Cite: The molecular mechanism of microRNA duplex selectivity of Arabidopsis ARGONAUTE10. Nucleic Acids Res., 50, 2022
7SVA	Cryo-EM structure of Arabidopsis Ago10-guide RNA complex Descriptor: MAGNESIUM ION, Protein argonaute 10, RNA (5'-R(P*UP*GP*GP*AP*GP*UP*GP*UP*GP*AP*CP*AP*AP*UP*GP*GP*UP*GP*UP*UP*U)-3') Authors: Xiao, Y, MacRae, I.J. Deposit date: 2021-11-18 Release date: 2022-11-23 Last modified: 2023-07-05 Method: ELECTRON MICROSCOPY (3.26 Å) Cite: Structural basis for RNA slicing by a plant Argonaute. Nat.Struct.Mol.Biol., 30, 2023
7SWQ	Cryo-EM structure of Arabidopsis Ago10-guide-target RNA complex in a bent duplex conformation Descriptor: MAGNESIUM ION, Protein argonaute 10, RNA (5'-R(P*CP*CP*AP*UP*UP*GP*UP*CP*AP*CP*AP*CP*UP*CP*CP*AP*AP*A)-3'), ... Authors: Xiao, Y, MacRae, I.J. Deposit date: 2021-11-21 Release date: 2022-11-23 Last modified: 2023-07-05 Method: ELECTRON MICROSCOPY (3.79 Å) Cite: Structural basis for RNA slicing by a plant Argonaute. Nat.Struct.Mol.Biol., 30, 2023
6M6R	Crystal structure of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3) C-terminal domain with 5'-ppp 8-mer ssRNA Descriptor: Dicer Related Helicase, RNA (5'-R(*(GTP)P*GP*CP*CP*GP*CP*CP*C)-3'), ZINC ION Authors: Li, K, Zheng, J, Wirawan, M, Xiong, Z, Fedorova, O, Griffin, P, Plyle, A, Luo, D. Deposit date: 2020-03-16 Release date: 2021-03-17 Last modified: 2024-05-29 Method: X-RAY DIFFRACTION (1.89 Å) Cite: Insights into the structure and RNA-binding specificity of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3). Nucleic Acids Res., 49, 2021
6M6Q	Crystal structure of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3) N-terminal domain Descriptor: Dicer Related Helicase Authors: Li, K, Zheng, J, Wirawan, M, Xiong, Z, Fedorova, O, Griffin, P, Plyle, A, Luo, D. Deposit date: 2020-03-16 Release date: 2021-03-17 Last modified: 2024-05-29 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Insights into the structure and RNA-binding specificity of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3). Nucleic Acids Res., 49, 2021
6M6S	Crystal structure of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3) C-terminal domain with 5'-ppp 12-mer dsRNA Descriptor: Dicer Related Helicase, RNA (5'-R(*(GTP)P*GP*CP*GP*CP*GP*CP*GP*CP*GP*CP*C)-3'), ZINC ION Authors: Li, K, Zheng, J, Wirawan, M, Xiong, Z, Fedorova, O, Griffin, P, Plyle, A, Luo, D. Deposit date: 2020-03-16 Release date: 2021-03-17 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (1.6 Å) Cite: Insights into the structure and RNA-binding specificity of Caenorhabditis elegans Dicer-related helicase 3 (DRH-3). Nucleic Acids Res., 49, 2021
7LO9	RNA dodecamer containing a GNA A residue Descriptor: Chains: A,B,C,D Authors: Harp, J.M, Wawrzak, Z, Egli, M. Deposit date: 2021-02-09 Release date: 2021-12-22 Last modified: 2024-05-22 Method: X-RAY DIFFRACTION (1.78 Å) Cite: Overcoming GNA/RNA base-pairing limitations using isonucleotides improves the pharmacodynamic activity of ESC+ GalNAc-siRNAs. Nucleic Acids Res., 49, 2021
2FFL	Crystal Structure of Dicer from Giardia intestinalis Descriptor: Dicer, MANGANESE (II) ION Authors: Doudna, J.A, MacRae, I.J, Adams, P.D. Deposit date: 2005-12-19 Release date: 2006-01-24 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (3.33 Å) Cite: Structural Basis of Double-Stranded RNA Processing by Dicer Science, 311, 2006
7DE9	crystal structure of Arabidopsis RDM15 tudor domain in complex with an H3K4me1 peptide Descriptor: Histone H3.2, Transcriptional regulator Authors: Song, Z, Du, J. Deposit date: 2020-11-03 Release date: 2021-04-07 Last modified: 2021-06-23 Method: X-RAY DIFFRACTION (1.711 Å) Cite: A histone H3K4me1-specific binding protein is required for siRNA accumulation and DNA methylation at a subset of loci targeted by RNA-directed DNA methylation. Nat Commun, 12, 2021
2N3H	Solution structure of DRB4 dsRBD2 (viz. DRB4(81-151)) Descriptor: Double-stranded RNA-binding protein 4 Authors: Deshmukh, M, Chiliveri, S. Deposit date: 2015-05-29 Release date: 2016-09-07 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: DRB4 dsRBD1 drives dsRNA recognition in Arabidopsis thaliana tasi/siRNA pathway. Nucleic Acids Res., 45, 2017
2N3G	Solution structure of DRB4 dsRBD1 (viz. DRB4(1-72)) Descriptor: Double-stranded RNA-binding protein 4 Authors: Deshmukh, M, Chiliveri, S. Deposit date: 2015-05-29 Release date: 2016-09-07 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: DRB4 dsRBD1 drives dsRNA recognition in Arabidopsis thaliana tasi/siRNA pathway. Nucleic Acids Res., 45, 2017
3CZ3	Crystal structure of Tomato Aspermy Virus 2b in complex with siRNA Descriptor: Protein 2b, RNA (5'-R(P*CP*GP*UP*AP*CP*GP*CP*GP*GP*AP*AP*UP*AP*CP*UP*UP*CP*GP*A)-3'), RNA (5'-R(P*UP*CP*GP*AP*AP*GP*UP*AP*UP*UP*CP*CP*GP*CP*GP*UP*AP*CP*G)-3') Authors: Ma, J.B, Li, F, Ding, S.W, Patel, D.J. Deposit date: 2008-04-27 Release date: 2009-05-05 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (3.23 Å) Cite: Structural Basis for siRNA Recognition by 2b, a Viral Suppressor of Non-Cell Autonomous RNA Silencing To be Published
2N3F	Solution structure of both dsRBDs of DRB4 along with linker (viz. DRB4(1-153)) Descriptor: Double-stranded RNA-binding protein 4 Authors: Deshmukh, M, Chiliveri, S. Deposit date: 2015-05-29 Release date: 2016-09-07 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: DRB4 dsRBD1 drives dsRNA recognition in Arabidopsis thaliana tasi/siRNA pathway. Nucleic Acids Res., 45, 2017
5V2H	RNA octamer containing glycol nucleic acid, SgnT Descriptor: COBALT HEXAMMINE(III), MAGNESIUM ION, RNA (5'-R(*(CBV)P*GP*AP*AP*(ZTH)P*UP*CP*G)-3') Authors: Harp, J.M, Egli, M. Deposit date: 2017-03-04 Release date: 2017-06-14 Last modified: 2024-05-22 Method: X-RAY DIFFRACTION (1.080013 Å) Cite: Chirality Dependent Potency Enhancement and Structural Impact of Glycol Nucleic Acid Modification on siRNA. J. Am. Chem. Soc., 139, 2017
5V1K	Structure of R-GNA dodecamer Descriptor: RNA (5'-R(*CP*GP*CP*GP*AP*AP*(5BU)P*(8RJ)P*AP*GP*CP*G)-3') Authors: Pallan, P.S, Egli, M. Deposit date: 2017-03-02 Release date: 2017-06-21 Last modified: 2024-05-22 Method: X-RAY DIFFRACTION (1.18 Å) Cite: Chirality Dependent Potency Enhancement and Structural Impact of Glycol Nucleic Acid Modification on siRNA. J. Am. Chem. Soc., 2017
5V1L	Structure of S-GNA dodecamer Descriptor: RNA (5'-R(*CP*GP*CP*GP*AP*AP*UP*(ZTH)P*AP*GP*CP*G)-3'), SPERMINE, STRONTIUM ION Authors: Pallan, P.S, Egli, M. Deposit date: 2017-03-02 Release date: 2017-06-14 Last modified: 2024-05-22 Method: X-RAY DIFFRACTION (1.2 Å) Cite: Chirality Dependent Potency Enhancement and Structural Impact of Glycol Nucleic Acid Modification on siRNA. J. Am. Chem. Soc., 139, 2017
6FDB	Positively supercharged variant of the computationally designed cage protein O3-33 Descriptor: Propanediol utilization protein Authors: Edwardson, T, Mori, T, Hilvert, D. Deposit date: 2017-12-22 Release date: 2018-08-22 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (3.619 Å) Cite: Rational Engineering of a Designed Protein Cage for siRNA Delivery. J. Am. Chem. Soc., 140, 2018
6CY2	RNA octamer containing 2'-OMe, 4'Calpha-OMe U. Descriptor: RNA (5'-R(*(CBV)P*GP*AP*AP*(UOA)P*UP*CP*G)-3') Authors: Harp, J.M, Egli, M. Deposit date: 2018-04-04 Release date: 2018-08-29 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (1.4 Å) Cite: Structural basis for the synergy of 4'- and 2'-modifications on siRNA nuclease resistance, thermal stability and RNAi activity. Nucleic Acids Res., 46, 2018
6CXZ	RNA octamer containing 2'-F, 4'-Calpha-Me U. Descriptor: CACODYLATE ION, COBALT HEXAMMINE(III), RNA (5'-R(*CP*GP*AP*AP*(U4M)P*UP*CP*G)-3') Authors: Harp, J.M, Egli, M. Deposit date: 2018-04-04 Release date: 2018-08-29 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Structural basis for the synergy of 4'- and 2'-modifications on siRNA nuclease resistance, thermal stability and RNAi activity. Nucleic Acids Res., 46, 2018
6CY0	RNA octamer containing 2'-F, 4'-Cbeta-OMe U. Descriptor: RNA (5'-R(*(CBV)P*GP*AP*AP*(UFB)P*UP*CP*G)-3') Authors: Harp, J.M, Egli, M. Deposit date: 2018-04-04 Release date: 2018-08-29 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.398 Å) Cite: Structural basis for the synergy of 4'- and 2'-modifications on siRNA nuclease resistance, thermal stability and RNAi activity. Nucleic Acids Res., 46, 2018
6CY4	RNA octamer containing 2'-OMe, 4'- Cbeta-OMe U. Descriptor: RNA (5'-R(*(CBV)P*GP*AP*AP*(UOB)P*UP*CP*G)-3') Authors: Harp, J.M, Egli, M. Deposit date: 2018-04-04 Release date: 2018-08-29 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (1.851 Å) Cite: Structural basis for the synergy of 4'- and 2'-modifications on siRNA nuclease resistance, thermal stability and RNAi activity. Nucleic Acids Res., 46, 2018
3S8U	Crystal structure of a 2-azido-adenine-modified RNA Descriptor: Ecoli 23 S rRNA Sarcin Ricin loop Authors: Ennifar, E, Micura, R. Deposit date: 2011-05-31 Release date: 2012-04-11 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.2 Å) Cite: 2'-Azido RNA, a Versatile Tool for Chemical Biology: Synthesis, X-ray Structure, siRNA Applications, Click Labeling. Acs Chem.Biol., 7, 2012
3S7C	Crystal structure of a 2'-azido-uridine-modified RNA Descriptor: Ecoli 23 S rRNA Sarcin Ricin loop Authors: Ennifar, E, Micura, R. Deposit date: 2011-05-26 Release date: 2012-04-11 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.1 Å) Cite: 2'-Azido RNA, a Versatile Tool for Chemical Biology: Synthesis, X-ray Structure, siRNA Applications, Click Labeling. Acs Chem.Biol., 7, 2012
8HKE	dsRNA transporter Descriptor: RNA (37-MER), Systemic RNA interference defective protein 1, ZINC ION Authors: Jiang, D.H, Zhang, J.T. Deposit date: 2022-11-25 Release date: 2023-11-29 Last modified: 2024-05-08 Method: ELECTRON MICROSCOPY (3.71 Å) Cite: Structural insights into double-stranded RNA recognition and transport by SID-1. Nat.Struct.Mol.Biol., 2024
8HIP	dsRNA transporter Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Systemic RNA interference defective protein 1, ZINC ION, ... Authors: Jiang, D.H, Zhang, J.T. Deposit date: 2022-11-21 Release date: 2023-11-29 Last modified: 2024-05-08 Method: ELECTRON MICROSCOPY (2.77 Å) Cite: Structural insights into double-stranded RNA recognition and transport by SID-1. Nat.Struct.Mol.Biol., 2024

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