Equivalence class NR_20.0_18489.10 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8V87|1|6 (rep) | ITS2 RNA | Saccharomyces cerevisiae BY4741 | 60S ribosome biogenesis intermediate (Dbp10 post-catalytic structure - Overall map) | Electron microscopy | 2.66 | 2024-05-01 | |||
| 2 | 8V83|1|6 | Saccharomyces cerevisiae ITS-2 | Saccharomyces cerevisiae BY4741 | 60S ribosome biogenesis intermediate (Dbp10 pre-catalytic structure - Overall map) | Electron microscopy | 2.53 | 2024-05-01 | |||
| 3 | 8V84|1|6 | ITS2 RNA | Saccharomyces cerevisiae BY4741 | 60S ribosome biogenesis intermediate (Dbp10 catalytic structure - Overall map) | Electron microscopy | 2.7 | 2024-05-01 | |||
| 4 | 7OHQ|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Nog1-TAP associated immature ribosomal particle population C from S. cerevisiae | Electron microscopy | 3.1 | 2021-11-03 | |||
| 5 | 6M62|1|6 | ITS2-1 miscRNA | Saccharomyces cerevisiae | Cryo-Em structure of eukaryotic pre-60S ribosome subunit from Saccharomyces cerevisiae rpf2 delta 255-344 strain, C4 state. | Electron microscopy | 3.2 | 2020-08-26 | |||
| 6 | 6EM3|1|6 | 5.8S ribosomal RNA | Saccharomyces cerevisiae | State A architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 3.2 | 2017-12-27 | |||
| 7 | 7BTB|1|6 | ITS2-1 miscRNA | Saccharomyces cerevisiae | Cryo-EM structure of pre-60S ribosome from Saccharomyces cerevisiae rpl4delta63-87 strain at 3.22 Angstroms resolution(state R2) | Electron microscopy | 3.22 | 2020-10-28 | |||
| 8 | 7OHX|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL34 expression shut down, population A | Electron microscopy | 3.3 | 2021-11-03 | |||
| 9 | 6ELZ|1|6 | Internal transcribed spacer 2 | Saccharomyces cerevisiae | State E (TAP-Flag-Ytm1 E80A) - Visualizing the assembly pathway of nucleolar pre-60S ribosmes | Electron microscopy | 3.3 | 2017-12-27 | |||
| 10 | 6C0F|1|6 | ITS2 | Saccharomyces cerevisiae | Yeast nucleolar pre-60S ribosomal subunit (state 2) | Electron microscopy | 3.7 | 2018-03-14 | |||
| 11 | 3JCT|1|6 | ITS2-1 miscRNA | Saccharomyces cerevisiae | Cryo-em structure of eukaryotic pre-60S ribosomal subunits | Electron microscopy | 3.08 | 2016-06-01 | |||
| 12 | 6EM1|1|6 | 5.8S ribosomal RNA | Saccharomyces cerevisiae | State C (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 3.6 | 2017-12-27 | |||
| 13 | 6YLY|1|6 | ITS2 | Saccharomyces cerevisiae | pre-60S State NE2 (TAP-Flag-Nop53) | Electron microscopy | 3.8 | 2020-07-29 | |||
| 14 | 8E5T|1|3 | ITS2 ribosomal RNA | Saccharomyces cerevisiae BY4741 | Yeast co-transcriptional Noc1-Noc2 RNP assembly checkpoint intermediate | Electron microscopy | 4 | 2023-04-12 | |||
| 15 | 7OHP|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population A | Electron microscopy | 3.9 | 2021-11-03 | |||
| 16 | 7OHV|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL2 expression shut down, population C | Electron microscopy | 3.9 | 2021-11-03 | |||
| 17 | 6YLX|1|6 | ITS2 | Saccharomyces cerevisiae | pre-60S State NE1 (TAP-Flag-Nop53) | Electron microscopy | 3.9 | 2020-07-29 | |||
| 18 | 7OHW|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population B | Electron microscopy | 3.5 | 2021-11-03 | |||
| 19 | 6EM4|1|6 | internal transcribed spacer 1 | Saccharomyces cerevisiae | State B architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 4.1 | 2017-12-27 | |||
| 20 | 6EM5|1|6 | Internal Transcribed Spacer 2 | Saccharomyces cerevisiae | State D architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 4.3 | 2017-12-27 | |||
| 21 | 7OHS|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Nog1-TAP associated immature ribosomal particle population F from S. cerevisiae | Electron microscopy | 4.38 | 2021-11-03 | |||
| 22 | 6CB1|1|6 | ITS2 | Saccharomyces cerevisiae | Yeast nucleolar pre-60S ribosomal subunit (state 3) | Electron microscopy | 4.6 | 2018-03-14 | |||
| 23 | 5Z3G|1|C | ITS2 RNA | Saccharomyces cerevisiae | Cryo-EM structure of a nucleolar pre-60S ribosome (Rpf1-TAP) | Electron microscopy | 3.65 | 2018-04-11 | |||
| 24 | 7OHR|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Nog1-TAP associated immature ribosomal particle population E from S. cerevisiae | Electron microscopy | 4.72 | 2021-11-10 |
Release history
| Release | 3.333 | 3.334 | 3.335 | 3.336 | 3.337 | 3.338 | 3.339 | 3.340 | 3.341 | 3.342 | 3.343 | 3.344 | 3.345 | 3.346 | 3.347 | 3.348 | 3.349 | 3.350 | 3.351 | 3.352 | 3.353 | 3.354 | 3.355 | 3.356 | 3.357 | 3.358 | 3.359 | 3.360 | 3.361 | 3.362 | 3.363 | 3.364 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2024-05-01 | 2024-05-08 | 2024-05-15 | 2024-05-22 | 2024-05-29 | 2024-06-05 | 2024-06-12 | 2024-06-19 | 2024-06-26 | 2024-07-03 | 2024-07-10 | 2024-07-17 | 2024-07-25 | 2024-07-31 | 2024-08-07 | 2024-08-14 | 2024-08-21 | 2024-08-28 | 2024-09-04 | 2024-09-11 | 2024-09-18 | 2024-09-25 | 2024-10-02 | 2024-10-09 | 2024-10-16 | 2024-10-23 | 2024-10-30 | 2024-11-06 | 2024-11-13 | 2024-11-20 | 2024-11-27 | 2024-12-04 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.
| #S | View | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|---|
| 1 | 7OHX|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL34 expression shut down, population A | ELECTRON MICROSCOPY | 3.3 | 65 | |
| 2 | 6ELZ|1|6 | State E (TAP-Flag-Ytm1 E80A) - Visualizing the assembly pathway of nucleolar pre-60S ribosmes | ELECTRON MICROSCOPY | 3.3 | 65 | |
| 3 | 6EM1|1|6 | State C (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | ELECTRON MICROSCOPY | 3.6 | 65 | |
| 4 | 7OHR|1|6 | Nog1-TAP associated immature ribosomal particle population E from S. cerevisiae | ELECTRON MICROSCOPY | 4.72 | 65 | |
| 5 | 7OHV|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL2 expression shut down, population C | ELECTRON MICROSCOPY | 3.9 | 65 | |
| 6 | 7OHS|1|6 | Nog1-TAP associated immature ribosomal particle population F from S. cerevisiae | ELECTRON MICROSCOPY | 4.38 | 65 | |
| 7 | 7OHW|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population B | ELECTRON MICROSCOPY | 3.5 | 65 | |
| 8 | 7OHP|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population A | ELECTRON MICROSCOPY | 3.9 | 65 | |
| 9 | 5Z3G|1|C | Cryo-EM structure of a nucleolar pre-60S ribosome (Rpf1-TAP) | ELECTRON MICROSCOPY | 3.65 | 65 | |
| 10 | 8E5T|1|3 | Yeast co-transcriptional Noc1-Noc2 RNP assembly checkpoint intermediate | ELECTRON MICROSCOPY | 4 | 87 | |
| 11 | 6CB1|1|6 | Yeast nucleolar pre-60S ribosomal subunit (state 3) | ELECTRON MICROSCOPY | 4.6 | 87 | |
| 12 | 6C0F|1|6 | Yeast nucleolar pre-60S ribosomal subunit (state 2) | ELECTRON MICROSCOPY | 3.7 | 87 | |
| 13 | 7BTB|1|6 | Cryo-EM structure of pre-60S ribosome from Saccharomyces cerevisiae rpl4delta63-87 strain at 3.22 Angstroms resolution(state R2) | ELECTRON MICROSCOPY | 3.22 | 65 | |
| 14 | 3JCT|1|6 | Cryo-em structure of eukaryotic pre-60S ribosomal subunits | ELECTRON MICROSCOPY | 3.08 | 65 | |
| 15 | 6M62|1|6 | Cryo-Em structure of eukaryotic pre-60S ribosome subunit from Saccharomyces cerevisiae rpf2 delta 255-344 strain, C4 state. | ELECTRON MICROSCOPY | 3.2 | 65 | |
| 16 | 7OHQ|1|6 | Nog1-TAP associated immature ribosomal particle population C from S. cerevisiae | ELECTRON MICROSCOPY | 3.1 | 65 | |
| 17 | 8V87|1|6 | 60S ribosome biogenesis intermediate (Dbp10 post-catalytic structure - Overall map) | ELECTRON MICROSCOPY | 2.66 | 87 | |
| 18 | 8V84|1|6 | 60S ribosome biogenesis intermediate (Dbp10 catalytic structure - Overall map) | ELECTRON MICROSCOPY | 2.7 | 58 | |
| 19 | 8V83|1|6 | 60S ribosome biogenesis intermediate (Dbp10 pre-catalytic structure - Overall map) | ELECTRON MICROSCOPY | 2.53 | 58 | |
| 20 | 6YLX|1|6 | pre-60S State NE1 (TAP-Flag-Nop53) | ELECTRON MICROSCOPY | 3.9 | 65 | |
| 21 | 6YLY|1|6 | pre-60S State NE2 (TAP-Flag-Nop53) | ELECTRON MICROSCOPY | 3.8 | 65 | |
| 22 | 6EM4|1|6 | State B architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | ELECTRON MICROSCOPY | 4.1 | 65 | |
| 23 | 6EM3|1|6 | State A architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | ELECTRON MICROSCOPY | 3.2 | 65 | |
| 24 | 6EM5|1|6 | State D architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | ELECTRON MICROSCOPY | 4.3 | 65 |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.
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