Equivalence class NR_all_18489.7 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7OHQ|1|6 (rep) | ITS2 | Saccharomyces cerevisiae S288C | Eukarya | Nog1-TAP associated immature ribosomal particle population C from S. cerevisiae | Electron microscopy | 3.1 | 2021-11-03 | ||
| 2 | 6M62|1|6 | ITS2-1 miscRNA | Saccharomyces cerevisiae | Eukarya | 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 | ||
| 3 | 6EM3|1|6 | 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | State A architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 3.2 | 2017-12-27 | ||
| 4 | 7BTB|1|6 | ITS2-1 miscRNA | Saccharomyces cerevisiae | Eukarya | 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 | ||
| 5 | 7OHX|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Eukarya | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL34 expression shut down, population A | Electron microscopy | 3.3 | 2021-11-03 | ||
| 6 | 6ELZ|1|6 | Internal transcribed spacer 2 | Saccharomyces cerevisiae | Eukarya | State E (TAP-Flag-Ytm1 E80A) - Visualizing the assembly pathway of nucleolar pre-60S ribosmes | Electron microscopy | 3.3 | 2017-12-27 | ||
| 7 | 6C0F|1|6 | ITS2 | Saccharomyces cerevisiae | Eukarya | Yeast nucleolar pre-60S ribosomal subunit (state 2) | Electron microscopy | 3.7 | 2018-03-14 | ||
| 8 | 3JCT|1|6 | ITS2-1 miscRNA | Saccharomyces cerevisiae | Eukarya | Cryo-em structure of eukaryotic pre-60S ribosomal subunits | Electron microscopy | 3.08 | 2016-06-01 | ||
| 9 | 6EM1|1|6 | 5.8S ribosomal RNA | Saccharomyces cerevisiae | Eukarya | State C (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 3.6 | 2017-12-27 | ||
| 10 | 6YLY|1|6 | ITS2 | Saccharomyces cerevisiae | Eukarya | pre-60S State NE2 (TAP-Flag-Nop53) | Electron microscopy | 3.8 | 2020-07-29 | ||
| 11 | 7OHP|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Eukarya | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population A | Electron microscopy | 3.9 | 2021-11-03 | ||
| 12 | 7OHV|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Eukarya | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL2 expression shut down, population C | Electron microscopy | 3.9 | 2021-11-03 | ||
| 13 | 6YLX|1|6 | ITS2 | Saccharomyces cerevisiae | Eukarya | pre-60S State NE1 (TAP-Flag-Nop53) | Electron microscopy | 3.9 | 2020-07-29 | ||
| 14 | 7OHW|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Eukarya | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population B | Electron microscopy | 3.5 | 2021-11-03 | ||
| 15 | 6EM4|1|6 | internal transcribed spacer 1 | Saccharomyces cerevisiae | Eukarya | State B architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 4.1 | 2017-12-27 | ||
| 16 | 6EM5|1|6 | Internal Transcribed Spacer 2 | Saccharomyces cerevisiae | Eukarya | State D architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | Electron microscopy | 4.3 | 2017-12-27 | ||
| 17 | 7OHS|1|6 | ITS2 | Saccharomyces cerevisiae S288C | Eukarya | Nog1-TAP associated immature ribosomal particle population F from S. cerevisiae | Electron microscopy | 4.38 | 2021-11-03 | ||
| 18 | 6CB1|1|6 | ITS2 | Saccharomyces cerevisiae | Eukarya | Yeast nucleolar pre-60S ribosomal subunit (state 3) | Electron microscopy | 4.6 | 2018-03-14 | ||
| 19 | 5Z3G|1|C | ITS2 RNA | Saccharomyces cerevisiae | Eukarya | Cryo-EM structure of a nucleolar pre-60S ribosome (Rpf1-TAP) | Electron microscopy | 3.65 | 2018-04-11 |
Release history
| Release | 3.203 |
|---|---|
| Date | 2021-11-03 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_all_18489.7 | NR_all_18489.6 | 3.203 | (13) 7BTB|1|6, 5Z3G|1|C, 6EM3|1|6, 6YLY|1|6, 3JCT|1|6, 6EM1|1|6, 6YLX|1|6, 6ELZ|1|6, 6M62|1|6, 6CB1|1|6, 6EM5|1|6, 6C0F|1|6, 6EM4|1|6 | (6) 7OHP|1|6, 7OHS|1|6, 7OHW|1|6, 7OHX|1|6, 7OHQ|1|6, 7OHV|1|6 | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_all_18489.7 | NR_all_18489.8 | 3.204 | (19) 6EM1|1|6, 6ELZ|1|6, 6CB1|1|6, 6C0F|1|6, 7OHX|1|6, 5Z3G|1|C, 7OHW|1|6, 3JCT|1|6, 7OHV|1|6, 7OHS|1|6, 7OHQ|1|6, 7OHP|1|6, 7BTB|1|6, 6YLY|1|6, 6YLX|1|6, 6M62|1|6, 6EM5|1|6, 6EM4|1|6, 6EM3|1|6 | (0) | (1) 7OHR|1|6 |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5
#S - ordering by similarity (same as in the heat map).| #S | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|
| 1 | 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 |
| 2 | 6YLY|1|6 | pre-60S State NE2 (TAP-Flag-Nop53) | ELECTRON MICROSCOPY | 3.8 | 65 |
| 3 | 6YLX|1|6 | pre-60S State NE1 (TAP-Flag-Nop53) | ELECTRON MICROSCOPY | 3.9 | 65 |
| 4 | 7OHQ|1|6 | Nog1-TAP associated immature ribosomal particle population C from S. cerevisiae | ELECTRON MICROSCOPY | 3.1 | 65 |
| 5 | 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 |
| 6 | 3JCT|1|6 | Cryo-em structure of eukaryotic pre-60S ribosomal subunits | ELECTRON MICROSCOPY | 3.08 | 65 |
| 7 | 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 |
| 8 | 6C0F|1|6 | Yeast nucleolar pre-60S ribosomal subunit (state 2) | ELECTRON MICROSCOPY | 3.7 | 87 |
| 9 | 6CB1|1|6 | Yeast nucleolar pre-60S ribosomal subunit (state 3) | ELECTRON MICROSCOPY | 4.6 | 87 |
| 10 | 5Z3G|1|C | Cryo-EM structure of a nucleolar pre-60S ribosome (Rpf1-TAP) | ELECTRON MICROSCOPY | 3.65 | 65 |
| 11 | 7OHP|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population A | ELECTRON MICROSCOPY | 3.9 | 65 |
| 12 | 7OHW|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL25 expression shut down, population B | ELECTRON MICROSCOPY | 3.5 | 65 |
| 13 | 7OHS|1|6 | Nog1-TAP associated immature ribosomal particle population F from S. cerevisiae | ELECTRON MICROSCOPY | 4.38 | 65 |
| 14 | 7OHV|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL2 expression shut down, population C | ELECTRON MICROSCOPY | 3.9 | 65 |
| 15 | 6EM1|1|6 | State C (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes | ELECTRON MICROSCOPY | 3.6 | 65 |
| 16 | 6ELZ|1|6 | State E (TAP-Flag-Ytm1 E80A) - Visualizing the assembly pathway of nucleolar pre-60S ribosmes | ELECTRON MICROSCOPY | 3.3 | 65 |
| 17 | 7OHX|1|6 | Nog1-TAP associated immature ribosomal particles from S. cerevisiae after rpL34 expression shut down, population A | ELECTRON MICROSCOPY | 3.3 | 65 |
| 18 | 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 |
| 19 | 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 |