Equivalence class NR_4.0_86626.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6ASO|1|I (rep) | U6 spliceosomal RNA | Saccharomyces cerevisiae strain HB_S_GIMBLETTROAD_9 chromosome XII sequence | Saccharomyces cerevisiae | Eukarya | RF00026 | Structure of yeast U6 snRNP with 3'-phosphate terminated U6 RNA | X-ray diffraction | 2.71 | 2018-05-09 |
| 2 | 5VSU|1|I | U6 spliceosomal RNA | Saccharomyces cerevisiae strain T8 chromosome XII sequence | Saccharomyces cerevisiae | Eukarya | RF00026 | Structure of yeast U6 snRNP with 2'-phosphate terminated U6 RNA | X-ray diffraction | 3.1 | 2018-05-09 |
| 3 | 5GM6|1|E+ 5GM6|1|L | U6 spliceosomal RNA + U2 splicesomal small nuclear RNA | Saccharomyces cerevisiae strain T.52_2H chromosome XII sequence, U2 snRNA, Pre-mRNA | Saccharomyces cerevisiae | Eukarya | RF00026 + RF00004 | Cryo-EM structure of the activated spliceosome (Bact complex) at 3.5 angstrom resolution | Electron microscopy | 3.5 | 2016-09-21 |
| 4 | 5MPS|1|6 | U6 spliceosomal RNA | Saccharomyces cerevisiae strain T.52_2H chromosome XII sequence, U2 snRNA, Yeast UBC4 gene for ubiquitin-conjugating enzyme | Saccharomyces cerevisiae | Eukarya | RF00026 | Structure of a spliceosome remodeled for exon ligation | Electron microscopy | 3.85 | 2017-01-18 |
| 5 | 5GAP|1|W | U6 spliceosomal RNA | U6 snRNA | Saccharomyces cerevisiae | Eukarya | RF00026 | Body region of the U4/U6.U5 tri-snRNP | Electron microscopy | 3.6 | 2016-01-27 |
| 6 | 5YLZ|1|D | U6 spliceosomal RNA | U6 snRNA, mRNA/intron lariat, U2 snRNA | Saccharomyces cerevisiae | Eukarya | RF00026 | Cryo-EM Structure of the Post-catalytic Spliceosome from Saccharomyces cerevisiae at 3.6 angstrom | Electron microscopy | 3.6 | 2018-07-18 |
| 7 | 5Y88|1|D | U6 spliceosomal RNA | U6 snRNA, U2 snRNA, Intron lariat | Saccharomyces cerevisiae | Eukarya | RF00026 | Cryo-EM structure of the intron-lariat spliceosome ready for disassembly from S.cerevisiae at 3.5 angstrom | Electron microscopy | 3.46 | 2018-08-01 |
| 8 | 5GMK|1|E+ 5GMK|1|L | U6 spliceosomal RNA + U2 splicesomal small nuclear RNA | U6 snRNA, U2 snRNA, Intron_BPS, 5'-Splicing Site | Saccharomyces cerevisiae | Eukarya | RF00026 + RF00004 | Cryo-EM structure of the Catalytic Step I spliceosome (C complex) at 3.4 angstrom resolution | Electron microscopy | 3.4 | 2016-08-17 |
| 9 | 5WSG|1|E | U6 spliceosomal RNA | Saccharomyces cerevisiae S288c SNR6 snRNA, RNA (91-MER), 3'-intron-lariat, 5'-intron-lariat | Saccharomyces cerevisiae | Eukarya | RF00026 | Cryo-EM structure of the Catalytic Step II spliceosome (C* complex) at 4.0 angstrom resolution | Electron microscopy | 4 | 2017-01-25 |
| 10 | 3JCM|1|D | U6 spliceosomal RNA | SNR6 snRNA | Saccharomyces cerevisiae | Eukarya | RF00026 | Cryo-EM structure of the spliceosomal U4/U6.U5 tri-snRNP | Electron microscopy | 3.8 | 2016-02-24 |
Release history
| Release | 9.15 |
|---|---|
| Date | 2018-11-09 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_86626.1 | NR_4.0_81415.1 | 9.15 | (6) 5WSG|1|E, 5MPS|1|6, 5GMK|1|E+5GMK|1|L, 5GM6|1|E+5GM6|1|L, 5GAP|1|W, 3JCM|1|D | (4) 6ASO|1|I, 5YLZ|1|D, 5Y88|1|D, 5VSU|1|I | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_86626.1 | NR_4.0_11756.1 | 9.16 | (1) 5VSU|1|I | (9) 5YLZ|1|D, 3JCM|1|D, 5GM6|1|E+5GM6|1|L, 5MPS|1|6, 5Y88|1|D, 6ASO|1|I, 5GAP|1|W, 5GMK|1|E+5GMK|1|L, 5WSG|1|E | (0) |
| NR_4.0_86626.1 | NR_4.0_13519.1 | 9.16 | (1) 6ASO|1|I | (9) 5VSU|1|I, 5Y88|1|D, 3JCM|1|D, 5GM6|1|E+5GM6|1|L, 5MPS|1|6, 5WSG|1|E, 5YLZ|1|D, 5GAP|1|W, 5GMK|1|E+5GMK|1|L | (0) |
| NR_4.0_86626.1 | NR_4.0_32074.1 | 9.16 | (1) 5GAP|1|W | (9) 5WSG|1|E, 5YLZ|1|D, 3JCM|1|D, 5GMK|1|E+5GMK|1|L, 5VSU|1|I, 5Y88|1|D, 6ASO|1|I, 5GM6|1|E+5GM6|1|L, 5MPS|1|6 | (0) |
| NR_4.0_86626.1 | NR_4.0_33246.1 | 9.16 | (1) 3JCM|1|D | (9) 5MPS|1|6, 5WSG|1|E, 5YLZ|1|D, 5GAP|1|W, 5GMK|1|E+5GMK|1|L, 5VSU|1|I, 5Y88|1|D, 6ASO|1|I, 5GM6|1|E+5GM6|1|L | (0) |
| NR_4.0_86626.1 | NR_4.0_84312.1 | 9.16 | (6) 5MPS|1|6, 5GM6|1|E+5GM6|1|L, 5Y88|1|D, 5WSG|1|E, 5GMK|1|E+5GMK|1|L, 5YLZ|1|D | (4) 5VSU|1|I, 6ASO|1|I, 3JCM|1|D, 5GAP|1|W | (0) |
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 | NAKB_NA_annotation | NAKB_protein_annotation |
|---|---|---|---|---|---|---|---|
| 1 | 5VSU|1|I | Title: Structure of yeast U6 snRNP with 2'-phosphate terminated U6 RNA | X-RAY DIFFRACTION | 3.1 | 72 | ||
| 2 | 6ASO|1|I | Title: Structure of yeast U6 snRNP with 3'-phosphate terminated U6 RNA | X-RAY DIFFRACTION | 2.71 | 69 | ||
| 3 | 5MPS|1|6 | Title: Structure of a spliceosome remodeled for exon ligation | ELECTRON MICROSCOPY | 3.85 | 99 | ||
| 4 | 5Y88|1|D | Title: Cryo-EM structure of the intron-lariat spliceosome ready for disassembly from S.cerevisiae at 3.5 angstrom | ELECTRON MICROSCOPY | 3.46 | 101 | ||
| 5 | 5GMK|1|E+5GMK|1|L | Title: Cryo-EM structure of the Catalytic Step I spliceosome (C complex) at 3.4 angstrom resolution | ELECTRON MICROSCOPY | 3.4 | 103 | ||
| 6 | 5WSG|1|E | Title: Cryo-EM structure of the Catalytic Step II spliceosome (C* complex) at 4.0 angstrom resolution | ELECTRON MICROSCOPY | 4 | 103 | ||
| 7 | 5YLZ|1|D | Title: Cryo-EM Structure of the Post-catalytic Spliceosome from Saccharomyces cerevisiae at 3.6 angstrom | ELECTRON MICROSCOPY | 3.6 | 103 | ||
| 8 | 5GM6|1|E+5GM6|1|L | Title: Cryo-EM structure of the activated spliceosome (Bact complex) at 3.5 angstrom resolution | ELECTRON MICROSCOPY | 3.5 | 103 | ||
| 9 | 5GAP|1|W | Title: Body region of the U4/U6.U5 tri-snRNP | ELECTRON MICROSCOPY | 3.6 | 56 | ||
| 10 | 3JCM|1|D | Title: Cryo-EM structure of the spliceosomal U4/U6.U5 tri-snRNP | ELECTRON MICROSCOPY | 3.8 | 45 |
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