Equivalence class NR_3.0_35054.7 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8OLV|1|A (rep) | Group II catalytic intron D1-D4-3 | Group IIC intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and ARN25850 | X-ray diffraction | 2.81 | 394 | 2024-06-19 |
| 2 | 4FAR|1|A | Group II catalytic intron D1-D4-3 | Group IIC intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and 5'-exon | X-ray diffraction | 2.86 | 390 | 2012-11-14 |
| 3 | 8OLS|1|A | Group II catalytic intron D1-D4-3 | Group IIC intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and intronistat B | X-ray diffraction | 3 | 390 | 2024-06-19 |
| 4 | 4E8N|1|A | Group II catalytic intron D1-D4-3 | Group IIC intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Structure of Oceanobacillus iheyensis group II intron in a ligand-free state in the presence of NH4+ and Mg2+ | X-ray diffraction | 2.96 | 393 | 2012-11-14 |
| 5 | 4FAU|1|A | Group II catalytic intron D1-D4-3 | Group IIC intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Structure of Oceanobacillus iheyensis group II intron in the presence of Li+, Mg2+ and 5'-exon | X-ray diffraction | 2.87 | 393 | 2012-11-14 |
| 6 | 4E8Q|1|A | Group II catalytic intron D1-D4-3 | Group IIC intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Structure of Oceanobacillus iheyensis group II intron in a ligand-free state in the presence of Tl+ and Mg2+ | X-ray diffraction | 2.84 | 393 | 2012-11-14 |
| 7 | 4Y1O|1|A | Group II catalytic intron D1-D4-3 | group II intron, domain 1 | Oceanobacillus iheyensis | Bacteria | RF02001 | Oceanobacillus iheyensis group II intron domain 1 | X-ray diffraction | 2.95 | 258 | 2015-10-14 |
| 8 | 4Y1O|1|B | Group II catalytic intron D1-D4-3 | group II intron, domain 1 | Oceanobacillus iheyensis | Bacteria | RF02001 | Oceanobacillus iheyensis group II intron domain 1 | X-ray diffraction | 2.95 | 256 | 2015-10-14 |
| 9 | 4FAW|1|A | Group II catalytic intron D1-D4-3 | 5'-R(*A*UP*UP*UP*AP*UP*UP*A)-3', Group IIC intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and a hydrolyzed oligonucleotide fragment | X-ray diffraction | 2.7 | 390 | 2012-11-14 |
| 10 | 3G78|1|A | Group II catalytic intron D1-D4-3 | Group II intron, Ligated EXON product | Oceanobacillus iheyensis | Bacteria | RF02001 | Insight into group II intron catalysis from revised crystal structure | X-ray diffraction | 2.8 | 389 | 2010-02-16 |
| 11 | 4Y1N|1|B | Group II catalytic intron D1-D4-3 | group II intron, domain 1 | Oceanobacillus iheyensis | Bacteria | RF02001 | Oceanobacillus iheyensis group II intron domain 1 with iridium hexamine | X-ray diffraction | 3 | 259 | 2015-10-14 |
| 12 | 4Y1N|1|A | Group II catalytic intron D1-D4-3 | group II intron, domain 1 | Oceanobacillus iheyensis | Bacteria | RF02001 | Oceanobacillus iheyensis group II intron domain 1 with iridium hexamine | X-ray diffraction | 3 | 249 | 2015-10-14 |
| 13 | 9C6J|1|A | Group II catalytic intron D1-D4-3 | Group IIC intron embedded with the TPP riboswitch | Oceanobacillus iheyensis | Bacteria | RF02001 | Group IIC intron embedded with the TPP riboswitch | Electron microscopy | 2.41 | 387 | 2024-12-04 |
| 14 | 9C6I|1|A | Group II catalytic intron D1-D4-3 | Group IIC Intron | Oceanobacillus iheyensis | Bacteria | RF02001 | Cryo-EM structure of a group IIC intron RNA | Electron microscopy | 2.56 | 393 | 2024-12-04 |
Release history
| Release | 3.378 | 3.379 | 3.380 | 3.381 | 3.382 | 3.383 | 3.384 | 3.385 | 3.386 | 3.387 | 3.388 | 3.389 | 3.390 | 3.391 | 3.392 | 3.393 | 3.394 | 3.395 | 3.396 | 3.397 | 3.398 | 3.399 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2025-03-13 | 2025-03-19 | 2025-03-26 | 2025-04-02 | 2025-04-09 | 2025-04-16 | 2025-04-23 | 2025-04-30 | 2025-05-07 | 2025-05-14 | 2025-05-21 | 2025-05-28 | 2025-06-04 | 2025-06-11 | 2025-06-18 | 2025-06-25 | 2025-07-02 | 2025-07-09 | 2025-07-16 | 2025-07-23 | 2025-07-30 | 2025-08-06 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
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Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
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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 | #NTs |
|---|---|---|---|---|---|---|
| 1 | 4E8Q|1|A | Structure of Oceanobacillus iheyensis group II intron in a ligand-free state in the presence of Tl+ and Mg2+ | X-RAY DIFFRACTION | 2.84 | 393 | |
| 2 | 4E8N|1|A | Structure of Oceanobacillus iheyensis group II intron in a ligand-free state in the presence of NH4+ and Mg2+ | X-RAY DIFFRACTION | 2.96 | 393 | |
| 3 | 8OLS|1|A | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and intronistat B | X-RAY DIFFRACTION | 3 | 390 | |
| 4 | 8OLV|1|A | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and ARN25850 | X-RAY DIFFRACTION | 2.81 | 394 | |
| 5 | 4FAW|1|A | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and a hydrolyzed oligonucleotide fragment | X-RAY DIFFRACTION | 2.7 | 390 | |
| 6 | 4FAU|1|A | Structure of Oceanobacillus iheyensis group II intron in the presence of Li+, Mg2+ and 5'-exon | X-RAY DIFFRACTION | 2.87 | 393 | |
| 7 | 4FAR|1|A | Structure of Oceanobacillus iheyensis group II intron in the presence of K+, Mg2+ and 5'-exon | X-RAY DIFFRACTION | 2.86 | 390 | |
| 8 | 3G78|1|A | Insight into group II intron catalysis from revised crystal structure | X-RAY DIFFRACTION | 2.8 | 389 | |
| 9 | 9C6J|1|A | Group IIC intron embedded with the TPP riboswitch | ELECTRON MICROSCOPY | 2.41 | 387 | |
| 10 | 9C6I|1|A | Cryo-EM structure of a group IIC intron RNA | ELECTRON MICROSCOPY | 2.56 | 393 | |
| 11 | 4Y1O|1|B | Oceanobacillus iheyensis group II intron domain 1 | X-RAY DIFFRACTION | 2.95 | 256 | |
| 12 | 4Y1N|1|A | Oceanobacillus iheyensis group II intron domain 1 with iridium hexamine | X-RAY DIFFRACTION | 3 | 249 | |
| 13 | 4Y1N|1|B | Oceanobacillus iheyensis group II intron domain 1 with iridium hexamine | X-RAY DIFFRACTION | 3 | 259 | |
| 14 | 4Y1O|1|A | Oceanobacillus iheyensis group II intron domain 1 | X-RAY DIFFRACTION | 2.95 | 258 |
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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