Equivalence class NR_2.5_64918.15 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7SOS|1|B (rep) | RNA (5'-R(*AP*AP*AP*A)-3') | synthetic construct | LaM domain of human LARP1 in complex with AAAA RNA | X-ray diffraction | 1.25 | 2022-08-03 | |||
| 2 | 6SCE|1|B | cyclic oligoadenylate | synthetic construct | Structure of a Type III CRISPR defence DNA nuclease activated by cyclic oligoadenylate | X-ray diffraction | 1.83 | 2020-02-19 | |||
| 3 | 6XL1|1|C | cA4 | synthetic construct | crystal structure of cA4-activated Cad1(D294N) | X-ray diffraction | 1.95 | 2020-12-30 | |||
| 4 | 6SCF|1|I | cyclic oligoadenylate | synthetic construct | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-ray diffraction | 1.55 | 2019-10-30 | |||
| 5 | 6SCF|1|K | cyclic oligoadenylate | synthetic construct | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-ray diffraction | 1.55 | 2019-10-30 | |||
| 6 | 6YUD|1|K | cyclic tetra-adenylate (cA4) | synthetic construct | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-ray diffraction | 1.84 | 2020-08-19 | |||
| 7 | 6YUD|1|O | cyclic tetra-adenylate (cA4) | synthetic construct | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-ray diffraction | 1.84 | 2020-08-19 | |||
| 8 | 6SCF|1|M | cyclic oligoadenylate | synthetic construct | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-ray diffraction | 1.55 | 2019-10-30 | |||
| 9 | 6YUD|1|P | cyclic tetra-adenylate (cA4) | synthetic construct | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-ray diffraction | 1.84 | 2020-08-19 | |||
| 10 | 6SCF|1|L | cyclic oligoadenylate | synthetic construct | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-ray diffraction | 1.55 | 2019-10-30 | |||
| 11 | 6YUD|1|M | cyclic tetra-adenylate (cA4) | synthetic construct | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-ray diffraction | 1.84 | 2020-08-19 | |||
| 12 | 6YUD|1|Q | cyclic tetra-adenylate (cA4) | synthetic construct | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-ray diffraction | 1.84 | 2020-08-19 | |||
| 13 | 6WXQ|1|E | cyclic tetraadenylate | synthetic construct | Crystal structure of CRISPR-associated transcription factor Csa3 complexed with cA4 | X-ray diffraction | 2.05 | 2021-11-17 | |||
| 14 | 8BAO|1|C | Cyclic tetra-adenylate (cA4) | synthetic construct | Dysgonamonadaceae bacterium CRISPR ancillary nuclease 2 | X-ray diffraction | 2.06 | 2022-11-30 | |||
| 15 | 6W11|1|C | cA4 | Saccharolobus solfataricus | The structure of Sulfolobus solfataricus Csa3 in complex with cyclic tetraadenylate (cA4) | X-ray diffraction | 2.46 | 2021-03-10 | |||
| 16 | 6O6X|1|D | Cyclic RNA cA4 | synthetic construct | Crystal structure of Csm6 W14A/E337A mutant in complex with cA4 by cocrystallization | X-ray diffraction | 2.11 | 2019-07-31 | |||
| 17 | 4BA2|1|R | 5'-R(*AP*AP*AP*AP)-3' | Saccharolobus solfataricus | Archaeal exosome (Rrp4-Rrp41(D182A)-Rrp42) bound to inorganic phosphate | X-ray diffraction | 2.5 | 2012-10-03 | |||
| 18 | 7BDV|1|F | cyclic tetra-adenylate | synthetic construct | Structure of Can2 from Sulfobacillus thermosulfidooxidans in complex with cyclic tetra-adenylate (cA4) | X-ray diffraction | 2.02 | 2021-03-03 | |||
| 19 | 8B0R|1|D | RNA (5'-R(P*AP*AP*AP*A)-3') | Sulfurihydrogenibium | Structure of the CalpL/cA4 complex | X-ray diffraction | 2.2 | 2022-11-16 | |||
| 20 | 7BDV|1|H | cyclic tetra-adenylate | synthetic construct | Structure of Can2 from Sulfobacillus thermosulfidooxidans in complex with cyclic tetra-adenylate (cA4) | X-ray diffraction | 2.02 | 2021-03-03 | |||
| 21 | 6O6X|1|C | Cyclic RNA cA4 | synthetic construct | Crystal structure of Csm6 W14A/E337A mutant in complex with cA4 by cocrystallization | X-ray diffraction | 2.11 | 2019-07-31 | |||
| 22 | 7DID|1|C | RNA (5'-R(*AP*AP*AP*A)-3') | Mycoplasma genitalium G37 | Mycoplasma genitalium RNase R in complex with ribose methylated single-stranded RNA | X-ray diffraction | 1.9 | 2021-03-17 | |||
| 23 | 6O7B|1|C | Cyclic RNA cA4 | synthetic construct | Crystal structure of Csm1-Csm4 cassette in complex with cA4 | X-ray diffraction | 2.4 | 2019-07-31 | |||
| 24 | 6O6V|1|C | Cyclic RNA cA4 | synthetic construct | Crystal structure of Csm6 in complex with cA4 by soaking cA4 into Csm6 | X-ray diffraction | 2.35 | 2019-07-31 | |||
| 25 | 7YGL|1|C | RNA (5'-R(*AP*AP*AP*(A23))-3') | synthetic construct | Crystal Structure of the ring nuclease Sso2081 from Saccharolobus solfataricus in complex with A4>p cleavage intermediate | X-ray diffraction | 2.5 | 2023-02-15 | |||
| 26 | 6O6V|1|D | Cyclic RNA cA4 | synthetic construct | Crystal structure of Csm6 in complex with cA4 by soaking cA4 into Csm6 | X-ray diffraction | 2.35 | 2019-07-31 | |||
| 27 | 6O7B|1|D | Cyclic RNA cA4 | synthetic construct | Crystal structure of Csm1-Csm4 cassette in complex with cA4 | X-ray diffraction | 2.4 | 2019-07-31 | |||
| 28 | 7Z55|1|CCC | Cyclic RNA cA4 | synthetic construct | Crystal Structure of the Ring Nuclease 0455 from Sulfolobus islandicus (Sis0455) in complex with its substrate | X-ray diffraction | 1.664 | 2022-11-23 |
Release history
| Release | 3.270 | 3.271 | 3.272 | 3.273 | 3.274 | 3.275 | 3.276 | 3.277 | 3.278 | 3.279 | 3.280 | 3.281 | 3.282 | 3.283 | 3.284 | 3.285 | 3.286 | 3.287 | 3.288 | 3.289 | 3.290 | 3.291 | 3.292 | 3.293 | 3.294 | 3.295 | 3.296 | 3.297 | 3.298 | 3.299 | 3.300 | 3.301 | 3.302 | 3.303 | 3.304 | 3.305 | 3.306 | 3.307 | 3.308 | 3.309 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2023-02-15 | 2023-02-22 | 2023-03-01 | 2023-03-08 | 2023-03-15 | 2023-03-22 | 2023-03-29 | 2023-04-05 | 2023-04-12 | 2023-04-19 | 2023-04-26 | 2023-05-03 | 2023-05-10 | 2023-05-17 | 2023-05-24 | 2023-05-31 | 2023-06-07 | 2023-06-14 | 2023-06-21 | 2023-06-28 | 2023-07-05 | 2023-07-12 | 2023-07-19 | 2023-07-26 | 2023-08-02 | 2023-08-09 | 2023-08-16 | 2023-08-23 | 2023-08-30 | 2023-09-06 | 2023-09-13 | 2023-09-20 | 2023-09-27 | 2023-10-04 | 2023-10-11 | 2023-10-18 | 2023-10-25 | 2023-11-01 | 2023-11-08 | 2023-11-15 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_2.5_64918.15 | NR_2.5_64918.14 | 3.270 | (27) 8BAO|1|C, 8B0R|1|D, 7Z55|1|CCC, 7SOS|1|B, 7DID|1|C, 7BDV|1|H, 7BDV|1|F, 6YUD|1|Q, 6YUD|1|P, 6YUD|1|O, 6YUD|1|M, 6YUD|1|K, 6XL1|1|C, 6WXQ|1|E, 6W11|1|C, 6SCF|1|M, 6SCF|1|L, 6SCF|1|K, 6SCF|1|I, 6SCE|1|B, 6O7B|1|D, 6O7B|1|C, 6O6X|1|D, 6O6X|1|C, 6O6V|1|D, 6O6V|1|C, 4BA2|1|R | (1) 7YGL|1|C | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_2.5_64918.15 | NR_2.5_64918.16 | 3.310 | (28) 7Z55|1|CCC, 6SCF|1|K, 6W11|1|C, 6YUD|1|K, 6YUD|1|P, 6O6V|1|D, 7DID|1|C, 6O7B|1|D, 7BDV|1|H, 6O7B|1|C, 7YGL|1|C, 6SCF|1|I, 8BAO|1|C, 6SCF|1|M, 6XL1|1|C, 6YUD|1|O, 6O6V|1|C, 7BDV|1|F, 6O6X|1|D, 6SCE|1|B, 7SOS|1|B, 8B0R|1|D, 6SCF|1|L, 6WXQ|1|E, 6YUD|1|M, 4BA2|1|R, 6YUD|1|Q, 6O6X|1|C | (0) | (5) 8Q41|1|X, 8Q42|1|X, 8Q43|1|X, 8Q44|1|X, 8Q40|1|X |
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 | 7YGL|1|C | Crystal Structure of the ring nuclease Sso2081 from Saccharolobus solfataricus in complex with A4>p cleavage intermediate | X-RAY DIFFRACTION | 2.5 | 3 |
| 2 | 6O6X|1|C | Crystal structure of Csm6 W14A/E337A mutant in complex with cA4 by cocrystallization | X-RAY DIFFRACTION | 2.11 | 4 |
| 3 | 7SOS|1|B | LaM domain of human LARP1 in complex with AAAA RNA | X-RAY DIFFRACTION | 1.25 | 4 |
| 4 | 6O6V|1|D | Crystal structure of Csm6 in complex with cA4 by soaking cA4 into Csm6 | X-RAY DIFFRACTION | 2.35 | 4 |
| 5 | 6SCF|1|L | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-RAY DIFFRACTION | 1.55 | 4 |
| 6 | 6SCF|1|K | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-RAY DIFFRACTION | 1.55 | 4 |
| 7 | 6SCF|1|M | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-RAY DIFFRACTION | 1.55 | 4 |
| 8 | 6W11|1|C | The structure of Sulfolobus solfataricus Csa3 in complex with cyclic tetraadenylate (cA4) | X-RAY DIFFRACTION | 2.46 | 4 |
| 9 | 7BDV|1|H | Structure of Can2 from Sulfobacillus thermosulfidooxidans in complex with cyclic tetra-adenylate (cA4) | X-RAY DIFFRACTION | 2.02 | 4 |
| 10 | 6XL1|1|C | crystal structure of cA4-activated Cad1(D294N) | X-RAY DIFFRACTION | 1.95 | 4 |
| 11 | 7Z55|1|CCC | Crystal Structure of the Ring Nuclease 0455 from Sulfolobus islandicus (Sis0455) in complex with its substrate | X-RAY DIFFRACTION | 1.664 | 4 |
| 12 | 6O6X|1|D | Crystal structure of Csm6 W14A/E337A mutant in complex with cA4 by cocrystallization | X-RAY DIFFRACTION | 2.11 | 4 |
| 13 | 6O6V|1|C | Crystal structure of Csm6 in complex with cA4 by soaking cA4 into Csm6 | X-RAY DIFFRACTION | 2.35 | 4 |
| 14 | 6YUD|1|K | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-RAY DIFFRACTION | 1.84 | 4 |
| 15 | 6YUD|1|P | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-RAY DIFFRACTION | 1.84 | 4 |
| 16 | 6YUD|1|O | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-RAY DIFFRACTION | 1.84 | 4 |
| 17 | 6YUD|1|Q | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-RAY DIFFRACTION | 1.84 | 4 |
| 18 | 6YUD|1|M | Structure of Csx3/Crn3 from Archaeoglobus fulgidus in complex with cyclic tetra-adenylate (cA4) | X-RAY DIFFRACTION | 1.84 | 4 |
| 19 | 6O7B|1|D | Crystal structure of Csm1-Csm4 cassette in complex with cA4 | X-RAY DIFFRACTION | 2.4 | 4 |
| 20 | 8B0R|1|D | Structure of the CalpL/cA4 complex | X-RAY DIFFRACTION | 2.2 | 4 |
| 21 | 8BAO|1|C | Dysgonamonadaceae bacterium CRISPR ancillary nuclease 2 | X-RAY DIFFRACTION | 2.06 | 4 |
| 22 | 7BDV|1|F | Structure of Can2 from Sulfobacillus thermosulfidooxidans in complex with cyclic tetra-adenylate (cA4) | X-RAY DIFFRACTION | 2.02 | 4 |
| 23 | 6WXQ|1|E | Crystal structure of CRISPR-associated transcription factor Csa3 complexed with cA4 | X-RAY DIFFRACTION | 2.05 | 4 |
| 24 | 6SCF|1|I | A viral anti-CRISPR subverts type III CRISPR immunity by rapid degradation of cyclic oligoadenylate | X-RAY DIFFRACTION | 1.55 | 4 |
| 25 | 6SCE|1|B | Structure of a Type III CRISPR defence DNA nuclease activated by cyclic oligoadenylate | X-RAY DIFFRACTION | 1.83 | 4 |
| 26 | 7DID|1|C | Mycoplasma genitalium RNase R in complex with ribose methylated single-stranded RNA | X-RAY DIFFRACTION | 1.9 | 3 |
| 27 | 6O7B|1|C | Crystal structure of Csm1-Csm4 cassette in complex with cA4 | X-RAY DIFFRACTION | 2.4 | 4 |
| 28 | 4BA2|1|R | Archaeal exosome (Rrp4-Rrp41(D182A)-Rrp42) bound to inorganic phosphate | X-RAY DIFFRACTION | 2.5 | 4 |