Equivalence class NR_all_26629.3 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 3HK2|1|F (rep) | 5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-ray diffraction | 2.8 | 2009-10-06 | ||||
| 2 | 3HK2|1|D | 5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-ray diffraction | 2.8 | 2009-10-06 | ||||
| 3 | 5UX0|1|B | RNA (5'-R(*G*GP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*AP*U)-3') | synthetic construct | X-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNA | X-ray diffraction | 3.2 | 2017-05-03 | |||
| 4 | 5UX0|1|E | RNA (5'-R(*G*GP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*AP*U)-3') | synthetic construct | X-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNA | X-ray diffraction | 3.2 | 2017-05-03 | |||
| 5 | 3HVR|1|D | 5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage site | X-ray diffraction | 3.21 | 2009-10-06 | ||||
| 6 | 3HM9|1|Y | 5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand | X-ray diffraction | 3.3 | 2009-10-06 | ||||
| 7 | 3HVR|1|N | 5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage site | X-ray diffraction | 3.21 | 2009-10-06 | ||||
| 8 | 3F73|1|Y | RNA (5'-R(*UP*AP*UP*AP*CP*AP*A*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3') | Alignment of guide-target seed duplex within an argonaute silencing complex | X-ray diffraction | 3 | 2008-12-16 | ||||
| 9 | 3HXM|1|Y | RNA (5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3') | Structure of an argonaute complexed with guide DNA and target RNA duplex containing two mismatches. | X-ray diffraction | 3.1 | 2009-10-06 | ||||
| 10 | 3F73|1|H | RNA (5'-R(*UP*AP*UP*AP*CP*AP*A*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3') | Alignment of guide-target seed duplex within an argonaute silencing complex | X-ray diffraction | 3 | 2008-12-16 | ||||
| 11 | 8DGA|1|F+ 8DGA|1|E | RNA (22-MER) | Drosophila melanogaster | Structural Basis of MicroRNA Biogenesis by Dicer-1 and Its Partner Protein Loqs-PB - complex IV | Electron microscopy | 3.73 | 2022-11-16 | |||
| 12 | 7V6C|1|F+ 7V6C|1|E | RNA (5'-R(P*CP*CP*UP*CP*UP*CP*U)-3'), RNA (5'-R(P*UP*GP*AP*GP*G)-3') | Drosophila melanogaster | Structure of the Dicer-2-R2D2 heterodimer bound to small RNA duplex | Electron microscopy | 3.3 | 2022-03-23 |
Release history
| Release | 3.257 | 3.258 | 3.259 | 3.260 | 3.261 | 3.262 | 3.263 | 3.264 | 3.265 | 3.266 | 3.267 | 3.268 | 3.269 | 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 | 3.310 | 3.311 | 3.312 | 3.313 | 3.314 | 3.315 | 3.316 | 3.317 | 3.318 | 3.319 | 3.320 | 3.321 | 3.322 | 3.323 | 3.324 | 3.325 | 3.326 | 3.327 | 3.328 | 3.329 | 3.330 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2022-11-16 | 2022-11-23 | 2022-11-30 | 2022-12-07 | 2022-12-14 | 2022-12-21 | 2022-12-28 | 2023-01-04 | 2023-01-11 | 2023-01-18 | 2023-01-25 | 2023-02-01 | 2023-02-08 | 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 | 2023-11-24 | 2023-11-29 | 2023-12-06 | 2023-12-13 | 2023-12-20 | 2023-12-27 | 2024-01-03 | 2024-01-10 | 2024-01-17 | 2024-01-24 | 2024-01-31 | 2024-02-07 | 2024-02-14 | 2024-02-21 | 2024-02-28 | 2024-03-06 | 2024-03-13 | 2024-03-20 | 2024-03-27 | 2024-04-03 | 2024-04-10 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_all_26629.3 | NR_all_26629.2 | 3.257 | (11) 7V6C|1|F+7V6C|1|E, 5UX0|1|E, 5UX0|1|B, 3HXM|1|Y, 3HVR|1|N, 3HVR|1|D, 3HM9|1|Y, 3HK2|1|F, 3HK2|1|D, 3F73|1|Y, 3F73|1|H | (1) 8DGA|1|F+8DGA|1|E | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
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 | 3F73|1|H | Alignment of guide-target seed duplex within an argonaute silencing complex | X-RAY DIFFRACTION | 3 | 12 |
| 2 | 3F73|1|Y | Alignment of guide-target seed duplex within an argonaute silencing complex | X-RAY DIFFRACTION | 3 | 11 |
| 3 | 3HXM|1|Y | Structure of an argonaute complexed with guide DNA and target RNA duplex containing two mismatches. | X-RAY DIFFRACTION | 3.1 | 9 |
| 4 | 3HVR|1|D | Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage site | X-RAY DIFFRACTION | 3.21 | 12 |
| 5 | 3HVR|1|N | Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand with two Mg2+ at the cleavage site | X-RAY DIFFRACTION | 3.21 | 10 |
| 6 | 3HK2|1|D | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-RAY DIFFRACTION | 2.8 | 15 |
| 7 | 3HK2|1|F | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-RAY DIFFRACTION | 2.8 | 15 |
| 8 | 3HM9|1|Y | Crystal structure of T. thermophilus Argonaute complexed with DNA guide strand and 19-nt RNA target strand | X-RAY DIFFRACTION | 3.3 | 13 |
| 9 | 8DGA|1|F+8DGA|1|E | Structural Basis of MicroRNA Biogenesis by Dicer-1 and Its Partner Protein Loqs-PB - complex IV | ELECTRON MICROSCOPY | 3.73 | 22 |
| 10 | 7V6C|1|F+7V6C|1|E | Structure of the Dicer-2-R2D2 heterodimer bound to small RNA duplex | ELECTRON MICROSCOPY | 3.3 | 7 |
| 11 | 5UX0|1|E | X-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNA | X-RAY DIFFRACTION | 3.2 | 18 |
| 12 | 5UX0|1|B | X-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA and target DNA | X-RAY DIFFRACTION | 3.2 | 20 |