Equivalence class NR_3.0_42241.3 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7TZS|1|X (rep) | TPP riboswitch (THI element) | RNA (80-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17) | X-ray diffraction | 2.21 | 80 | 2022-05-25 |
| 2 | 2GDI|1|X | TPP riboswitch | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-ray diffraction | 2.05 | 80 | 2006-07-04 | ||||
| 3 | 2GDI|1|Y | TPP riboswitch | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-ray diffraction | 2.05 | 80 | 2006-07-04 | ||||
| 4 | 7TZS|1|Y | TPP riboswitch (THI element) | RNA (80-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17) | X-ray diffraction | 2.21 | 80 | 2022-05-25 |
| 5 | 7TDA|1|A | TPP riboswitch (THI element) | thiM TPP riboswitch RNA (80-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with thiamine pyrophosphate, manganese ions | X-ray diffraction | 2.25 | 80 | 2022-02-16 |
| 6 | 7TDB|1|A | TPP riboswitch (THI element) | thiM riboswitch RNA (83-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, manganese ions | X-ray diffraction | 2.56 | 80 | 2022-02-16 |
| 7 | 4NYA|1|A | TPP riboswitch (THI element) | thiM TPP riboswitch | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amine | X-ray diffraction | 2.65 | 80 | 2014-06-04 |
| 8 | 2HOJ|1|A | thi-box riboswitch | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ions | X-ray diffraction | 2.5 | 79 | 2006-09-19 | ||||
| 9 | 7TDC|1|A | TPP riboswitch (THI element) | thiM riboswitch RNA (83-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, calcium ions | X-ray diffraction | 2.46 | 80 | 2022-02-16 |
| 10 | 2HOM|1|A | thi-box riboswitch | Crystal structure of an E. coli thi-box riboswitch bound to thiamine monophosphate | X-ray diffraction | 2.89 | 80 | 2006-09-19 | ||||
| 11 | 2HOL|1|A | thi-box riboswitch | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions | X-ray diffraction | 2.9 | 79 | 2006-09-19 | ||||
| 12 | 7TZR|1|X | TPP riboswitch (THI element) | RNA (80-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16) | X-ray diffraction | 2.7 | 80 | 2022-05-25 |
| 13 | 4NYD|1|A | TPP riboswitch (THI element) | thiM TPP riboswitch | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with hypoxanthine | X-ray diffraction | 2.9 | 80 | 2014-06-04 |
| 14 | 4NYA|1|B | TPP riboswitch (THI element) | thiM TPP riboswitch | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amine | X-ray diffraction | 2.65 | 80 | 2014-06-04 |
| 15 | 7TZR|1|Y | TPP riboswitch (THI element) | RNA (80-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16) | X-ray diffraction | 2.7 | 80 | 2022-05-25 |
| 16 | 2HOO|1|A | thi-box riboswitch | Crystal structure of an E. coli thi-box riboswitch bound to benfotiamine | X-ray diffraction | 3 | 83 | 2006-09-19 | ||||
| 17 | 7TZT|1|A | TPP riboswitch (THI element) | RNA (79-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with N1,N1-dimethyl-N2-(quinoxalin-6-ylmethyl)ethane-1,2-diamine (linked compound 37) | X-ray diffraction | 2.96 | 79 | 2022-05-25 |
| 18 | 7TZU|1|A | TPP riboswitch (THI element) | RNA (79-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch bound to 1-(4-(piperazin-1-yl)pyridin-3-yl)-N-(quinoxalin-6-ylmethyl)methanamine (linked compound 38) | X-ray diffraction | 2.87 | 79 | 2022-05-25 |
| 19 | 7TD7|1|A | TPP riboswitch (THI element) | thiM riboswitch RNA (78-MER) | Escherichia coli | Bacteria | RF00059 | Crystal structure of an E. coli thiM riboswitch bound to thiamine, manganese ions | X-ray diffraction | 2.95 | 78 | 2022-02-16 |
Release history
| Release | 3.232 | 3.233 | 3.234 | 3.235 | 3.236 | 3.237 | 3.238 | 3.239 | 3.240 | 3.241 | 3.242 | 3.243 | 3.244 | 3.245 | 3.246 | 3.247 | 3.248 | 3.249 | 3.250 | 3.251 | 3.252 | 3.253 | 3.254 | 3.255 | 3.256 | 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 | 3.331 | 3.332 | 3.333 | 3.334 | 3.335 | 3.336 | 3.337 | 3.338 | 3.339 | 3.340 | 3.341 | 3.342 | 3.343 | 3.344 | 3.345 | 3.346 | 3.347 | 3.348 | 3.349 | 3.350 | 3.351 | 3.352 | 3.353 | 3.354 | 3.355 | 3.356 | 3.357 | 3.358 | 3.359 | 3.360 | 3.361 | 3.362 | 3.363 | 3.364 | 3.365 | 3.366 | 3.367 | 3.368 | 3.369 | 3.370 | 3.371 | 3.372 | 3.373 | 3.374 | 3.375 | 3.376 | 3.377 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2022-05-25 | 2022-06-01 | 2022-06-08 | 2022-06-15 | 2022-06-22 | 2022-06-29 | 2022-07-06 | 2022-07-13 | 2022-07-20 | 2022-07-27 | 2022-08-03 | 2022-08-10 | 2022-08-17 | 2022-08-24 | 2022-08-31 | 2022-09-07 | 2022-09-14 | 2022-09-21 | 2022-09-28 | 2022-10-05 | 2022-10-12 | 2022-10-19 | 2022-10-26 | 2022-11-02 | 2022-11-09 | 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 | 2024-04-17 | 2024-04-24 | 2024-05-01 | 2024-05-08 | 2024-05-15 | 2024-05-22 | 2024-05-29 | 2024-06-05 | 2024-06-12 | 2024-06-19 | 2024-06-26 | 2024-07-03 | 2024-07-10 | 2024-07-17 | 2024-07-25 | 2024-07-31 | 2024-08-07 | 2024-08-14 | 2024-08-21 | 2024-08-28 | 2024-09-04 | 2024-09-11 | 2024-09-18 | 2024-09-25 | 2024-10-02 | 2024-10-09 | 2024-10-16 | 2024-10-23 | 2024-10-30 | 2024-11-06 | 2024-11-13 | 2024-11-20 | 2024-11-27 | 2024-12-04 | 2024-12-11 | 2024-12-18 | 2024-12-25 | 2025-01-01 | 2025-01-08 | 2025-01-15 | 2025-01-22 | 2025-01-29 | 2025-02-05 | 2025-02-12 | 2025-02-19 | 2025-02-26 | 2025-03-05 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.0_42241.3 | NR_3.0_42241.2 | 3.232 | (13) 2GDI|1|X, 2GDI|1|Y, 2HOJ|1|A, 2HOL|1|A, 2HOM|1|A, 2HOO|1|A, 4NYA|1|A, 4NYA|1|B, 4NYD|1|A, 7TD7|1|A, 7TDA|1|A, 7TDB|1|A, 7TDC|1|A | (6) 7TZR|1|X, 7TZR|1|Y, 7TZS|1|X, 7TZS|1|Y, 7TZT|1|A, 7TZU|1|A | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
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 | 2HOO|1|A | Crystal structure of an E. coli thi-box riboswitch bound to benfotiamine | X-RAY DIFFRACTION | 3 | 83 | |
| 2 | 7TD7|1|A | Crystal structure of an E. coli thiM riboswitch bound to thiamine, manganese ions | X-RAY DIFFRACTION | 2.95 | 78 | |
| 3 | 7TZU|1|A | Crystal structure of the E. coli thiM riboswitch bound to 1-(4-(piperazin-1-yl)pyridin-3-yl)-N-(quinoxalin-6-ylmethyl)methanamine (linked compound 38) | X-RAY DIFFRACTION | 2.87 | 79 | |
| 4 | 7TZT|1|A | Crystal structure of the E. coli thiM riboswitch in complex with N1,N1-dimethyl-N2-(quinoxalin-6-ylmethyl)ethane-1,2-diamine (linked compound 37) | X-RAY DIFFRACTION | 2.96 | 79 | |
| 5 | 4NYD|1|A | Crystal structure of the E. coli thiM riboswitch in complex with hypoxanthine | X-RAY DIFFRACTION | 2.9 | 80 | |
| 6 | 7TDA|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine pyrophosphate, manganese ions | X-RAY DIFFRACTION | 2.25 | 80 | |
| 7 | 7TDB|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, manganese ions | X-RAY DIFFRACTION | 2.56 | 80 | |
| 8 | 7TDC|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, calcium ions | X-RAY DIFFRACTION | 2.46 | 80 | |
| 9 | 2HOJ|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ions | X-RAY DIFFRACTION | 2.5 | 79 | |
| 10 | 2HOL|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions | X-RAY DIFFRACTION | 2.9 | 79 | |
| 11 | 2HOM|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine monophosphate | X-RAY DIFFRACTION | 2.89 | 80 | |
| 12 | 2GDI|1|X | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-RAY DIFFRACTION | 2.05 | 80 | |
| 13 | 7TZR|1|X | Crystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16) | X-RAY DIFFRACTION | 2.7 | 80 | |
| 14 | 7TZS|1|X | Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17) | X-RAY DIFFRACTION | 2.21 | 80 | |
| 15 | 4NYA|1|A | Crystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amine | X-RAY DIFFRACTION | 2.65 | 80 | |
| 16 | 7TZS|1|Y | Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17) | X-RAY DIFFRACTION | 2.21 | 80 | |
| 17 | 7TZR|1|Y | Crystal structure of the E. coli thiM riboswitch bound to N-methyl-1-(quinoxalin-6-yl)methanamine (compound 16) | X-RAY DIFFRACTION | 2.7 | 80 | |
| 18 | 4NYA|1|B | Crystal structure of the E. coli thiM riboswitch in complex with 5-(azidomethyl)-2-methylpyrimidin-4-amine | X-RAY DIFFRACTION | 2.65 | 80 | |
| 19 | 2GDI|1|Y | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-RAY DIFFRACTION | 2.05 | 80 |
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.
Coloring options: