Equivalence class NR_4.0_42241.3 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | 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 | 2022-05-25 |
| 2 | 2GDI|1|X | TPP riboswitch (THI element) | TPP riboswitch | RF00059 | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-ray diffraction | 2.05 | 2006-07-04 | ||
| 3 | 2GDI|1|Y | TPP riboswitch (THI element) | TPP riboswitch | RF00059 | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-ray diffraction | 2.05 | 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 | 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 | 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 | 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 | 2014-06-04 |
| 8 | 2HOJ|1|A | TPP riboswitch (THI element) | thi-box riboswitch | RF00059 | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ions | X-ray diffraction | 2.5 | 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 | 2022-02-16 |
| 10 | 2HOM|1|A | TPP riboswitch (THI element) | thi-box riboswitch | RF00059 | Crystal structure of an E. coli thi-box riboswitch bound to thiamine monophosphate | X-ray diffraction | 2.89 | 2006-09-19 | ||
| 11 | 2HOL|1|A | TPP riboswitch (THI element) | thi-box riboswitch | RF00059 | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions | X-ray diffraction | 2.9 | 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 | 2022-05-25 |
| 13 | 4NYC|1|A | TPP riboswitch (THI element) | thiM TPP riboswitch | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with thieno[2,3-b]pyrazin-7-amine | X-ray diffraction | 3.15 | 2014-06-04 |
| 14 | 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 | 2014-06-04 |
| 15 | 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 | 2014-06-04 |
| 16 | 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 | 2022-05-25 |
| 17 | 4NYB|1|A | TPP riboswitch (THI element) | thiM TPP riboswitch | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with (4-(1,2,3-thiadiazol-4-yl)phenyl)methanamine | X-ray diffraction | 3.1 | 2014-06-04 |
| 18 | 2HOO|1|A | TPP riboswitch (THI element) | thi-box riboswitch | RF00059 | Crystal structure of an E. coli thi-box riboswitch bound to benfotiamine | X-ray diffraction | 3 | 2006-09-19 | ||
| 19 | 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 | 2022-05-25 |
| 20 | 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 | 2022-05-25 |
| 21 | 2HOK|1|A | TPP riboswitch (THI element) | thi-box riboswitch | RF00059 | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, calcium ions | X-ray diffraction | 3.2 | 2006-09-19 | ||
| 22 | 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 | 2022-02-16 |
| 23 | 4NYG|1|A | TPP riboswitch (THI element) | thiM TPP riboswitch | Escherichia coli | Bacteria | RF00059 | Crystal structure of the E. coli thiM riboswitch in complex with thiamine | X-ray diffraction | 3.05 | 2014-06-04 |
| 24 | 2HOP|1|A | TPP riboswitch (THI element) | thi-box riboswitch | RF00059 | Crystal structure of an E. coli thi-box riboswitch bound to pyrithiamine | X-ray diffraction | 3.3 | 2006-09-19 |
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 |
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| 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 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_42241.3 | NR_4.0_42241.2 | 3.232 | (18) 4NYC|1|A, 2GDI|1|Y, 7TDC|1|A, 2HOO|1|A, 2GDI|1|X, 7TDB|1|A, 2HOM|1|A, 4NYB|1|A, 7TDA|1|A, 2HOL|1|A, 4NYA|1|B, 7TD7|1|A, 2HOK|1|A, 4NYA|1|A, 4NYG|1|A, 2HOJ|1|A, 2HOP|1|A, 4NYD|1|A | (6) 7TZT|1|A, 7TZR|1|X, 7TZS|1|X, 7TZS|1|Y, 7TZU|1|A, 7TZR|1|Y | (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 | 4NYG|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine | X-RAY DIFFRACTION | 3.05 | 78 |
| 2 | 2HOP|1|A | Crystal structure of an E. coli thi-box riboswitch bound to pyrithiamine | X-RAY DIFFRACTION | 3.3 | 76 |
| 3 | 2HOO|1|A | Crystal structure of an E. coli thi-box riboswitch bound to benfotiamine | X-RAY DIFFRACTION | 3 | 83 |
| 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 | 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 |
| 6 | 7TD7|1|A | Crystal structure of an E. coli thiM riboswitch bound to thiamine, manganese ions | X-RAY DIFFRACTION | 2.95 | 78 |
| 7 | 4NYC|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thieno[2,3-b]pyrazin-7-amine | X-RAY DIFFRACTION | 3.15 | 79 |
| 8 | 4NYB|1|A | Crystal structure of the E. coli thiM riboswitch in complex with (4-(1,2,3-thiadiazol-4-yl)phenyl)methanamine | X-RAY DIFFRACTION | 3.1 | 79 |
| 9 | 4NYD|1|A | Crystal structure of the E. coli thiM riboswitch in complex with hypoxanthine | X-RAY DIFFRACTION | 2.9 | 79 |
| 10 | 7TDA|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine pyrophosphate, manganese ions | X-RAY DIFFRACTION | 2.25 | 79 |
| 11 | 7TDB|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, manganese ions | X-RAY DIFFRACTION | 2.56 | 79 |
| 12 | 7TDC|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, calcium ions | X-RAY DIFFRACTION | 2.46 | 79 |
| 13 | 2HOJ|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ions | X-RAY DIFFRACTION | 2.5 | 78 |
| 14 | 2HOL|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions | X-RAY DIFFRACTION | 2.9 | 79 |
| 15 | 2HOK|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, calcium ions | X-RAY DIFFRACTION | 3.2 | 78 |
| 16 | 2HOM|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine monophosphate | X-RAY DIFFRACTION | 2.89 | 80 |
| 17 | 2GDI|1|X | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-RAY DIFFRACTION | 2.05 | 78 |
| 18 | 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 | 78 |
| 19 | 7TZS|1|X | Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17) | X-RAY DIFFRACTION | 2.21 | 78 |
| 20 | 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 | 78 |
| 21 | 7TZS|1|Y | Crystal structure of the E. coli thiM riboswitch in complex with quinoxalin-6-ylmethanamine (compound 17) | X-RAY DIFFRACTION | 2.21 | 78 |
| 22 | 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 | 78 |
| 23 | 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 | 78 |
| 24 | 2GDI|1|Y | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-RAY DIFFRACTION | 2.05 | 78 |