Equivalence class NR_4.0_42241.2 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2GDI|1|X (rep) | 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 | ||
| 2 | 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 | ||
| 3 | 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 |
| 4 | 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 |
| 5 | 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 |
| 6 | 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 | ||
| 7 | 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 |
| 8 | 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 | ||
| 9 | 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 | ||
| 10 | 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 |
| 11 | 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 |
| 12 | 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 |
| 13 | 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 |
| 14 | 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 | ||
| 15 | 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 | ||
| 16 | 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 |
| 17 | 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 |
| 18 | 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
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_42241.2 | NR_4.0_42241.1 | 3.218 | (14) 4NYB|1|A, 2HOJ|1|A, 4NYA|1|B, 2GDI|1|Y, 4NYA|1|A, 2GDI|1|X, 2HOP|1|A, 2HOO|1|A, 2HOM|1|A, 4NYG|1|A, 4NYD|1|A, 2HOL|1|A, 4NYC|1|A, 2HOK|1|A | (4) 7TD7|1|A, 7TDC|1|A, 7TDB|1|A, 7TDA|1|A | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_42241.2 | NR_4.0_42241.3 | 3.232 | (18) 2GDI|1|X, 7TDB|1|A, 2HOK|1|A, 2HOO|1|A, 4NYA|1|A, 4NYC|1|A, 7TD7|1|A, 2HOM|1|A, 4NYG|1|A, 2HOJ|1|A, 4NYB|1|A, 7TDA|1|A, 2HOP|1|A, 2HOL|1|A, 4NYD|1|A, 2GDI|1|Y, 7TDC|1|A, 4NYA|1|B | (0) | (6) 7TZT|1|A, 7TZS|1|X, 7TZR|1|X, 7TZS|1|Y, 7TZR|1|Y, 7TZU|1|A |
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 | 7TD7|1|A | Crystal structure of an E. coli thiM riboswitch bound to thiamine, manganese ions | X-RAY DIFFRACTION | 2.95 | 78 |
| 5 | 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 |
| 6 | 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 |
| 7 | 4NYD|1|A | Crystal structure of the E. coli thiM riboswitch in complex with hypoxanthine | X-RAY DIFFRACTION | 2.9 | 79 |
| 8 | 7TDA|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine pyrophosphate, manganese ions | X-RAY DIFFRACTION | 2.25 | 79 |
| 9 | 7TDB|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, manganese ions | X-RAY DIFFRACTION | 2.56 | 79 |
| 10 | 7TDC|1|A | Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, calcium ions | X-RAY DIFFRACTION | 2.46 | 79 |
| 11 | 2HOJ|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ions | X-RAY DIFFRACTION | 2.5 | 78 |
| 12 | 2HOL|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions | X-RAY DIFFRACTION | 2.9 | 79 |
| 13 | 2HOK|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, calcium ions | X-RAY DIFFRACTION | 3.2 | 78 |
| 14 | 2HOM|1|A | Crystal structure of an E. coli thi-box riboswitch bound to thiamine monophosphate | X-RAY DIFFRACTION | 2.89 | 80 |
| 15 | 2GDI|1|X | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-RAY DIFFRACTION | 2.05 | 78 |
| 16 | 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 |
| 17 | 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 |
| 18 | 2GDI|1|Y | Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate | X-RAY DIFFRACTION | 2.05 | 78 |