Equivalence class NR_4.0_04288.5 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6N6E|1|D (rep) | RNA (5'-R(P*GP*A)-3') | synthetic construct | Vibrio cholerae Oligoribonuclease bound to pGA | X-ray diffraction | 1.58 | 2 | 2019-06-12 | |||
| 2 | 4G7O|1|I | 5'-R(*GP*A)-3' | Crystal structure of Thermus thermophilus transcription initiation complex containing 2 nt of RNA | X-ray diffraction | 2.99 | 2 | 2012-10-31 | ||||
| 3 | 4G7O|1|S | 5'-R(*GP*A)-3' | Crystal structure of Thermus thermophilus transcription initiation complex containing 2 nt of RNA | X-ray diffraction | 2.99 | 2 | 2012-10-31 | ||||
| 4 | 6L74|1|I | RNA (5'-D(*(GTP))-R(P*A)-3') | synthetic construct | Thermus thermophilus initial transcription complex comprising sigma A and 5'-triphosphate RNA of 2 nt | X-ray diffraction | 3.12 | 2 | 2020-03-11 | |||
| 5 | 5X22|1|S | RNA (5'-R(*GP*A)-3') | Thermus thermophilus | Crystal structure of Thermus thermophilus transcription initiation complex with GpA and CMPcPP | X-ray diffraction | 3.35 | 2 | 2017-07-05 | |||
| 6 | 5X22|1|I | RNA (5'-R(*GP*A)-3') | Thermus thermophilus | Crystal structure of Thermus thermophilus transcription initiation complex with GpA and CMPcPP | X-ray diffraction | 3.35 | 2 | 2017-07-05 | |||
| 7 | 5X21|1|I | RNA (5'-R(*GP*A)-3') | Thermus thermophilus | Crystal structure of Thermus thermophilus transcription initiation complex with GpA and pseudouridimycin (PUM) | X-ray diffraction | 3.32 | 2 | 2017-07-05 | |||
| 8 | 3UD3|1|A | RNA (5'-R(P*GP*A)-3') | The C92U mutant c-di-GMP-I riboswitch bound to pGpA | X-ray diffraction | 3.1 | 2 | 2012-01-04 | ||||
| 9 | 5UH6|1|I | RNA (5'-R(*GP*A)-3') | Mycobacterium tuberculosis | Crystal structure of Mycobacterium tuberculosis transcription initiation complex containing 2ntRNA in complex with Rifampin | X-ray diffraction | 3.84 | 2 | 2017-04-12 | |||
| 10 | 3UD4|1|B | RNA (5'-R(*GP*A)-3') | The C92U mutant c-di-GMP-I riboswitch bound to GpA | X-ray diffraction | 2.7 | 2 | 2012-01-04 | ||||
| 11 | 8I88|1|L | RNA (5'-R(P*GP*A)-3') | Maribacter polysiphoniae | Cryo-EM structure of TIR-APAZ/Ago-gRNA complex | Electron microscopy | 3.7 | 2 | 2023-07-05 |
Release history
| Release | 3.378 | 3.379 | 3.380 | 3.381 | 3.382 | 3.383 | 3.384 | 3.385 | 3.386 | 3.387 | 3.388 | 3.389 | 3.390 | 3.391 | 3.392 | 3.393 | 3.394 | 3.395 | 3.396 | 3.397 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2025-03-13 | 2025-03-19 | 2025-03-26 | 2025-04-02 | 2025-04-09 | 2025-04-16 | 2025-04-23 | 2025-04-30 | 2025-05-07 | 2025-05-14 | 2025-05-21 | 2025-05-28 | 2025-06-04 | 2025-06-11 | 2025-06-18 | 2025-06-25 | 2025-07-02 | 2025-07-09 | 2025-07-16 | 2025-07-23 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
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Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
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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 | 3UD4|1|B | The C92U mutant c-di-GMP-I riboswitch bound to GpA | X-RAY DIFFRACTION | 2.7 | 2 | |
| 2 | 3UD3|1|A | The C92U mutant c-di-GMP-I riboswitch bound to pGpA | X-RAY DIFFRACTION | 3.1 | 2 | |
| 3 | 4G7O|1|I | Crystal structure of Thermus thermophilus transcription initiation complex containing 2 nt of RNA | X-RAY DIFFRACTION | 2.99 | 2 | |
| 4 | 4G7O|1|S | Crystal structure of Thermus thermophilus transcription initiation complex containing 2 nt of RNA | X-RAY DIFFRACTION | 2.99 | 2 | |
| 5 | 5UH6|1|I | Crystal structure of Mycobacterium tuberculosis transcription initiation complex containing 2ntRNA in complex with Rifampin | X-RAY DIFFRACTION | 3.84 | 2 | |
| 6 | 5X22|1|S | Crystal structure of Thermus thermophilus transcription initiation complex with GpA and CMPcPP | X-RAY DIFFRACTION | 3.35 | 2 | |
| 7 | 6N6E|1|D | Vibrio cholerae Oligoribonuclease bound to pGA | X-RAY DIFFRACTION | 1.58 | 2 | |
| 8 | 5X22|1|I | Crystal structure of Thermus thermophilus transcription initiation complex with GpA and CMPcPP | X-RAY DIFFRACTION | 3.35 | 2 | |
| 9 | 8I88|1|L | Cryo-EM structure of TIR-APAZ/Ago-gRNA complex | ELECTRON MICROSCOPY | 3.7 | 2 | |
| 10 | 6L74|1|I | Thermus thermophilus initial transcription complex comprising sigma A and 5'-triphosphate RNA of 2 nt | X-RAY DIFFRACTION | 3.12 | 2 | |
| 11 | 5X21|1|I | Crystal structure of Thermus thermophilus transcription initiation complex with GpA and pseudouridimycin (PUM) | X-RAY DIFFRACTION | 3.32 | 2 |
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: