Equivalence class NR_20.0_53003.6 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6N6C|1|D (rep) | RNA (5'-R(P*AP*A)-3') | synthetic construct | Vibrio cholerae Oligoribonuclease bound to pAA | X-ray diffraction | 1.62 | 2 | 2019-06-12 | |||
| 2 | 6N6J|1|C | RNA (5'-R(P*AP*A)-3') | synthetic construct | Human REXO2 bound to pAA | X-ray diffraction | 1.32 | 2 | 2019-06-12 | |||
| 3 | 6N6J|1|D | RNA (5'-R(P*AP*A)-3') | synthetic construct | Human REXO2 bound to pAA | X-ray diffraction | 1.32 | 2 | 2019-06-12 | |||
| 4 | 7MPM|1|B | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 5 | 7MPM|1|H | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 6 | 7MPM|1|L | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 7 | 7MPM|1|F | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 8 | 7MPM|1|J | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 9 | 7MPM|1|D | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 10 | 7MPM|1|P | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 11 | 7MPM|1|N | 5'-phosphorylated AA | synthetic construct | Bartonella henselae NrnC bound to pAA | X-ray diffraction | 1.95 | 2 | 2021-09-15 | |||
| 12 | 6P7Q|1|E | RNA (5'-R(P*AP*A)-3') | Escherichia coli | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-ray diffraction | 1.66 | 2 | 2019-12-25 | |||
| 13 | 6P7Q|1|F | RNA (5'-R(P*AP*A)-3') | Escherichia coli | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-ray diffraction | 1.66 | 2 | 2019-12-25 | |||
| 14 | 6P7Q|1|D | RNA (5'-R(P*AP*A)-3') | Escherichia coli | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-ray diffraction | 1.66 | 2 | 2019-12-25 | |||
| 15 | 8JBB|1|D | RNA (5'-R(*AP*(A23))-3') | synthetic construct | Crystal Structure of the Csm6 from Thermus thermophilus HB8 in complex with A2>p | X-ray diffraction | 1.81 | 2 | 2023-12-13 | |||
| 16 | 5XSP|1|C | DNA (5'-R(P*AP*A)-3') | synthetic construct | The catalytic domain of GdpP with 5'-pApA | X-ray diffraction | 2.146 | 2 | 2018-01-31 | |||
| 17 | 5XSP|1|D | DNA (5'-R(P*AP*A)-3') | synthetic construct | The catalytic domain of GdpP with 5'-pApA | X-ray diffraction | 2.146 | 2 | 2018-01-31 | |||
| 18 | 6RCL|1|C | RNA (5'-R(P*AP*A)-3') | synthetic construct | Crystal structure of REXO2-D199A-AA | X-ray diffraction | 1.97 | 2 | 2019-10-09 | |||
| 19 | 8JBB|1|C | RNA (5'-R(*AP*(A23))-3') | synthetic construct | Crystal Structure of the Csm6 from Thermus thermophilus HB8 in complex with A2>p | X-ray diffraction | 1.81 | 2 | 2023-12-13 | |||
| 20 | 5JJU|1|C | RNA (5'-R(P*AP*A)-3') | synthetic construct | Crystal structure of Rv2837c complexed with 5'-pApA and 5'-AMP | X-ray diffraction | 2.31 | 2 | 2016-05-04 | |||
| 21 | 8Y7G|1|E | RNA (5'-R(P*AP*A)-3') | Marinitoga sp. 1155 | Crystal structure of the Marinitoga sp. Csx1-Crn2 H495A mutant in complex with cyclic-tetraadenylate (cA4) | X-ray diffraction | 3.15 | 2 | 2024-07-17 | |||
| 22 | 8Y7G|1|D | RNA (5'-R(P*AP*A)-3') | Marinitoga sp. 1155 | Crystal structure of the Marinitoga sp. Csx1-Crn2 H495A mutant in complex with cyclic-tetraadenylate (cA4) | X-ray diffraction | 3.15 | 2 | 2024-07-17 | |||
| 23 | 3J0L|1|w | mRNA fragment | Oryctolagus cuniculus | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 9.8A cryo-EM map: classic PRE state 1 | Electron microscopy | 9.8 | 2 | 2011-11-16 | |||
| 24 | 3J0O|1|w | mRNA fragment | Oryctolagus cuniculus | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 9A cryo-EM map: classic PRE state 2 | Electron microscopy | 9 | 2 | 2011-11-16 | |||
| 25 | 3J0Q|1|w | mRNA fragment | Oryctolagus cuniculus | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 10.6A cryo-em map: rotated PRE state 2 | Electron microscopy | 10.6 | 2 | 2011-11-16 | |||
| 26 | 4EJT|1|G | 5'-R(*AP*A)-3' | Staphylococcus epidermidis TcaR in complex with RNA | X-ray diffraction | 3 | 2 | 2013-06-05 | ||||
| 27 | 3J0P|1|w | mRNA fragment | Oryctolagus cuniculus | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 10.6A cryo-em map: rotated PRE state 1 | Electron microscopy | 10.6 | 2 | 2011-11-16 |
Release history
| Release | 4.0 |
|---|---|
| Date | 2025-08-13 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
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 | 4EJT|1|G | Staphylococcus epidermidis TcaR in complex with RNA | X-RAY DIFFRACTION | 3 | 2 | |
| 2 | 3J0P|1|w | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 10.6A cryo-em map: rotated PRE state 1 | ELECTRON MICROSCOPY | 10.6 | 2 | |
| 3 | 3J0Q|1|w | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 10.6A cryo-em map: rotated PRE state 2 | ELECTRON MICROSCOPY | 10.6 | 2 | |
| 4 | 3J0O|1|w | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 9A cryo-EM map: classic PRE state 2 | ELECTRON MICROSCOPY | 9 | 2 | |
| 5 | 3J0L|1|w | Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 9.8A cryo-EM map: classic PRE state 1 | ELECTRON MICROSCOPY | 9.8 | 2 | |
| 6 | 8Y7G|1|D | Crystal structure of the Marinitoga sp. Csx1-Crn2 H495A mutant in complex with cyclic-tetraadenylate (cA4) | X-RAY DIFFRACTION | 3.15 | 2 | |
| 7 | 7MPM|1|L | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 8 | 7MPM|1|B | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 9 | 7MPM|1|F | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 10 | 6N6J|1|D | Human REXO2 bound to pAA | X-RAY DIFFRACTION | 1.32 | 2 | |
| 11 | 6N6J|1|C | Human REXO2 bound to pAA | X-RAY DIFFRACTION | 1.32 | 2 | |
| 12 | 7MPM|1|H | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 13 | 6N6C|1|D | Vibrio cholerae Oligoribonuclease bound to pAA | X-RAY DIFFRACTION | 1.62 | 2 | |
| 14 | 5XSP|1|D | The catalytic domain of GdpP with 5'-pApA | X-RAY DIFFRACTION | 2.146 | 2 | |
| 15 | 8JBB|1|C | Crystal Structure of the Csm6 from Thermus thermophilus HB8 in complex with A2>p | X-RAY DIFFRACTION | 1.81 | 2 | |
| 16 | 5XSP|1|C | The catalytic domain of GdpP with 5'-pApA | X-RAY DIFFRACTION | 2.146 | 2 | |
| 17 | 5JJU|1|C | Crystal structure of Rv2837c complexed with 5'-pApA and 5'-AMP | X-RAY DIFFRACTION | 2.31 | 2 | |
| 18 | 6RCL|1|C | Crystal structure of REXO2-D199A-AA | X-RAY DIFFRACTION | 1.97 | 2 | |
| 19 | 8JBB|1|D | Crystal Structure of the Csm6 from Thermus thermophilus HB8 in complex with A2>p | X-RAY DIFFRACTION | 1.81 | 2 | |
| 20 | 8Y7G|1|E | Crystal structure of the Marinitoga sp. Csx1-Crn2 H495A mutant in complex with cyclic-tetraadenylate (cA4) | X-RAY DIFFRACTION | 3.15 | 2 | |
| 21 | 6P7Q|1|E | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-RAY DIFFRACTION | 1.66 | 2 | |
| 22 | 7MPM|1|D | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 23 | 7MPM|1|N | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 24 | 7MPM|1|P | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 25 | 6P7Q|1|F | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-RAY DIFFRACTION | 1.66 | 2 | |
| 26 | 7MPM|1|J | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 27 | 6P7Q|1|D | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-RAY DIFFRACTION | 1.66 | 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.
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