Equivalence class NR_2.5_52978.2 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 | 9MMW|1|Q | RNA (5'-R(*AP*(A23))-3') | Thermoanaerobaculum aquaticum | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | Electron microscopy | 2.36 | 2 | 2025-11-12 | |||
| 22 | 9MMW|1|D | RNA (5'-R(*AP*(A23))-3') | Thermoanaerobaculum aquaticum | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | Electron microscopy | 2.36 | 2 | 2025-11-12 | |||
| 23 | 9MMW|1|C | RNA (5'-R(*AP*(A23))-3') | Thermoanaerobaculum aquaticum | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | Electron microscopy | 2.36 | 2 | 2025-11-12 | |||
| 24 | 9MMW|1|T | RNA (5'-R(*AP*(A23))-3') | Thermoanaerobaculum aquaticum | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | Electron microscopy | 2.36 | 2 | 2025-11-12 | |||
| 25 | 9MMW|1|I | RNA (5'-R(*AP*(A23))-3') | Thermoanaerobaculum aquaticum | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | Electron microscopy | 2.36 | 2 | 2025-11-12 | |||
| 26 | 9MMW|1|J | RNA (5'-R(*AP*(A23))-3') | Thermoanaerobaculum aquaticum | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | Electron microscopy | 2.36 | 2 | 2025-11-12 |
Release history
| Release | 4.13 |
|---|---|
| Date | 2025-11-12 |
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 | 5JJU|1|C | Crystal structure of Rv2837c complexed with 5'-pApA and 5'-AMP | X-RAY DIFFRACTION | 2.31 | 2 | |
| 2 | 8JBB|1|D | Crystal Structure of the Csm6 from Thermus thermophilus HB8 in complex with A2>p | X-RAY DIFFRACTION | 1.81 | 2 | |
| 3 | 7MPM|1|L | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 4 | 7MPM|1|F | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 5 | 9MMW|1|Q | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | ELECTRON MICROSCOPY | 2.36 | 2 | |
| 6 | 7MPM|1|H | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 7 | 5XSP|1|D | The catalytic domain of GdpP with 5'-pApA | X-RAY DIFFRACTION | 2.146 | 2 | |
| 8 | 5XSP|1|C | The catalytic domain of GdpP with 5'-pApA | X-RAY DIFFRACTION | 2.146 | 2 | |
| 9 | 9MMW|1|J | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | ELECTRON MICROSCOPY | 2.36 | 2 | |
| 10 | 7MPM|1|B | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 11 | 9MMW|1|C | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | ELECTRON MICROSCOPY | 2.36 | 2 | |
| 12 | 9MMW|1|D | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | ELECTRON MICROSCOPY | 2.36 | 2 | |
| 13 | 6N6J|1|D | Human REXO2 bound to pAA | X-RAY DIFFRACTION | 1.32 | 2 | |
| 14 | 9MMW|1|I | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | ELECTRON MICROSCOPY | 2.36 | 2 | |
| 15 | 6RCL|1|C | Crystal structure of REXO2-D199A-AA | X-RAY DIFFRACTION | 1.97 | 2 | |
| 16 | 6P7Q|1|D | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-RAY DIFFRACTION | 1.66 | 2 | |
| 17 | 6P7Q|1|F | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-RAY DIFFRACTION | 1.66 | 2 | |
| 18 | 7MPM|1|D | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 19 | 7MPM|1|P | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 20 | 8JBB|1|C | Crystal Structure of the Csm6 from Thermus thermophilus HB8 in complex with A2>p | X-RAY DIFFRACTION | 1.81 | 2 | |
| 21 | 7MPM|1|N | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 22 | 6P7Q|1|E | Structure of E. coli MS115-1 NucC, 5'-pApA bound form | X-RAY DIFFRACTION | 1.66 | 2 | |
| 23 | 9MMW|1|T | CRISPR-associated deaminase Cad1 in cA4 bound in hexamer form refined against the consensus map | ELECTRON MICROSCOPY | 2.36 | 2 | |
| 24 | 7MPM|1|J | Bartonella henselae NrnC bound to pAA | X-RAY DIFFRACTION | 1.95 | 2 | |
| 25 | 6N6C|1|D | Vibrio cholerae Oligoribonuclease bound to pAA | X-RAY DIFFRACTION | 1.62 | 2 | |
| 26 | 6N6J|1|C | Human REXO2 bound to pAA | X-RAY DIFFRACTION | 1.32 | 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.
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