Equivalence class NR_4.0_20965.3 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 7Z4D|1|A (rep) | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | Crystal structure of SpCas9 bound to a 10 nucleotide complementary DNA substrate | X-ray diffraction | 3.1 | 75 | 2022-08-31 |
| 2 | 7Z4D|1|F | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | Crystal structure of SpCas9 bound to a 10 nucleotide complementary DNA substrate | X-ray diffraction | 3.1 | 77 | 2022-08-31 |
| 3 | 7Z4L|1|A | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | SpCas9 bound to 18-nucleotide complementary DNA substrate in the checkpoint state | Electron microscopy | 2.54 | 96 | 2022-08-31 |
| 4 | 7S4X|1|B | Trans-activating crRNA | gRNA | synthetic construct | Synthetic | RF02348 | Cas9:gRNA in complex with 18-20MM DNA, 1 minute time-point, kinked active conformation | Electron microscopy | 2.76 | 98 | 2022-03-02 |
| 5 | 7Z4J|1|A | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | SpCas9 bound to 18-nucleotide complementary DNA substrate in the catalytic state | Electron microscopy | 2.99 | 98 | 2022-08-31 |
| 6 | 8U3Y|1|B | Trans-activating crRNA | RNA (98-MER) | synthetic construct | Synthetic | RF02348 | SpG Cas9 with NGG PAM DNA target | Electron microscopy | 3.1 | 98 | 2024-05-01 |
| 7 | 6O0X|1|B | Trans-activating crRNA | single guide RNA | synthetic construct | Synthetic | RF02348 | Conformational states of Cas9-sgRNA-DNA ternary complex in the presence of magnesium | Electron microscopy | 3.28 | 98 | 2019-07-10 |
| 8 | 7Z4I|1|A | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | SpCas9 bound to 16-nucleotide complementary DNA substrate | Electron microscopy | 3.12 | 96 | 2022-08-31 |
| 9 | 7S4V|1|B | Trans-activating crRNA | gRNA | synthetic construct | Synthetic | RF02348 | Cas9 bound to 12-14MM DNA, 60 min time-point, kinked conformation | Electron microscopy | 3.28 | 98 | 2022-03-02 |
| 10 | 9CGU|1|B | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | Cas9 ternary complex, 14-nt sgRNA, State II (kinked) | Electron microscopy | 3 | 92 | 2024-12-04 |
| 11 | 6O0Y|1|B | Trans-activating crRNA | single guide RNA | synthetic construct | Synthetic | RF02348 | Conformational states of Cas9-sgRNA-DNA ternary complex in the presence of magnesium | Electron microscopy | 3.37 | 98 | 2019-07-10 |
| 12 | 9C9P|1|B | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | Cas9 ternary complex, 14-nt sgRNA, State I (linear) | Electron microscopy | 3.1 | 92 | 2024-12-04 |
| 13 | 6O0Z|1|B | Trans-activating crRNA | single guide RNA | synthetic construct | Synthetic | RF02348 | Conformational states of Cas9-sgRNA-DNA ternary complex in the presence of magnesium | Electron microscopy | 3.3 | 96 | 2019-07-10 |
| 14 | 8TZZ|1|B | Trans-activating crRNA | RNA (98-MER) | synthetic construct | Synthetic | RF02348 | SpG Cas9 with NGC PAM DNA target | Electron microscopy | 3.56 | 98 | 2024-05-01 |
| 15 | 7S4U|1|B | Trans-activating crRNA | gRNA | synthetic construct | Synthetic | RF02348 | Cryo-EM structure of Cas9 in complex with 12-14MM DNA substrate, 5 minute time-point | Electron microscopy | 3.56 | 97 | 2022-03-02 |
| 16 | 7Z4H|1|A | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | SpCas9 bound to 14-nucleotide complementary DNA substrate | Electron microscopy | 3.49 | 92 | 2022-08-31 |
| 17 | 7Z4G|1|A | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | SpCas9 bound to 12-nucleotide complementary DNA substrate | Electron microscopy | 3.64 | 91 | 2022-08-31 |
| 18 | 7Z4C|1|A | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | SpCas9 bound to 6 nucleotide complementary DNA substrate | Electron microscopy | 3.87 | 90 | 2022-08-31 |
| 19 | 7Z4K|1|A | Trans-activating crRNA | sgRNA | synthetic construct | Synthetic | RF02348 | SpCas9 bound to 10-nucleotide complementary DNA substrate | Electron microscopy | 3.81 | 88 | 2022-08-31 |
Release history
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 |
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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 | 7Z4D|1|F | Crystal structure of SpCas9 bound to a 10 nucleotide complementary DNA substrate | X-RAY DIFFRACTION | 3.1 | 77 | |
| 2 | 7Z4D|1|A | Crystal structure of SpCas9 bound to a 10 nucleotide complementary DNA substrate | X-RAY DIFFRACTION | 3.1 | 75 | |
| 3 | 7Z4L|1|A | SpCas9 bound to 18-nucleotide complementary DNA substrate in the checkpoint state | ELECTRON MICROSCOPY | 2.54 | 96 | |
| 4 | 7Z4I|1|A | SpCas9 bound to 16-nucleotide complementary DNA substrate | ELECTRON MICROSCOPY | 3.12 | 96 | |
| 5 | 7Z4G|1|A | SpCas9 bound to 12-nucleotide complementary DNA substrate | ELECTRON MICROSCOPY | 3.64 | 91 | |
| 6 | 7Z4H|1|A | SpCas9 bound to 14-nucleotide complementary DNA substrate | ELECTRON MICROSCOPY | 3.49 | 92 | |
| 7 | 7Z4K|1|A | SpCas9 bound to 10-nucleotide complementary DNA substrate | ELECTRON MICROSCOPY | 3.81 | 88 | |
| 8 | 7Z4C|1|A | SpCas9 bound to 6 nucleotide complementary DNA substrate | ELECTRON MICROSCOPY | 3.87 | 90 | |
| 9 | 7S4X|1|B | Cas9:gRNA in complex with 18-20MM DNA, 1 minute time-point, kinked active conformation | ELECTRON MICROSCOPY | 2.76 | 98 | |
| 10 | 7Z4J|1|A | SpCas9 bound to 18-nucleotide complementary DNA substrate in the catalytic state | ELECTRON MICROSCOPY | 2.99 | 98 | |
| 11 | 8U3Y|1|B | SpG Cas9 with NGG PAM DNA target | ELECTRON MICROSCOPY | 3.1 | 98 | |
| 12 | 8TZZ|1|B | SpG Cas9 with NGC PAM DNA target | ELECTRON MICROSCOPY | 3.56 | 98 | |
| 13 | 6O0Y|1|B | Conformational states of Cas9-sgRNA-DNA ternary complex in the presence of magnesium | ELECTRON MICROSCOPY | 3.37 | 98 | |
| 14 | 6O0X|1|B | Conformational states of Cas9-sgRNA-DNA ternary complex in the presence of magnesium | ELECTRON MICROSCOPY | 3.28 | 98 | |
| 15 | 6O0Z|1|B | Conformational states of Cas9-sgRNA-DNA ternary complex in the presence of magnesium | ELECTRON MICROSCOPY | 3.3 | 96 | |
| 16 | 9C9P|1|B | Cas9 ternary complex, 14-nt sgRNA, State I (linear) | ELECTRON MICROSCOPY | 3.1 | 92 | |
| 17 | 7S4V|1|B | Cas9 bound to 12-14MM DNA, 60 min time-point, kinked conformation | ELECTRON MICROSCOPY | 3.28 | 98 | |
| 18 | 9CGU|1|B | Cas9 ternary complex, 14-nt sgRNA, State II (kinked) | ELECTRON MICROSCOPY | 3 | 92 | |
| 19 | 7S4U|1|B | Cryo-EM structure of Cas9 in complex with 12-14MM DNA substrate, 5 minute time-point | ELECTRON MICROSCOPY | 3.56 | 97 |
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: