Complex 7yci
Legend
Pocket colors by molecule type
RNA
Protein
DNA
These colors appear when a pocket is selected (the structure fades to show the pocket surface). Colors from the molecule-type palette (RNA / protein / DNA).
System information
| Experimental technique | Electron Microscopy |
| Experimental resolution | 2.98 |
| System mass | 129.40 kDa |
| Deposition year | 2022 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | Tetrahymena |
| RCSB PDB Entry | 7yci |
| Reference | Zhang Xiaojing, Li Shanshan, Pintilie Grigore, Palo Michael Z, Zhang Kaiming. 2023. Snapshots of the first-step self-splicing ofTetrahymenaribozyme revealed by cryo-EM Nucleic Acids Research |
| Equivalence Class |
NR_all_69141.8
BGSU version: 4.52 |
Pockets List
Legend
Cell colors for SiteScore and D Score:
Favourable
Intermediate
Unfavourable
Not available
| Score | Threshold | Meaning |
|---|---|---|
| SiteScore | < 0.8 | Non-drug binding site |
| SiteScore | 0.8 – 1.0 | Potential drug binding site |
| SiteScore | > 1.0 | Promising binding site |
| D Score | < 0.83 | Undruggable |
| D Score | 0.83 – 0.98 | Difficult |
| D Score | > 0.98 | Druggable |
Tick a pocket below to highlight it in the 3D structure above.
| Compound | GTP |
| Residue | . / 501 |
| Chain | C / N |
| Non-redundant | True |
| Interacting RNA chains | B/N |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | B/N: ribozyme |
| RNA family global | ribozyme |
| Volume | 227.41 Å3 |
| Hydrophobicity | 0.016 |
| Hydrophilicity | 1.423 |
| Buriedness | 0.703 |
| Don/acc character | 3.412 |
| SiteScore | 1.020 |
| D Score | 0.728 |
| Kd | — |