Complex 9sv6
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 | 1.96 |
| System mass | 571.61 kDa |
| Deposition year | 2025 |
| Molecule type | RNA/DNA/Protein |
| # RNA entities | 1 |
| Organism | Saccharomyces |
| RCSB PDB Entry | 9sv6 |
| Reference | Li Qingrong, Yi Gangshun, Wu Yue, Xu Sophy, Chong Jenny, Huang Xuhui, Zhang Peijun, Wang Dong. 2026. Sub-2 Å cryo-EM structures of transcribing RNA polymerase II reveal critical roles of water molecules in catalysis Molecular Cell |
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 | ATP |
| Residue | . / 1801 |
| Chain | Q / A |
| Non-redundant | True |
| Interacting RNA chains | N/R |
| RNA environment detailled | DNA, protein, ion |
| RNA environment global | RNA/DNA/Protein |
| RNA family chains | N/R: unknown |
| RNA family global | unknown |
| Volume | 590.30 Å3 |
| Hydrophobicity | 0.391 |
| Hydrophilicity | 1.478 |
| Buriedness | 0.856 |
| Don/acc character | 1.147 |
| SiteScore | 1.106 |
| D Score | 0.972 |
| Kd | — |