Complex 8sy6
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 | 3.28 |
| System mass | 410.62 kDa |
| Deposition year | 2023 |
| Molecule type | RNA/DNA/Protein |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 8sy6 |
| Reference | Oh Juntaek, Shan Zelin, Hoshika Shuichi, Xu Jun, Chong Jenny, Benner Steven A., Lyumkis Dmitry, Wang Dong. 2023. A unified Watson-Crick geometry drives transcription of six-letter expanded DNA alphabets by E. coli RNA polymerase Nature Communications |
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 | DGP |
| Residue | . / 101 |
| Chain | I / T |
| Non-redundant | True |
| Interacting RNA chains | F/R |
| RNA environment detailled | DNA, protein |
| RNA environment global | RNA/DNA/Protein |
| RNA family chains | F/R: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 427.04 Å3 |
| Hydrophobicity | 0.285 |
| Hydrophilicity | 1.074 |
| Buriedness | 0.659 |
| Don/acc character | 1.250 |
| SiteScore | 0.888 |
| D Score | 0.876 |
| Kd | — |
| Compound | UTP |
| Residue | . / 1504 |
| Chain | M / J |
| Non-redundant | True |
| Interacting RNA chains | F/R |
| RNA environment detailled | DNA, protein, ion |
| RNA environment global | RNA/DNA/Protein |
| RNA family chains | F/R: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 457.91 Å3 |
| Hydrophobicity | 0.488 |
| Hydrophilicity | 1.307 |
| Buriedness | 0.840 |
| Don/acc character | 0.883 |
| SiteScore | 0.911 |
| D Score | 0.782 |
| Kd | — |