Complex 2ppb
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 | X-ray |
| Experimental resolution | 3.00 |
| System mass | 791.75 kDa |
| Deposition year | 2007 |
| Molecule type | RNA/DNA/Protein |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 2ppb |
| Reference | Vassylyev Dmitry G., Vassylyeva Marina N., Zhang Jinwei, Palangat Murali, Artsimovitch Irina, Landick Robert. 2007. Structural basis for substrate loading in bacterial RNA polymerase Nature |
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 | APC |
| Residue | . / 5999 |
| Chain | V / D |
| Non-redundant | True |
| Interacting RNA chains | B/H |
| RNA environment detailled | DNA, protein, ion |
| RNA environment global | RNA/DNA/Protein |
| RNA family chains | B/H: unknown |
| RNA family global | unknown |
| Volume | 334.08 Å3 |
| Hydrophobicity | 0.495 |
| Hydrophilicity | 1.038 |
| Buriedness | 0.803 |
| Don/acc character | 1.152 |
| SiteScore | 0.712 |
| D Score | 0.623 |
| Kd | — |
| Compound | APC |
| Residue | . / 6999 |
| Chain | W / M |
| Non-redundant | True |
| Interacting RNA chains | E/Y |
| RNA environment detailled | DNA, protein, ion |
| RNA environment global | RNA/DNA/Protein |
| RNA family chains | E/Y: unknown |
| RNA family global | unknown |
| Volume | 196.20 Å3 |
| Hydrophobicity | 0.176 |
| Hydrophilicity | 1.388 |
| Buriedness | 0.834 |
| Don/acc character | 0.618 |
| SiteScore | 0.785 |
| D Score | 0.596 |
| Kd | — |