Complex 7xd9
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 | 2.58 |
| System mass | 530.76 kDa |
| Deposition year | 2022 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 7xd9 |
| Reference | Wu Jiqin, Wang Xinyu, Liu Qiaojie, Lu Guoliang, Gong Peng. 2023. Structural basis of transition from initiation to elongation in de novo viral RNA-dependent RNA polymerases Proceedings of the National Academy of Sciences |
| Equivalence Class |
NR_all_65987.4
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 | CTP |
| Residue | . / 1007 |
| Chain | Y / A |
| Non-redundant | True |
| Interacting RNA chains | B/B, C/C |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | B/B: synthetic construct, C/C: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 615.69 Å3 |
| Hydrophobicity | 0.287 |
| Hydrophilicity | 1.481 |
| Buriedness | 0.825 |
| Don/acc character | 0.503 |
| SiteScore | 1.085 |
| D Score | 0.952 |
| Kd | — |
| Compound | CTP |
| Residue | . / 1009 |
| Chain | HA / D |
| Non-redundant | False |
| Interacting RNA chains | E/E, F/F |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | E/E: synthetic construct, F/F: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 744.31 Å3 |
| Hydrophobicity | 0.452 |
| Hydrophilicity | 1.316 |
| Buriedness | 0.805 |
| Don/acc character | 0.553 |
| SiteScore | 1.072 |
| D Score | 0.994 |
| Kd | — |
| Compound | CTP |
| Residue | . / 1005 |
| Chain | OA / G |
| Non-redundant | False |
| Interacting RNA chains | H/H, I/I |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | H/H: synthetic construct, I/I: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 695.26 Å3 |
| Hydrophobicity | 0.310 |
| Hydrophilicity | 1.443 |
| Buriedness | 0.819 |
| Don/acc character | 0.484 |
| SiteScore | 1.081 |
| D Score | 0.961 |
| Kd | — |
| Compound | CTP |
| Residue | . / 1006 |
| Chain | VA / J |
| Non-redundant | False |
| Interacting RNA chains | K/K, L/L |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | K/K: synthetic construct, L/L: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 605.40 Å3 |
| Hydrophobicity | 0.312 |
| Hydrophilicity | 1.517 |
| Buriedness | 0.838 |
| Don/acc character | 0.483 |
| SiteScore | 1.094 |
| D Score | 0.948 |
| Kd | — |
| Compound | CTP |
| Residue | . / 1006 |
| Chain | CB / M |
| Non-redundant | False |
| Interacting RNA chains | N/N, O/O |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | N/N: synthetic construct, O/O: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 616.71 Å3 |
| Hydrophobicity | 0.371 |
| Hydrophilicity | 1.329 |
| Buriedness | 0.798 |
| Don/acc character | 0.582 |
| SiteScore | 1.067 |
| D Score | 0.985 |
| Kd | — |
| Compound | CTP |
| Residue | . / 1005 |
| Chain | HB / P |
| Non-redundant | False |
| Interacting RNA chains | R/R, Q/Q |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | Q/Q: synthetic construct, R/R: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 586.19 Å3 |
| Hydrophobicity | 0.232 |
| Hydrophilicity | 1.416 |
| Buriedness | 0.825 |
| Don/acc character | 0.614 |
| SiteScore | 1.085 |
| D Score | 0.973 |
| Kd | — |