Complex 9ndd
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 | 2.67 |
| System mass | 206.44 kDa |
| Deposition year | 2025 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 9ndd |
| Equivalence Class |
NR_all_15101.1
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 | OXG |
| Residue | . / 201 |
| Chain | E / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: riboswitch |
| RNA family global | riboswitch |
| Volume | 95.01 Å3 |
| Hydrophobicity | 0.000 |
| Hydrophilicity | 1.705 |
| Buriedness | 0.734 |
| Don/acc character | 0.801 |
| SiteScore | 0.769 |
| D Score | 0.305 |
| Kd | — |
| Compound | OXG |
| Residue | . / 201 |
| Chain | F / B |
| Non-redundant | False |
| Interacting RNA chains | B/B |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | B/B: riboswitch |
| RNA family global | riboswitch |
| Volume | 169.79 Å3 |
| Hydrophobicity | 0.073 |
| Hydrophilicity | 1.129 |
| Buriedness | 0.666 |
| Don/acc character | 1.145 |
| SiteScore | 0.870 |
| D Score | 0.640 |
| Kd | — |
| Compound | OXG |
| Residue | . / 201 |
| Chain | G / C |
| Non-redundant | False |
| Interacting RNA chains | C/C |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | C/C: riboswitch |
| RNA family global | riboswitch |
| Volume | 42.53 Å3 |
| Hydrophobicity | 0.593 |
| Hydrophilicity | 1.392 |
| Buriedness | 0.957 |
| Don/acc character | 1.418 |
| SiteScore | 0.822 |
| D Score | 0.418 |
| Kd | — |
| Compound | OXG |
| Residue | . / 201 |
| Chain | H / D |
| Non-redundant | False |
| Interacting RNA chains | D/D |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | D/D: riboswitch |
| RNA family global | riboswitch |
| Volume | 157.44 Å3 |
| Hydrophobicity | 0.053 |
| Hydrophilicity | 1.154 |
| Buriedness | 0.661 |
| Don/acc character | 1.158 |
| SiteScore | 0.850 |
| D Score | 0.608 |
| Kd | — |