Complex 4y4o
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 | 2.30 |
| System mass | 4426.44 kDa |
| Deposition year | 2015 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Thermus |
| RCSB PDB Entry | 4y4o |
| Reference | Polikanov Yury S, Melnikov Sergey V, Söll Dieter, Steitz Thomas A. 2015. Structural insights into the role of rRNA modifications in protein synthesis and ribosome assembly Nature Structural & Molecular Biology |
| Equivalence Class |
NR_all_42622.80,
NR_all_97519.80
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 | ARG |
| Residue | . / 230 |
| Chain | PTA / 1B |
| Non-redundant | True |
| Interacting RNA chains | B/1B |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | B/1B: rRNA |
| RNA family global | rRNA |
| Volume | 192.08 Å3 |
| Hydrophobicity | 0.018 |
| Hydrophilicity | 2.048 |
| Buriedness | 0.608 |
| Don/acc character | 0.740 |
| SiteScore | 1.052 |
| D Score | 0.589 |
| Kd | — |
| Compound | ARG |
| Residue | . / 311 |
| Chain | VUA / 1F |
| Non-redundant | True |
| Interacting RNA chains | A/1A |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | A/1A: rRNA |
| RNA family global | rRNA |
| Volume | 490.49 Å3 |
| Hydrophobicity | 0.037 |
| Hydrophilicity | 2.439 |
| Buriedness | 0.733 |
| Don/acc character | 0.348 |
| SiteScore | 1.023 |
| D Score | 0.585 |
| Kd | — |