Complex 4v8f
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 | 3.30 |
| System mass | 4713.03 kDa |
| Deposition year | 2011 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Thermus |
| RCSB PDB Entry | 4v8f |
| Reference | Demeshkina Natalia, Jenner Lasse, Westhof Eric, Yusupov Marat, Yusupova Gulnara. 2012. A new understanding of the decoding principle on the ribosome Nature |
| Equivalence Class |
NR_all_65795.87,
NR_all_42622.80
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 | PAR |
| Residue | . / 1715 |
| Chain | BFA / BA |
| Non-redundant | True |
| Interacting RNA chains | EA/BA |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | EA/BA: rRNA |
| RNA family global | rRNA |
| Volume | 255.88 Å3 |
| Hydrophobicity | 0.133 |
| Hydrophilicity | 1.378 |
| Buriedness | 0.709 |
| Don/acc character | 0.927 |
| SiteScore | 1.059 |
| D Score | 0.790 |
| Kd | — |
| Compound | PAR |
| Residue | . / 1722 |
| Chain | XOA / CA |
| Non-redundant | True |
| Interacting RNA chains | DB/CA |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | DB/CA: rRNA |
| RNA family global | rRNA |
| Volume | 825.94 Å3 |
| Hydrophobicity | 0.043 |
| Hydrophilicity | 0.967 |
| Buriedness | 0.590 |
| Don/acc character | 2.002 |
| SiteScore | 1.092 |
| D Score | 0.979 |
| Kd | — |