Complex 2bee
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 | 2.60 |
| System mass | 15.53 kDa |
| Deposition year | 2005 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | Streptomyces |
| RCSB PDB Entry | 2bee |
| Reference | François Boris, Szychowski Janek, Adhikari Susanta Sekhar, Pachamuthu Kandasamy, Swayze Eric E., Griffey Richard H., Migawa Michael T., Westhof Eric, Hanessian Stephen. 2004. Antibacterial Aminoglycosides with a Modified Mode of Binding to the Ribosomal‐RNA Decoding Site Angewandte Chemie International Edition |
| Equivalence Class |
NR_all_71199.7
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 | JS4 |
| Residue | . / 50 |
| Chain | C / A |
| Non-redundant | True |
| Interacting RNA chains | B/B, A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: rRNA, B/B: rRNA |
| RNA family global | rRNA |
| Volume | 370.78 Å3 |
| Hydrophobicity | 0.074 |
| Hydrophilicity | 0.967 |
| Buriedness | 0.619 |
| Don/acc character | 1.839 |
| SiteScore | 1.066 |
| D Score | 0.938 |
| Kd | 0.10uM |
| Compound | JS4 |
| Residue | . / 51 |
| Chain | D / B |
| Non-redundant | True |
| Interacting RNA chains | B/B, A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: rRNA, B/B: rRNA |
| RNA family global | rRNA |
| Volume | 319.33 Å3 |
| Hydrophobicity | 0.100 |
| Hydrophilicity | 0.898 |
| Buriedness | 0.599 |
| Don/acc character | 2.655 |
| SiteScore | 1.030 |
| D Score | 0.902 |
| Kd | 0.10uM |