Complex 5hkv
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 | 3.66 |
| System mass | 1364.95 kDa |
| Deposition year | 2016 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Staphylococcus |
| RCSB PDB Entry | 5hkv |
| Reference | Matzov Donna, Eyal Zohar, Benhamou Raphael I., Shalev-Benami Moran, Halfon Yehuda, Krupkin Miri, Zimmerman Ella, Rozenberg Haim, Bashan Anat, Fridman Micha, Yonath Ada. 2017. Structural insights of lincosamides targeting the ribosome of Staphylococcus aureus Nucleic Acids Research |
| Equivalence Class |
NR_all_90633.30
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 | 3QB |
| Residue | . / 3001 |
| Chain | BA / X |
| Non-redundant | True |
| Interacting RNA chains | A/X |
| RNA environment detailled | ion, other |
| RNA environment global | RNA/Other |
| RNA family chains | A/X: rRNA |
| RNA family global | rRNA |
| Volume | 649.30 Å3 |
| Hydrophobicity | 0.440 |
| Hydrophilicity | 1.194 |
| Buriedness | 0.812 |
| Don/acc character | 1.186 |
| SiteScore | 1.226 |
| D Score | 1.038 |
| Kd | — |