Complex 8fc4
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 | 2.45 |
| System mass | 4426.45 kDa |
| Deposition year | 2022 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Thermus |
| RCSB PDB Entry | 8fc4 |
| Reference | Chen Chih-Wei, Leimer Nadja, Syroegin Egor A., Dunand Clémence, Bulman Zackery P., Lewis Kim, Polikanov Yury S., Svetlov Maxim S.. 2023. Structural insights into the mechanism of overcoming Erm-mediated resistance by macrolides acting together with hygromycin-A Nature Communications |
| Equivalence Class |
NR_all_97519.80,
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 | ARG |
| Residue | . / 230 |
| Chain | TRA / 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 | 123.14 Å3 |
| Hydrophobicity | 0.034 |
| Hydrophilicity | 2.003 |
| Buriedness | 0.605 |
| Don/acc character | 0.929 |
| SiteScore | 0.913 |
| D Score | 0.426 |
| Kd | — |
| Compound | ARG |
| Residue | . / 318 |
| Chain | KTA / 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 | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Kd | — |
| Compound | ERY |
| Residue | . / 4027 |
| Chain | OQA / 1A |
| Non-redundant | True |
| Interacting RNA chains | A/1A |
| RNA environment detailled | protein, ion, other |
| RNA environment global | RNA/Other |
| RNA family chains | A/1A: rRNA |
| RNA family global | rRNA |
| Volume | 403.37 Å3 |
| Hydrophobicity | 0.253 |
| Hydrophilicity | 1.322 |
| Buriedness | 0.736 |
| Don/acc character | 0.667 |
| SiteScore | 1.025 |
| D Score | 0.951 |
| Kd | — |
| Compound | HGR |
| Residue | . / 4026 |
| Chain | NQA / 1A |
| Non-redundant | True |
| Interacting RNA chains | A/1A |
| RNA environment detailled | ion, other |
| RNA environment global | RNA/Other |
| RNA family chains | A/1A: rRNA |
| RNA family global | rRNA |
| Volume | 772.09 Å3 |
| Hydrophobicity | 0.495 |
| Hydrophilicity | 1.455 |
| Buriedness | 0.735 |
| Don/acc character | 0.565 |
| SiteScore | 1.175 |
| D Score | 0.907 |
| Kd | — |
| Compound | HGR |
| Residue | . / 3671 |
| Chain | QIC / 2A |
| Non-redundant | True |
| Interacting RNA chains | BB/2A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | BB/2A: rRNA |
| RNA family global | rRNA |
| Volume | 490.83 Å3 |
| Hydrophobicity | 0.900 |
| Hydrophilicity | 0.900 |
| Buriedness | 0.787 |
| Don/acc character | 1.222 |
| SiteScore | 1.236 |
| D Score | 1.119 |
| Kd | — |