Complex 4e8r
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 | 3.36 |
| System mass | 134.05 kDa |
| Deposition year | 2012 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | Oceanobacillus |
| RCSB PDB Entry | 4e8r |
| Reference | Marcia Marco, Pyle Anna Marie. 2012. Visualizing Group II Intron Catalysis through the Stages of Splicing Cell |
| Equivalence Class |
NR_all_35054.12
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 | EPE |
| Residue | . / 459 |
| Chain | HB / A |
| Non-redundant | False |
| Interacting RNA chains | A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: ribozyme |
| RNA family global | ribozyme |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Kd | — |
| Compound | EPE |
| Residue | . / 460 |
| Chain | IB / A |
| Non-redundant | False |
| Interacting RNA chains | A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: ribozyme |
| RNA family global | ribozyme |
| Volume | 145.78 Å3 |
| Hydrophobicity | 0.050 |
| Hydrophilicity | 0.765 |
| Buriedness | 0.508 |
| Don/acc character | 3.185 |
| SiteScore | 1.076 |
| D Score | 0.995 |
| Kd | — |
| Compound | EPE |
| Residue | . / 461 |
| Chain | JB / A |
| Non-redundant | False |
| Interacting RNA chains | A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: ribozyme |
| RNA family global | ribozyme |
| Volume | 189.68 Å3 |
| Hydrophobicity | 0.056 |
| Hydrophilicity | 0.680 |
| Buriedness | 0.521 |
| Don/acc character | 3.337 |
| SiteScore | 1.101 |
| D Score | 1.031 |
| Kd | — |
| Compound | EPE |
| Residue | . / 462 |
| Chain | KB / A |
| Non-redundant | False |
| Interacting RNA chains | A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: ribozyme |
| RNA family global | ribozyme |
| Volume | 176.30 Å3 |
| Hydrophobicity | 0.081 |
| Hydrophilicity | 1.161 |
| Buriedness | 0.687 |
| Don/acc character | 1.901 |
| SiteScore | 0.811 |
| D Score | 0.549 |
| Kd | — |