Complex 4e8p
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 | 3.28 |
| System mass | 131.47 kDa |
| Deposition year | 2012 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | Oceanobacillus |
| RCSB PDB Entry | 4e8p |
| 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 | . / 447 |
| Chain | VA / 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 | 71.00 Å3 |
| Hydrophobicity | 0.010 |
| Hydrophilicity | 1.061 |
| Buriedness | 0.560 |
| Don/acc character | 4.385 |
| SiteScore | 0.618 |
| D Score | 0.366 |
| Kd | — |
| Compound | EPE |
| Residue | . / 448 |
| Chain | WA / 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 | 123.14 Å3 |
| Hydrophobicity | 0.049 |
| Hydrophilicity | 0.760 |
| Buriedness | 0.486 |
| Don/acc character | 2.853 |
| SiteScore | 1.062 |
| D Score | 0.984 |
| Kd | — |
| Compound | EPE |
| Residue | . / 449 |
| Chain | XA / 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 | 69.29 Å3 |
| Hydrophobicity | 0.561 |
| Hydrophilicity | 0.775 |
| Buriedness | 0.672 |
| Don/acc character | 1.187 |
| SiteScore | 0.715 |
| D Score | 0.490 |
| Kd | — |
| Compound | EPE |
| Residue | . / 451 |
| Chain | ZA / 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 | 154.69 Å3 |
| Hydrophobicity | 0.025 |
| Hydrophilicity | 0.967 |
| Buriedness | 0.613 |
| Don/acc character | 2.589 |
| SiteScore | 0.741 |
| D Score | 0.523 |
| Kd | — |
| Compound | SPM |
| Residue | . / 446 |
| Chain | UA / 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 | 192.08 Å3 |
| Hydrophobicity | 0.273 |
| Hydrophilicity | 0.794 |
| Buriedness | 0.641 |
| Don/acc character | 1.083 |
| SiteScore | 0.778 |
| D Score | 0.577 |
| Kd | — |