Complex 5ob3
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 | 2.00 |
| System mass | 22.91 kDa |
| Deposition year | 2017 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 5ob3 |
| Reference | Fernandez-Millan Pablo, Autour Alexis, Ennifar Eric, Westhof Eric, Ryckelynck Michael. 2017. Crystal structure and fluorescence properties of the iSpinach aptamer in complex with DFHBI RNA |
| Equivalence Class |
NR_all_57264.3
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 | 1TU |
| Residue | . / 101 |
| Chain | B / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 395.48 Å3 |
| Hydrophobicity | 0.602 |
| Hydrophilicity | 0.857 |
| Buriedness | 0.650 |
| Don/acc character | 1.971 |
| SiteScore | 1.153 |
| D Score | 1.051 |
| Kd | — |
| Compound | SPM |
| Residue | . / 104 |
| Chain | E / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 249.36 Å3 |
| Hydrophobicity | 0.033 |
| Hydrophilicity | 0.987 |
| Buriedness | 0.683 |
| Don/acc character | 3.453 |
| SiteScore | 0.887 |
| D Score | 0.690 |
| Kd | — |