Complex 7oaw
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 | 2.95 |
| System mass | 72.16 kDa |
| Deposition year | 2021 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 7oaw |
| Reference | Mieczkowski Mateusz, Steinmetzger Christian, Bessi Irene, Lenz Ann-Kathrin, Schmiedel Alexander, Holzapfel Marco, Lambert Christoph, Pena Vladimir, Höbartner Claudia. 2021. Large Stokes shift fluorescence activation in an RNA aptamer by intermolecular proton transfer to guanine Nature Communications |
| Equivalence Class |
NR_all_84656.3
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 | GTP |
| Residue | . / 101 |
| Chain | K / B |
| Non-redundant | True |
| Interacting RNA chains | B/B |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | B/B: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 42.88 Å3 |
| Hydrophobicity | 0.011 |
| Hydrophilicity | 0.647 |
| Buriedness | 0.402 |
| Don/acc character | 4.997 |
| SiteScore | 0.776 |
| D Score | 0.647 |
| Kd | — |
| Compound | GTP |
| Residue | . / 102 |
| Chain | Q / C |
| Non-redundant | False |
| Interacting RNA chains | C/C |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | C/C: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Kd | — |
| Compound | SPM |
| Residue | . / 101 |
| Chain | P / C |
| Non-redundant | False |
| Interacting RNA chains | C/C, A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: aptamer_rna, C/C: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 720.99 Å3 |
| Hydrophobicity | 0.448 |
| Hydrophilicity | 1.072 |
| Buriedness | 0.710 |
| Don/acc character | 2.551 |
| SiteScore | 1.158 |
| D Score | 1.017 |
| Kd | — |
| Compound | V6T |
| Residue | . / 104 |
| Chain | H / A |
| Non-redundant | True |
| Interacting RNA chains | C/C, A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: aptamer_rna, C/C: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 507.98 Å3 |
| Hydrophobicity | 0.735 |
| Hydrophilicity | 0.980 |
| Buriedness | 0.748 |
| Don/acc character | 1.411 |
| SiteScore | 1.195 |
| D Score | 1.069 |
| Kd | — |
| Compound | V6T |
| Residue | . / 104 |
| Chain | N / B |
| Non-redundant | False |
| Interacting RNA chains | D/D, B/B |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | B/B: aptamer_rna, D/D: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 547.09 Å3 |
| Hydrophobicity | 0.822 |
| Hydrophilicity | 0.987 |
| Buriedness | 0.766 |
| Don/acc character | 1.347 |
| SiteScore | 1.206 |
| D Score | 1.078 |
| Kd | — |
| Compound | V6T |
| Residue | . / 105 |
| Chain | T / C |
| Non-redundant | True |
| Interacting RNA chains | C/C, A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: aptamer_rna, C/C: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 498.72 Å3 |
| Hydrophobicity | 0.995 |
| Hydrophilicity | 0.877 |
| Buriedness | 0.755 |
| Don/acc character | 1.310 |
| SiteScore | 1.220 |
| D Score | 1.107 |
| Kd | — |
| Compound | V6T |
| Residue | . / 104 |
| Chain | Y / D |
| Non-redundant | False |
| Interacting RNA chains | D/D, B/B |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | B/B: aptamer_rna, D/D: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 262.74 Å3 |
| Hydrophobicity | 1.001 |
| Hydrophilicity | 0.854 |
| Buriedness | 0.755 |
| Don/acc character | 1.819 |
| SiteScore | 1.159 |
| D Score | 1.031 |
| Kd | — |