Complex 6ck4
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 | 3.10 |
| System mass | 155.11 kDa |
| Deposition year | 2018 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | Thermoanaerobacter |
| RCSB PDB Entry | 6ck4 |
| Reference | Knappenberger Andrew John, Reiss Caroline Wetherington, Strobel Scott A. 2018. Structures of two aptamers with differing ligand specificity reveal ruggedness in the functional landscape of RNA eLife |
| Equivalence Class |
NR_all_40570.3
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 | G4P |
| Residue | . / 214 |
| Chain | R / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: riboswitch |
| RNA family global | riboswitch |
| Volume | 469.91 Å3 |
| Hydrophobicity | 0.383 |
| Hydrophilicity | 1.040 |
| Buriedness | 0.688 |
| Don/acc character | 0.971 |
| SiteScore | 1.110 |
| D Score | 0.970 |
| Kd | 1.8uM |
| Compound | G4P |
| Residue | . / 208 |
| Chain | Z / B |
| Non-redundant | False |
| Interacting RNA chains | B/B |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | B/B: riboswitch |
| RNA family global | riboswitch |
| Volume | 376.61 Å3 |
| Hydrophobicity | 0.282 |
| Hydrophilicity | 1.135 |
| Buriedness | 0.672 |
| Don/acc character | 1.436 |
| SiteScore | 1.132 |
| D Score | 0.973 |
| Kd | 1.8uM |
| Compound | G4P |
| Residue | . / 211 |
| Chain | KA / C |
| Non-redundant | False |
| Interacting RNA chains | C/C |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | C/C: riboswitch |
| RNA family global | riboswitch |
| Volume | 87.81 Å3 |
| Hydrophobicity | 0.301 |
| Hydrophilicity | 0.925 |
| Buriedness | 0.607 |
| Don/acc character | 0.574 |
| SiteScore | 0.870 |
| D Score | 0.693 |
| Kd | 1.8uM |
| Compound | G4P |
| Residue | . / 211 |
| Chain | WA / D |
| Non-redundant | False |
| Interacting RNA chains | D/D |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | D/D: riboswitch |
| RNA family global | riboswitch |
| Volume | 77.18 Å3 |
| Hydrophobicity | 0.383 |
| Hydrophilicity | 0.892 |
| Buriedness | 0.613 |
| Don/acc character | 1.206 |
| SiteScore | 0.822 |
| D Score | 0.633 |
| Kd | 1.8uM |
| Compound | GTP |
| Residue | . / 201 |
| 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: riboswitch |
| RNA family global | riboswitch |
| Volume | 79.23 Å3 |
| Hydrophobicity | 0.032 |
| Hydrophilicity | 0.993 |
| Buriedness | 0.640 |
| Don/acc character | 1.405 |
| SiteScore | 0.595 |
| D Score | 0.326 |
| Kd | — |