Complex 1vq8
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 | 2.20 |
| System mass | 1490.22 kDa |
| Deposition year | 2004 |
| Molecule type | RNA/DNA/Protein |
| # RNA entities | 1 |
| Organism | Haloarcula |
| RCSB PDB Entry | 1vq8 |
| Reference | Schmeing T. Martin, Huang Kevin S., Kitchen David E., Strobel Scott A., Steitz Thomas A.. 2005. Structural Insights into the Roles of Water and the 2′ Hydroxyl of the P Site tRNA in the Peptidyl Transferase Reaction Molecular Cell |
| Equivalence Class |
NR_all_26150.5
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 | SPS |
| Residue | . / 9701 |
| Chain | OK / 4 |
| Non-redundant | True |
| Interacting RNA chains | C/4, A/0 |
| RNA environment detailled | DNA, protein, ion |
| RNA environment global | RNA/DNA/Protein |
| RNA family chains | A/0: rRNA, C/4: rRNA |
| RNA family global | rRNA |
| Volume | 517.59 Å3 |
| Hydrophobicity | 0.665 |
| Hydrophilicity | 1.155 |
| Buriedness | 0.814 |
| Don/acc character | 1.392 |
| SiteScore | 1.228 |
| D Score | 1.052 |
| Kd | — |