Complex 4rdx
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 | 2.55 |
| System mass | 73.10 kDa |
| Deposition year | 2014 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Thermus |
| RCSB PDB Entry | 4rdx |
| Reference | Tian Qingnan, Wang Caiyan, Liu Yuhuan, Xie Wei. 2015. Structural basis for recognition of G-1-containing tRNA by histidyl-tRNA synthetase Nucleic Acids Research |
| Equivalence Class |
NR_all_42401.1
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 | AMP |
| Residue | . / 501 |
| Chain | C / A |
| Non-redundant | True |
| Interacting RNA chains | B/C |
| RNA environment detailled | protein, other |
| RNA environment global | RNA/Other |
| RNA family chains | B/C: tRNA |
| RNA family global | tRNA |
| Volume | 439.38 Å3 |
| Hydrophobicity | 0.944 |
| Hydrophilicity | 1.177 |
| Buriedness | 0.902 |
| Don/acc character | 0.384 |
| SiteScore | 1.137 |
| D Score | 1.098 |
| Kd | — |