Complex 9dpl
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 | Electron Microscopy |
| Experimental resolution | 2.80 |
| System mass | 170.37 kDa |
| Deposition year | 2024 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Homo |
| RCSB PDB Entry | 9dpl |
| Reference | Devarkar Swapnil C, Budding Christina R, Pathirage Chathuri, Kavoor Arundhati, Herbert Cassandra, Limbach Patrick A, Musier-Forsyth Karin, Xiong Yong. 2025. Structural basis for aminoacylation of cellular modified tRNALys3 by human lysyl-tRNA synthetase Nucleic Acids Research |
| Equivalence Class |
NR_all_77079.2
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 | . / 602 |
| Chain | G / A |
| Non-redundant | True |
| Interacting RNA chains | C/C |
| RNA environment detailled | protein, other |
| RNA environment global | RNA/Other |
| RNA family chains | C/C: tRNA |
| RNA family global | tRNA |
| Volume | - |
| Hydrophobicity | - |
| Hydrophilicity | - |
| Buriedness | - |
| Don/acc character | - |
| SiteScore | - |
| D Score | - |
| Kd | — |