Complex 6gb2
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 | 3.20 |
| System mass | 1993.75 kDa |
| Deposition year | 2018 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Sus |
| RCSB PDB Entry | 6gb2 |
| Reference | Kummer Eva, Leibundgut Marc, Rackham Oliver, Lee Richard G., Boehringer Daniel, Filipovska Aleksandra, Ban Nenad. 2018. Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM Nature |
| Equivalence Class |
NR_all_24610.5
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 | 5GP |
| Residue | . / 3203 |
| Chain | HJ / BA |
| Non-redundant | True |
| Interacting RNA chains | Q/BA |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | Q/BA: rRNA |
| RNA family global | rRNA |
| Volume | 325.51 Å3 |
| Hydrophobicity | 0.221 |
| Hydrophilicity | 0.973 |
| Buriedness | 0.640 |
| Don/acc character | 1.888 |
| SiteScore | 1.026 |
| D Score | 0.881 |
| Kd | — |
| Compound | 5GP |
| Residue | . / 3204 |
| Chain | IJ / BA |
| Non-redundant | True |
| Interacting RNA chains | Q/BA |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | Q/BA: rRNA |
| RNA family global | rRNA |
| Volume | 231.87 Å3 |
| Hydrophobicity | 0.242 |
| Hydrophilicity | 1.460 |
| Buriedness | 0.577 |
| Don/acc character | 0.640 |
| SiteScore | 1.069 |
| D Score | 0.811 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3205 |
| Chain | JJ / BA |
| Non-redundant | True |
| Interacting RNA chains | Q/BA |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | Q/BA: rRNA |
| RNA family global | rRNA |
| Volume | 665.08 Å3 |
| Hydrophobicity | 0.160 |
| Hydrophilicity | 1.349 |
| Buriedness | 0.792 |
| Don/acc character | 1.738 |
| SiteScore | 1.063 |
| D Score | 0.976 |
| Kd | — |
| Compound | SPM |
| Residue | . / 201 |
| Chain | WJ / BR |
| Non-redundant | True |
| Interacting RNA chains | Q/BA |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | Q/BA: rRNA |
| RNA family global | rRNA |
| Volume | 600.25 Å3 |
| Hydrophobicity | 0.237 |
| Hydrophilicity | 1.098 |
| Buriedness | 0.740 |
| Don/acc character | 1.371 |
| SiteScore | 1.028 |
| D Score | 1.026 |
| Kd | — |