Complex 6gaw
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 | 3207.14 kDa |
| Deposition year | 2018 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Sus |
| RCSB PDB Entry | 6gaw |
| 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,
NR_all_19551.9
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 | OK / 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 | 325.16 Å3 |
| Hydrophobicity | 0.196 |
| Hydrophilicity | 1.009 |
| Buriedness | 0.645 |
| Don/acc character | 1.707 |
| SiteScore | 1.102 |
| D Score | 0.974 |
| Kd | — |
| Compound | 5GP |
| Residue | . / 3204 |
| Chain | PK / 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 | 237.01 Å3 |
| Hydrophobicity | 0.238 |
| Hydrophilicity | 1.441 |
| Buriedness | 0.577 |
| Don/acc character | 0.547 |
| SiteScore | 1.069 |
| D Score | 0.817 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3205 |
| Chain | QK / 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 | 671.94 Å3 |
| Hydrophobicity | 0.176 |
| Hydrophilicity | 1.386 |
| Buriedness | 0.814 |
| Don/acc character | 1.552 |
| SiteScore | 1.078 |
| D Score | 0.977 |
| Kd | — |
| Compound | SPM |
| Residue | . / 201 |
| Chain | DL / 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 | 608.83 Å3 |
| Hydrophobicity | 0.198 |
| Hydrophilicity | 1.113 |
| Buriedness | 0.739 |
| Don/acc character | 1.288 |
| SiteScore | 1.027 |
| D Score | 1.021 |
| Kd | — |
| Compound | SPM |
| Residue | . / 3001 |
| Chain | JL / AA |
| Non-redundant | True |
| Interacting RNA chains | JB/AA |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | JB/AA: rRNA |
| RNA family global | rRNA |
| Volume | 807.08 Å3 |
| Hydrophobicity | 0.175 |
| Hydrophilicity | 1.164 |
| Buriedness | 0.786 |
| Don/acc character | 2.584 |
| SiteScore | 1.209 |
| D Score | 1.032 |
| Kd | — |