Complex 5we4
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 | 3.10 |
| System mass | 2300.95 kDa |
| Deposition year | 2017 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Escherichia |
| RCSB PDB Entry | 5we4 |
| Reference | Fislage Marcus, Zhang Jingji, Brown Zuben Patrick, Mandava Chandra Sekhar, Sanyal Suparna, Ehrenberg Måns, Frank Joachim. 2018. Cryo-EM shows stages of initial codon selection on the ribosome by aa-tRNA in ternary complex with GTP and the GTPase-deficient EF-TuH84A Nucleic Acids Research |
| Equivalence Class |
NR_all_35542.167,
NR_all_83717.187,
NR_all_19951.102
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 | FME |
| Residue | . / 101 |
| Chain | BLB / v |
| Non-redundant | False |
| Interacting RNA chains | A/A, CB/v |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: rRNA, CB/v: tRNA |
| RNA family global | multiple |
| Volume | 628.03 Å3 |
| Hydrophobicity | 0.204 |
| Hydrophilicity | 1.392 |
| Buriedness | 0.756 |
| Don/acc character | 1.164 |
| SiteScore | 1.189 |
| D Score | 0.940 |
| Kd | — |
| Compound | GNP |
| Residue | . / 402 |
| Chain | PLB / z |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 580.36 Å3 |
| Hydrophobicity | 0.089 |
| Hydrophilicity | 2.137 |
| Buriedness | 0.785 |
| Don/acc character | 0.501 |
| SiteScore | 1.058 |
| D Score | 0.715 |
| Kd | — |
| Compound | PHE |
| Residue | . / 401 |
| Chain | OLB / z |
| Non-redundant | True |
| Interacting RNA chains | FB/y |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | FB/y: tRNA |
| RNA family global | tRNA |
| Volume | 427.72 Å3 |
| Hydrophobicity | 0.472 |
| Hydrophilicity | 1.401 |
| Buriedness | 0.893 |
| Don/acc character | 0.822 |
| SiteScore | 1.131 |
| D Score | 1.019 |
| Kd | — |