Complex 6ymw
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 | 3.71 |
| System mass | 206.06 kDa |
| Deposition year | 2020 |
| Molecule type | RNA/DNA/Protein |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 6ymw |
| Reference | De Wijngaert Brent, Sultana Shemaila, Singh Anupam, Dharia Chhaya, Vanbuel Hans, Shen Jiayu, Vasilchuk Daniel, Martinez Sergio E., Kandiah Eaazhisai, Patel Smita S., Das Kalyan. 2021. Cryo-EM Structures Reveal Transcription Initiation Steps by Yeast Mitochondrial RNA Polymerase Molecular Cell |
| Equivalence Class |
NR_all_98428.8
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 | P5E |
| Residue | . / 1401 |
| Chain | F / A |
| Non-redundant | True |
| Interacting RNA chains | E/C |
| RNA environment detailled | DNA, protein, ion |
| RNA environment global | RNA/DNA/Protein |
| RNA family chains | E/C: synthetic construct |
| RNA family global | synthetic construct |
| Volume | 765.92 Å3 |
| Hydrophobicity | 0.169 |
| Hydrophilicity | 1.775 |
| Buriedness | 0.855 |
| Don/acc character | 0.699 |
| SiteScore | 1.105 |
| D Score | 0.874 |
| Kd | — |