Complex 5aa0
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 | 5.00 |
| System mass | 2311.02 kDa |
| Deposition year | 2015 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Thermus |
| RCSB PDB Entry | 5aa0 |
| Reference | Kumar Veerendra, Chen Yun, Ero Rya, Ahmed Tofayel, Tan Jackie, Li Zhe, Wong Andrew See Weng, Bhushan Shashi, Gao Yong-Gui. 2015. Structure of BipA in GTP form bound to the ratcheted ribosome Proceedings of the National Academy of Sciences |
| Equivalence Class |
NR_all_65795.87,
NR_all_97519.80,
NR_all_95556.9
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 | 8AN |
| Residue | . / 3002 |
| Chain | HB / AA |
| Non-redundant | True |
| Interacting RNA chains | A/AA, DB/BD |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/AA: rRNA, DB/BD: tRNA |
| RNA family global | multiple |
| Volume | 781.35 Å3 |
| Hydrophobicity | 0.149 |
| Hydrophilicity | 1.358 |
| Buriedness | 0.743 |
| Don/acc character | 2.136 |
| SiteScore | 1.180 |
| D Score | 0.943 |
| Kd | — |
| Compound | NMY |
| Residue | . / 3001 |
| Chain | GB / AA |
| Non-redundant | True |
| Interacting RNA chains | A/AA |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/AA: rRNA |
| RNA family global | rRNA |
| Volume | 45.62 Å3 |
| Hydrophobicity | 0.347 |
| Hydrophilicity | 0.734 |
| Buriedness | 0.595 |
| Don/acc character | 1.784 |
| SiteScore | 0.661 |
| D Score | 0.443 |
| Kd | — |
| Compound | NMY |
| Residue | . / 1601 |
| Chain | JB / BA |
| Non-redundant | True |
| Interacting RNA chains | HA/BA |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | HA/BA: rRNA |
| RNA family global | rRNA |
| Volume | 278.52 Å3 |
| Hydrophobicity | 0.255 |
| Hydrophilicity | 0.905 |
| Buriedness | 0.677 |
| Don/acc character | 3.636 |
| SiteScore | 1.097 |
| D Score | 0.968 |
| Kd | — |