Complex 1zz5
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 | X-ray |
| Experimental resolution | 3.00 |
| System mass | 21.00 kDa |
| Deposition year | 2005 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 1zz5 |
| Reference | Zhao Fang, Zhao Qiang, Blount Kenneth F., Han Qing, Tor Yitzhak, Hermann Thomas. 2005. Molecular Recognition of RNA by Neomycin and a Restricted Neomycin Derivative Angewandte Chemie International Edition |
| Equivalence Class |
NR_all_22842.2
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 | CNY |
| Residue | . / 42 |
| Chain | F / A |
| Non-redundant | True |
| Interacting RNA chains | B/B, A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: rRNA, B/B: rRNA |
| RNA family global | rRNA |
| Volume | 57.28 Å3 |
| Hydrophobicity | 0.194 |
| Hydrophilicity | 0.767 |
| Buriedness | 0.539 |
| Don/acc character | 4.539 |
| SiteScore | 0.722 |
| D Score | 0.534 |
| Kd | — |
| Compound | CNY |
| Residue | . / 43 |
| Chain | G / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 42.88 Å3 |
| Hydrophobicity | 0.020 |
| Hydrophilicity | 0.619 |
| Buriedness | 0.410 |
| Don/acc character | 3.780 |
| SiteScore | 1.039 |
| D Score | 0.984 |
| Kd | — |
| Compound | CNY |
| Residue | . / 41 |
| Chain | H / C |
| Non-redundant | False |
| Interacting RNA chains | C/C, D/D |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | C/C: rRNA, D/D: rRNA |
| RNA family global | rRNA |
| Volume | 43.22 Å3 |
| Hydrophobicity | 0.179 |
| Hydrophilicity | 0.830 |
| Buriedness | 0.545 |
| Don/acc character | 2.667 |
| SiteScore | 0.707 |
| D Score | 0.507 |
| Kd | — |
| Compound | CNY |
| Residue | . / 44 |
| Chain | I / C |
| Non-redundant | False |
| Interacting RNA chains | C/C |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | C/C: rRNA |
| RNA family global | rRNA |
| Volume | 110.79 Å3 |
| Hydrophobicity | 0.030 |
| Hydrophilicity | 0.547 |
| Buriedness | 0.479 |
| Don/acc character | 3.672 |
| SiteScore | 1.099 |
| D Score | 1.049 |
| Kd | — |