Complex 4khp
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 | 3.10 |
| System mass | 770.16 kDa |
| Deposition year | 2013 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Thermus |
| RCSB PDB Entry | 4khp |
| Reference | Tourigny David S., Fernández Israel S., Kelley Ann C., Vakiti Ramkrishna Reddy, Chattopadhyay Amit Kumar, Dorich Stéphane, Hanessian Stephen, Ramakrishnan V.. 2013. Crystal Structure of a Bioactive Pactamycin Analog Bound to the 30S Ribosomal Subunit Journal of Molecular Biology |
| Equivalence Class |
NR_all_65795.87,
NR_all_73146.3
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 | PAR |
| Residue | . / 1601 |
| Chain | W / A |
| Non-redundant | False |
| 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 | 75.12 Å3 |
| Hydrophobicity | 0.048 |
| Hydrophilicity | 0.933 |
| Buriedness | 0.548 |
| Don/acc character | 4.425 |
| SiteScore | 0.795 |
| D Score | 0.612 |
| Kd | — |
| Compound | PAR |
| Residue | . / 1602 |
| Chain | X / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 163.95 Å3 |
| Hydrophobicity | 0.259 |
| Hydrophilicity | 1.079 |
| Buriedness | 0.806 |
| Don/acc character | 4.990 |
| SiteScore | 0.817 |
| D Score | 0.553 |
| Kd | — |
| Compound | PAR |
| Residue | . / 1603 |
| Chain | Y / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 119.02 Å3 |
| Hydrophobicity | 0.364 |
| Hydrophilicity | 1.133 |
| Buriedness | 0.787 |
| Don/acc character | 1.401 |
| SiteScore | 0.732 |
| D Score | 0.534 |
| Kd | — |
| Compound | PAR |
| Residue | . / 1604 |
| Chain | Z / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 667.82 Å3 |
| Hydrophobicity | 0.084 |
| Hydrophilicity | 1.286 |
| Buriedness | 0.733 |
| Don/acc character | 1.330 |
| SiteScore | 1.023 |
| D Score | 0.961 |
| Kd | — |
| Compound | PAR |
| Residue | . / 1605 |
| Chain | AA / 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 | 522.73 Å3 |
| Hydrophobicity | 0.016 |
| Hydrophilicity | 0.769 |
| Buriedness | 0.557 |
| Don/acc character | 3.565 |
| SiteScore | 1.108 |
| D Score | 1.024 |
| Kd | — |
| Compound | PAR |
| Residue | . / 1606 |
| Chain | BA / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA |
| RNA family global | rRNA |
| Volume | 397.54 Å3 |
| Hydrophobicity | 0.278 |
| Hydrophilicity | 1.109 |
| Buriedness | 0.771 |
| Don/acc character | 1.759 |
| SiteScore | 1.033 |
| D Score | 0.829 |
| Kd | — |
| Compound | PAR |
| Residue | . / 1607 |
| Chain | CA / 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 | 336.48 Å3 |
| Hydrophobicity | 0.112 |
| Hydrophilicity | 1.272 |
| Buriedness | 0.839 |
| Don/acc character | 1.600 |
| SiteScore | 0.710 |
| D Score | 0.661 |
| Kd | — |
| Compound | PCY |
| Residue | . / 1608 |
| Chain | DA / A |
| Non-redundant | True |
| Interacting RNA chains | A/A, V/X |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | A/A: rRNA, V/X: mRNA |
| RNA family global | multiple |
| Volume | 604.02 Å3 |
| Hydrophobicity | 0.214 |
| Hydrophilicity | 1.131 |
| Buriedness | 0.685 |
| Don/acc character | 1.981 |
| SiteScore | 1.141 |
| D Score | 0.982 |
| Kd | — |