Complex 8d5l
System information
| Experimental technique | X-ray |
| Experimental resolution | 1.64 |
| System mass | 43.76 kDa |
| Deposition year | 2022 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | N/A |
| RCSB PDB Entry | 8d5l |
| Reference | Menichelli Elena, Lam Bianca J., Wang Yu, Wang Vivian S., Shaffer Jennifer, Tjhung Katrina F., Bursulaya Badry, Nguyen Truc Ngoc, Vo Todd, Alper Phillip B, McAllister Christopher S, Jones David H., Spraggon Glen, Michellys Pierre-Yves, Joslin John, Joyce Gerald F., Rogers Jeff. . Discovery of small molecules that target a tertiary-structured RNA Proceedings of the National Academy of Sciences |
| Equivalence Class |
NR_all_48165.4
BGSU version: 4.48 |
| Compound | QIJ |
| Residue | . / 101 |
| Chain | E / A |
| Non-redundant | True |
| Interacting RNA chains | A/A |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | A/A: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 159.15 Å3 |
| Hydrophobicity | 0.506 |
| Hydrophilicity | 1.300 |
| Buriedness | 0.693 |
| Don/acc character | 2.244 |
| SiteScore | 1.000 |
| D Score | 0.744 |
| Kd | — |
| Compound | QIJ |
| Residue | . / 101 |
| Chain | J / B |
| Non-redundant | False |
| Interacting RNA chains | B/B |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | B/B: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 92.61 Å3 |
| Hydrophobicity | 0.630 |
| Hydrophilicity | 0.985 |
| Buriedness | 0.624 |
| Don/acc character | 1.931 |
| SiteScore | 0.875 |
| D Score | 0.691 |
| Kd | — |
| Compound | QIJ |
| Residue | . / 101 |
| Chain | O / C |
| Non-redundant | False |
| Interacting RNA chains | C/C |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | C/C: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 275.43 Å3 |
| Hydrophobicity | 0.587 |
| Hydrophilicity | 1.114 |
| Buriedness | 0.725 |
| Don/acc character | 1.975 |
| SiteScore | 1.099 |
| D Score | 0.923 |
| Kd | — |
| Compound | QIJ |
| Residue | . / 101 |
| Chain | T / D |
| Non-redundant | False |
| Interacting RNA chains | D/D |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | D/D: aptamer_rna |
| RNA family global | aptamer_rna |
| Volume | 81.63 Å3 |
| Hydrophobicity | 0.660 |
| Hydrophilicity | 0.813 |
| Buriedness | 0.605 |
| Don/acc character | 1.905 |
| SiteScore | 0.845 |
| D Score | 0.670 |
| Kd | — |