Complex 6ydp
System information
| Experimental technique | Electron Microscopy |
| Experimental resolution | 3.00 |
| System mass | 13061.13 kDa |
| Deposition year | 2020 |
| Molecule type | RNA/Protein |
| # RNA entities | 1 |
| Organism | Sus |
| RCSB PDB Entry | 6ydp |
| Reference | Kummer Eva, Ban Nenad. . Structural insights into mammalian mitochondrial translation elongation catalyzed by mtEFG1 The EMBO Journal |
| Equivalence Class |
NR_all_50188.3,
NR_all_52597.3
BGSU version: 4.49 |
| Compound | 5GP |
| Residue | . / 15906 |
| Chain | EP / BA |
| Non-redundant | True |
| Interacting RNA chains | AC/BA |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | AC/BA: rRNA |
| RNA family global | rRNA |
| Volume | 315.90 Å3 |
| Hydrophobicity | 0.233 |
| Hydrophilicity | 0.940 |
| Buriedness | 0.647 |
| Don/acc character | 2.605 |
| SiteScore | 1.110 |
| D Score | 0.989 |
| Kd | — |
| Compound | 5GP |
| Residue | . / 15907 |
| Chain | FP / BA |
| Non-redundant | True |
| Interacting RNA chains | AC/BA |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | AC/BA: rRNA |
| RNA family global | rRNA |
| Volume | 308.01 Å3 |
| Hydrophobicity | 0.474 |
| Hydrophilicity | 1.595 |
| Buriedness | 0.667 |
| Don/acc character | 0.463 |
| SiteScore | 1.130 |
| D Score | 0.821 |
| Kd | — |
| Compound | GNP |
| Residue | . / 1000 |
| Chain | JP / BC |
| Non-redundant | True |
| Interacting RNA chains | AC/BA |
| RNA environment detailled | protein, ion |
| RNA environment global | RNA/Protein |
| RNA family chains | AC/BA: rRNA |
| RNA family global | rRNA |
| Volume | 655.82 Å3 |
| Hydrophobicity | 0.098 |
| Hydrophilicity | 2.097 |
| Buriedness | 0.816 |
| Don/acc character | 0.587 |
| SiteScore | 1.079 |
| D Score | 0.746 |
| Kd | — |
| Compound | SPM |
| Residue | . / 16801 |
| Chain | VC / AA |
| Non-redundant | True |
| Interacting RNA chains | DA/AA |
| RNA environment detailled | ion |
| RNA environment global | RNA |
| RNA family chains | DA/AA: rRNA |
| RNA family global | rRNA |
| Volume | 699.03 Å3 |
| Hydrophobicity | 0.125 |
| Hydrophilicity | 1.180 |
| Buriedness | 0.793 |
| Don/acc character | 3.058 |
| SiteScore | 1.213 |
| D Score | 1.031 |
| Kd | — |
| Compound | SPM |
| Residue | . / 15908 |
| Chain | GP / BA |
| Non-redundant | True |
| Interacting RNA chains | AC/BA |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | AC/BA: rRNA |
| RNA family global | rRNA |
| Volume | 622.20 Å3 |
| Hydrophobicity | 0.193 |
| Hydrophilicity | 1.283 |
| Buriedness | 0.795 |
| Don/acc character | 1.921 |
| SiteScore | 1.065 |
| D Score | 0.999 |
| Kd | — |
| Compound | SPM |
| Residue | . / 15909 |
| Chain | HP / BA |
| Non-redundant | True |
| Interacting RNA chains | AC/BA |
| RNA environment detailled | protein |
| RNA environment global | RNA/Protein |
| RNA family chains | AC/BA: rRNA |
| RNA family global | rRNA |
| Volume | 518.96 Å3 |
| Hydrophobicity | 0.212 |
| Hydrophilicity | 1.168 |
| Buriedness | 0.762 |
| Don/acc character | 1.116 |
| SiteScore | 1.043 |
| D Score | 1.017 |
| Kd | — |