Complex 6ylb
System information
| Experimental technique | X-ray |
| Experimental resolution | 2.12 |
| System mass | 71.30 kDa |
| Deposition year | 2020 |
| Molecule type | RNA |
| # RNA entities | 1 |
| Organism | Roseobacter |
| RCSB PDB Entry | 6ylb |
| Reference | Huang Lin, Liao Ting-Wei, Wang Jia, Ha Taekjip, Lilley David M J. . Crystal structure and ligand-induced folding of the SAM/SAH riboswitch Nucleic Acids Research |
| Compound | SAM |
| Residue | . / 101 |
| Chain | M / A |
| Non-redundant | False |
| Interacting RNA chains | B/B, A/A |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | A/A: riboswitch, B/B: riboswitch |
| RNA family global | riboswitch |
| Volume | 375.93 Å3 |
| Hydrophobicity | 0.302 |
| Hydrophilicity | 1.023 |
| Buriedness | 0.679 |
| Don/acc character | 1.542 |
| SiteScore | 1.141 |
| D Score | 1.014 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | N / B |
| Non-redundant | False |
| Interacting RNA chains | G/I, B/B, A/A |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | A/A: riboswitch, B/B: riboswitch, G/I: riboswitch |
| RNA family global | riboswitch |
| Volume | 86.09 Å3 |
| Hydrophobicity | 0.370 |
| Hydrophilicity | 0.945 |
| Buriedness | 0.569 |
| Don/acc character | 4.562 |
| SiteScore | 0.764 |
| D Score | 0.565 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | O / C |
| Non-redundant | False |
| Interacting RNA chains | J/N, D/D, C/C |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | C/C: riboswitch, D/D: riboswitch, J/N: riboswitch |
| RNA family global | riboswitch |
| Volume | 427.04 Å3 |
| Hydrophobicity | 0.469 |
| Hydrophilicity | 0.939 |
| Buriedness | 0.673 |
| Don/acc character | 2.140 |
| SiteScore | 1.153 |
| D Score | 1.037 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | P / F |
| Non-redundant | False |
| Interacting RNA chains | E/F, F/G |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | E/F: riboswitch, F/G: riboswitch |
| RNA family global | riboswitch |
| Volume | 401.31 Å3 |
| Hydrophobicity | 0.265 |
| Hydrophilicity | 1.023 |
| Buriedness | 0.637 |
| Don/acc character | 1.674 |
| SiteScore | 1.112 |
| D Score | 0.988 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | Q / G |
| Non-redundant | False |
| Interacting RNA chains | E/F, K/O, F/G |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | E/F: riboswitch, F/G: riboswitch, K/O: riboswitch |
| RNA family global | riboswitch |
| Volume | 83.01 Å3 |
| Hydrophobicity | 0.340 |
| Hydrophilicity | 0.934 |
| Buriedness | 0.560 |
| Don/acc character | 2.496 |
| SiteScore | 0.791 |
| D Score | 0.603 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | R / I |
| Non-redundant | False |
| Interacting RNA chains | H/J, B/B, G/I |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | B/B: riboswitch, G/I: riboswitch, H/J: riboswitch |
| RNA family global | riboswitch |
| Volume | 366.67 Å3 |
| Hydrophobicity | 0.373 |
| Hydrophilicity | 0.889 |
| Buriedness | 0.653 |
| Don/acc character | 2.228 |
| SiteScore | 1.149 |
| D Score | 1.042 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | S / M |
| Non-redundant | False |
| Interacting RNA chains | J/N, I/M |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | I/M: riboswitch, J/N: riboswitch |
| RNA family global | riboswitch |
| Volume | 326.19 Å3 |
| Hydrophobicity | 0.374 |
| Hydrophilicity | 1.026 |
| Buriedness | 0.676 |
| Don/acc character | 2.484 |
| SiteScore | 1.138 |
| D Score | 1.011 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | T / N |
| Non-redundant | False |
| Interacting RNA chains | J/N, I/M, C/C |
| RNA environment detailled | other |
| RNA environment global | RNA/Other |
| RNA family chains | C/C: riboswitch, I/M: riboswitch, J/N: riboswitch |
| RNA family global | riboswitch |
| Volume | 91.58 Å3 |
| Hydrophobicity | 0.191 |
| Hydrophilicity | 1.008 |
| Buriedness | 0.554 |
| Don/acc character | 2.993 |
| SiteScore | 0.797 |
| D Score | 0.606 |
| Kd | — |
| Compound | SAM |
| Residue | . / 101 |
| Chain | U / O |
| Non-redundant | False |
| Interacting RNA chains | L/P, K/O, F/G |
| RNA environment detailled | RNA-only |
| RNA environment global | RNA |
| RNA family chains | F/G: riboswitch, K/O: riboswitch, L/P: riboswitch |
| RNA family global | riboswitch |
| Volume | 392.05 Å3 |
| Hydrophobicity | 0.240 |
| Hydrophilicity | 0.973 |
| Buriedness | 0.645 |
| Don/acc character | 1.513 |
| SiteScore | 1.127 |
| D Score | 1.010 |
| Kd | — |