LYD
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| C5' | C4' | doub | 1.38Å | 1.41Å | Aromatic |
| C5' | C6' | sing | 1.38Å | 1.39Å | Aromatic |
| C5' | H5' | sing | 1.08Å | 1.10Å | |
| C4' | C3' | sing | 1.38Å | 1.41Å | Aromatic |
| C4' | C8 | sing | 1.51Å | 1.54Å | |
| C3' | C2' | doub | 1.38Å | 1.40Å | Aromatic |
| C3' | H3' | sing | 1.08Å | 1.10Å | |
| C2' | C1' | sing | 1.40Å | 1.41Å | Aromatic |
| C2' | H2' | sing | 1.08Å | 1.10Å | |
| C1' | C6' | doub | 1.40Å | 1.40Å | Aromatic |
| C1' | C9 | sing | 1.48Å | 1.46Å | |
| C6' | H6' | sing | 1.08Å | 1.10Å | |
| C9 | O9 | doub | 1.22Å | 1.23Å | |
| C9 | N | sing | 1.35Å | 1.38Å | |
| N | CA | sing | 1.46Å | 1.49Å | |
| N | HN | sing | 0.97Å | 1.02Å | |
| CA | CB | sing | 1.53Å | 1.55Å | |
| CA | C | sing | 1.51Å | 1.52Å | |
| CA | HCA | sing | 1.09Å | 1.11Å | |
| CB | CG1 | sing | 1.53Å | 1.54Å | |
| CB | CG2 | sing | 1.53Å | 1.54Å | |
| CB | HCB | sing | 1.09Å | 1.12Å | |
| CG1 | HG11 | sing | 1.09Å | 1.12Å | |
| CG1 | HG12 | sing | 1.09Å | 1.11Å | |
| CG1 | HG13 | sing | 1.09Å | 1.12Å | |
| CG2 | HG21 | sing | 1.09Å | 1.12Å | |
| CG2 | HG22 | sing | 1.09Å | 1.11Å | |
| CG2 | HG23 | sing | 1.09Å | 1.11Å | |
| C8 | C7 | sing | 1.53Å | 1.53Å | |
| C8 | HC81 | sing | 1.09Å | 1.12Å | |
| C8 | HC82 | sing | 1.09Å | 1.12Å | |
| C7 | C5 | sing | 1.51Å | 1.50Å | |
| C7 | HC71 | sing | 1.09Å | 1.11Å | |
| C7 | HC72 | sing | 1.09Å | 1.12Å | |
| C5 | C6 | doub | 1.34Å | 1.36Å | Aromatic |
| C5 | C4A | sing | 1.46Å | 1.43Å | Aromatic |
| C | OX1 | doub | 1.21Å | 1.24Å | |
| C | OX2 | sing | 1.34Å | 1.24Å | |
| OX2 | HX2 | sing | 0.97Å | 0.95Å | |
| C6 | N7 | sing | 1.37Å | 1.41Å | Aromatic |
| C6 | HC6 | sing | 1.08Å | 1.10Å | |
| N7 | C7A | sing | 1.36Å | 1.38Å | Aromatic |
| N7 | HN7 | sing | 0.97Å | 1.02Å | |
| C7A | C4A | doub | 1.40Å | 1.38Å | Aromatic |
| C7A | N1 | sing | 1.34Å | 1.42Å | Aromatic |
| C4A | C4 | sing | 1.41Å | 1.43Å | Aromatic |
| C4 | O4 | doub | 1.22Å | 1.23Å | |
| C4 | N3 | sing | 1.35Å | 1.40Å | Aromatic |
| N3 | C2 | sing | 1.36Å | 1.40Å | Aromatic |
| N3 | HN3 | sing | 0.97Å | 1.02Å | |
| C2 | N1 | doub | 1.31Å | 1.38Å | Aromatic |
| C2 | N2 | sing | 1.37Å | 1.38Å | |
| N2 | HN21 | sing | 0.97Å | 1.02Å | |
| N2 | HN22 | sing | 0.97Å | 1.02Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| C4' | C5' | C6' | 120.4° | 120.2° |
| C4' | C5' | H5' | 120.2° | 119.9° |
| C5' | C4' | C3' | 119.8° | 120.3° |
| C5' | C4' | C8 | 118.4° | 119.8° |
| C6' | C5' | H5' | 119.3° | 119.9° |
| C5' | C6' | C1' | 119.4° | 119.9° |
| C5' | C6' | H6' | 120.0° | 120.1° |
| C3' | C4' | C8 | 121.8° | 119.8° |
| C4' | C3' | C2' | 120.3° | 120.1° |
| C4' | C3' | H3' | 120.1° | 120.0° |
| C4' | C8 | C7 | 113.8° | 109.5° |
| C4' | C8 | HC81 | 110.7° | 109.5° |
| C4' | C8 | HC82 | 110.7° | 109.4° |
| C2' | C3' | H3' | 119.7° | 119.9° |
| C3' | C2' | C1' | 119.0° | 119.9° |
| C3' | C2' | H2' | 120.0° | 120.1° |
| C1' | C2' | H2' | 121.0° | 120.1° |
| C2' | C1' | C6' | 121.0° | 119.7° |
| C2' | C1' | C9 | 119.3° | 120.2° |
| C6' | C1' | C9 | 119.4° | 120.1° |
| C1' | C6' | H6' | 120.6° | 120.0° |
| C1' | C9 | O9 | 119.3° | 120.0° |
| C1' | C9 | N | 118.7° | 120.0° |
| O9 | C9 | N | 121.9° | 120.0° |
| C9 | N | CA | 122.5° | 120.0° |
| C9 | N | HN | 114.7° | 120.0° |
| CA | N | HN | 122.8° | 120.0° |
| N | CA | CB | 111.4° | 109.5° |
| N | CA | C | 110.5° | 109.5° |
| N | CA | HCA | 107.7° | 109.5° |
| CB | CA | C | 110.1° | 109.5° |
| CB | CA | HCA | 108.1° | 109.4° |
| CA | CB | CG1 | 112.1° | 109.5° |
| CA | CB | CG2 | 111.1° | 109.4° |
| CA | CB | HCB | 106.7° | 109.5° |
| C | CA | HCA | 109.1° | 109.5° |
| CA | C | OX1 | 117.0° | 120.1° |
| CA | C | OX2 | 118.6° | 120.0° |
| CG1 | CB | CG2 | 110.0° | 109.5° |
| CG1 | CB | HCB | 107.8° | 109.5° |
| CB | CG1 | HG11 | 112.1° | 109.5° |
| CB | CG1 | HG12 | 111.3° | 109.5° |
| CB | CG1 | HG13 | 111.2° | 109.5° |
| CG2 | CB | HCB | 109.0° | 109.5° |
| CB | CG2 | HG21 | 111.1° | 109.5° |
| CB | CG2 | HG22 | 111.6° | 109.5° |
| CB | CG2 | HG23 | 111.6° | 109.4° |
| HG11 | CG1 | HG12 | 111.2° | 109.5° |
| HG11 | CG1 | HG13 | 111.2° | 109.5° |
| HG12 | CG1 | HG13 | 99.1° | 109.5° |
| HG21 | CG2 | HG22 | 111.7° | 109.5° |
| HG21 | CG2 | HG23 | 111.6° | 109.5° |
| HG22 | CG2 | HG23 | 98.8° | 109.4° |
| C7 | C8 | HC81 | 110.6° | 109.5° |
| C7 | C8 | HC82 | 110.6° | 109.5° |
| C8 | C7 | C5 | 113.8° | 109.5° |
| C8 | C7 | HC71 | 110.7° | 109.5° |
| C8 | C7 | HC72 | 110.6° | 109.5° |
| HC81 | C8 | HC82 | 99.6° | 109.5° |
| C5 | C7 | HC71 | 110.6° | 109.4° |
| C5 | C7 | HC72 | 110.6° | 109.5° |
| C7 | C5 | C6 | 125.0° | 126.7° |
| C7 | C5 | C4A | 128.2° | 126.6° |
| HC71 | C7 | HC72 | 99.6° | 109.5° |
| C6 | C5 | C4A | 106.8° | 106.7° |
| C5 | C6 | N7 | 109.8° | 109.7° |
| C5 | C6 | HC6 | 123.6° | 125.2° |
| C5 | C4A | C7A | 107.6° | 106.3° |
| C5 | C4A | C4 | 133.5° | 134.6° |
| OX1 | C | OX2 | 124.4° | 120.0° |
| C | OX2 | HX2 | 118.6° | 119.9° |
| N7 | C6 | HC6 | 126.7° | 125.1° |
| C6 | N7 | C7A | 106.7° | 110.1° |
| C6 | N7 | HN7 | 127.5° | 125.0° |
| C7A | N7 | HN7 | 125.8° | 124.9° |
| N7 | C7A | C4A | 109.2° | 107.2° |
| N7 | C7A | N1 | 127.3° | 133.6° |
| C4A | C7A | N1 | 123.5° | 119.2° |
| C7A | C4A | C4 | 118.9° | 119.1° |
| C7A | N1 | C2 | 118.1° | 121.2° |
| C4A | C4 | O4 | 126.6° | 120.9° |
| C4A | C4 | N3 | 117.0° | 118.2° |
| O4 | C4 | N3 | 116.4° | 120.9° |
| C4 | N3 | C2 | 123.5° | 120.2° |
| C4 | N3 | HN3 | 118.2° | 119.9° |
| C2 | N3 | HN3 | 118.3° | 120.0° |
| N3 | C2 | N1 | 119.0° | 122.1° |
| N3 | C2 | N2 | 120.0° | 118.9° |
| N1 | C2 | N2 | 121.0° | 118.9° |
| C2 | N2 | HN21 | 120.0° | 120.0° |
| C2 | N2 | HN22 | 108.4° | 120.0° |
| HN21 | N2 | HN22 | 108.4° | 120.0° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| C4' | C5' | C6' | H5' | 180.0° | 179.8° |
| C5' | C4' | C3' | C8 | 178.9° | 180.0° |
| C5' | C4' | C3' | C2' | 0.0° | 0.0° |
| C5' | C4' | C3' | H3' | 179.9° | 180.0° |
| C4' | C5' | C6' | C1' | 0.1° | 0.6° |
| C4' | C5' | C6' | H6' | 179.9° | 180.0° |
| C5' | C4' | C8 | C7 | 93.0° | 90.0° |
| C5' | C4' | C8 | HC81 | 32.2° | 30.0° |
| C5' | C4' | C8 | HC82 | 141.7° | 150.0° |
| C6' | C5' | C4' | C3' | 0.2° | 0.3° |
| C6' | C5' | C4' | C8 | 178.7° | 179.7° |
| C5' | C6' | C1' | C2' | 0.0° | 0.6° |
| C5' | C6' | C1' | H6' | 180.0° | 179.4° |
| C5' | C6' | C1' | C9 | 173.7° | 179.7° |
| H5' | C5' | C4' | C3' | 179.8° | 179.9° |
| H5' | C5' | C4' | C8 | 1.2° | 0.0° |
| H5' | C5' | C6' | C1' | 179.9° | 179.7° |
| H5' | C5' | C6' | H6' | 0.1° | 0.3° |
| C4' | C3' | C2' | H3' | 180.0° | 180.0° |
| C4' | C3' | C2' | C1' | 0.1° | 0.0° |
| C4' | C3' | C2' | H2' | 179.9° | 180.0° |
| C3' | C4' | C8 | C7 | 88.1° | 90.0° |
| C3' | C4' | C8 | HC81 | 146.6° | 149.9° |
| C3' | C4' | C8 | HC82 | 37.2° | 30.0° |
| C8 | C4' | C3' | C2' | 178.8° | 180.0° |
| C8 | C4' | C3' | H3' | 1.2° | 0.0° |
| C4' | C8 | C7 | HC81 | 125.3° | 120.0° |
| C4' | C8 | C7 | HC82 | 125.3° | 120.0° |
| C4' | C8 | HC81 | HC82 | 116.5° | 120.0° |
| C4' | C8 | C7 | C5 | 63.4° | 180.0° |
| C4' | C8 | C7 | HC71 | 61.9° | 60.0° |
| C4' | C8 | C7 | HC72 | 171.4° | 60.0° |
| C3' | C2' | C1' | H2' | 180.0° | 179.9° |
| C3' | C2' | C1' | C6' | 0.2° | 0.3° |
| C3' | C2' | C1' | C9 | 173.5° | 180.0° |
| H3' | C3' | C2' | C1' | 179.9° | 180.0° |
| H3' | C3' | C2' | H2' | 0.1° | 0.1° |
| C2' | C1' | C6' | C9 | 173.7° | 179.7° |
| C2' | C1' | C6' | H6' | 180.0° | 180.0° |
| C2' | C1' | C9 | O9 | 22.7° | 0.0° |
| C2' | C1' | C9 | N | 153.7° | 180.0° |
| H2' | C2' | C1' | C6' | 179.8° | 179.8° |
| H2' | C2' | C1' | C9 | 6.5° | 0.1° |
| C6' | C1' | C9 | O9 | 163.5° | 179.7° |
| C6' | C1' | C9 | N | 20.1° | 0.3° |
| C9 | C1' | C6' | H6' | 6.3° | 0.3° |
| C1' | C9 | O9 | N | 176.3° | 180.0° |
| C1' | C9 | N | CA | 173.1° | 180.0° |
| C1' | C9 | N | HN | 6.9° | 0.1° |
| O9 | C9 | N | CA | 3.2° | 0.0° |
| O9 | C9 | N | HN | 176.8° | 180.0° |
| C9 | N | CA | HN | 180.0° | 180.0° |
| C9 | N | CA | CB | 103.3° | 150.0° |
| C9 | N | CA | C | 134.1° | 90.0° |
| C9 | N | CA | HCA | 15.1° | 30.1° |
| N | CA | CB | C | 122.9° | 120.0° |
| N | CA | CB | HCA | 118.1° | 120.0° |
| N | CA | C | HCA | 118.1° | 120.1° |
| N | CA | CB | CG1 | 56.0° | 180.0° |
| N | CA | CB | CG2 | 179.5° | 60.0° |
| N | CA | CB | HCB | 61.8° | 60.0° |
| N | CA | C | OX1 | 29.0° | 150.0° |
| N | CA | C | OX2 | 153.4° | 30.0° |
| HN | N | CA | CB | 76.7° | 30.0° |
| HN | N | CA | C | 45.9° | 90.0° |
| HN | N | CA | HCA | 165.0° | 149.9° |
| CB | CA | C | HCA | 118.4° | 119.9° |
| CA | CB | CG1 | CG2 | 124.1° | 119.9° |
| CA | CB | CG1 | HCB | 117.2° | 120.0° |
| CA | CB | CG2 | HCB | 117.3° | 120.0° |
| CA | CB | CG1 | HG11 | 180.0° | 180.0° |
| CA | CB | CG1 | HG12 | 54.7° | 60.0° |
| CA | CB | CG1 | HG13 | 54.7° | 60.0° |
| CA | CB | CG2 | HG21 | 180.0° | 60.0° |
| CA | CB | CG2 | HG22 | 54.7° | 60.1° |
| CA | CB | CG2 | HG23 | 54.8° | 180.0° |
| CB | CA | C | OX1 | 94.4° | 90.0° |
| CB | CA | C | OX2 | 83.2° | 90.0° |
| C | CA | CB | CG1 | 178.9° | 60.0° |
| C | CA | CB | CG2 | 57.6° | 180.0° |
| C | CA | CB | HCB | 61.1° | 60.0° |
| CA | C | OX1 | OX2 | 177.5° | 180.0° |
| CA | C | OX2 | HX2 | 180.0° | 180.0° |
| HCA | CA | CB | CG1 | 62.1° | 60.0° |
| HCA | CA | CB | CG2 | 61.5° | 60.0° |
| HCA | CA | CB | HCB | 179.9° | 180.0° |
| HCA | CA | C | OX1 | 147.1° | 29.9° |
| HCA | CA | C | OX2 | 35.2° | 150.1° |
| CG1 | CB | CG2 | HCB | 118.0° | 120.0° |
| CB | CG1 | HG11 | HG12 | 125.3° | 120.0° |
| CB | CG1 | HG11 | HG13 | 125.3° | 120.0° |
| CB | CG1 | HG12 | HG13 | 117.1° | 120.0° |
| CG1 | CB | CG2 | HG21 | 55.3° | 60.0° |
| CG1 | CB | CG2 | HG22 | 179.4° | 180.0° |
| CG1 | CB | CG2 | HG23 | 69.9° | 60.0° |
| CG2 | CB | CG1 | HG11 | 55.9° | 60.0° |
| CG2 | CB | CG1 | HG12 | 69.4° | 179.9° |
| CG2 | CB | CG1 | HG13 | 178.8° | 60.0° |
| CB | CG2 | HG21 | HG22 | 125.3° | 120.0° |
| CB | CG2 | HG21 | HG23 | 125.2° | 120.0° |
| CB | CG2 | HG22 | HG23 | 117.5° | 119.9° |
| HCB | CB | CG1 | HG11 | 62.8° | 60.0° |
| HCB | CB | CG1 | HG12 | 171.9° | 60.0° |
| HCB | CB | CG1 | HG13 | 62.4° | 180.0° |
| HCB | CB | CG2 | HG21 | 62.8° | 180.0° |
| HCB | CB | CG2 | HG22 | 62.5° | 59.9° |
| HCB | CB | CG2 | HG23 | 172.0° | 60.0° |
| HG11 | CG1 | HG12 | HG13 | 117.1° | 120.0° |
| HG21 | CG2 | HG22 | HG23 | 117.6° | 120.0° |
| C7 | C8 | HC81 | HC82 | 116.4° | 120.0° |
| C8 | C7 | C5 | HC71 | 125.3° | 120.0° |
| C8 | C7 | C5 | HC72 | 125.2° | 120.0° |
| C8 | C7 | HC71 | HC72 | 116.5° | 120.0° |
| C8 | C7 | C5 | C6 | 74.7° | 90.1° |
| C8 | C7 | C5 | C4A | 107.3° | 90.3° |
| HC81 | C8 | C7 | C5 | 171.3° | 60.0° |
| HC81 | C8 | C7 | HC71 | 63.4° | 180.0° |
| HC81 | C8 | C7 | HC72 | 46.1° | 60.0° |
| HC82 | C8 | C7 | C5 | 61.9° | 60.0° |
| HC82 | C8 | C7 | HC71 | 172.8° | 60.0° |
| HC82 | C8 | C7 | HC72 | 63.4° | 180.0° |
| C5 | C7 | HC71 | HC72 | 116.5° | 120.0° |
| C7 | C5 | C6 | C4A | 178.4° | 179.7° |
| C7 | C5 | C6 | N7 | 178.5° | 179.9° |
| C7 | C5 | C6 | HC6 | 1.5° | 0.1° |
| C7 | C5 | C4A | C7A | 179.8° | 179.9° |
| C7 | C5 | C4A | C4 | 2.0° | 0.8° |
| HC71 | C7 | C5 | C6 | 160.0° | 29.9° |
| HC71 | C7 | C5 | C4A | 18.0° | 149.7° |
| HC72 | C7 | C5 | C6 | 50.5° | 149.9° |
| HC72 | C7 | C5 | C4A | 127.5° | 29.7° |
| C5 | C6 | N7 | HC6 | 180.0° | 180.0° |
| C5 | C6 | N7 | C7A | 1.6° | 0.0° |
| C5 | C6 | N7 | HN7 | 178.3° | 179.9° |
| C6 | C5 | C4A | C7A | 1.9° | 0.4° |
| C6 | C5 | C4A | C4 | 179.7° | 179.6° |
| C4A | C5 | C6 | N7 | 0.1° | 0.3° |
| C4A | C5 | C6 | HC6 | 179.8° | 179.8° |
| C5 | C4A | C7A | N7 | 2.9° | 0.4° |
| C5 | C4A | C7A | C4 | 178.2° | 179.3° |
| C5 | C4A | C7A | N1 | 175.8° | 179.9° |
| C5 | C4A | C4 | O4 | 5.2° | 0.7° |
| C5 | C4A | C4 | N3 | 176.1° | 179.6° |
| OX1 | C | OX2 | HX2 | 2.6° | 0.1° |
| C6 | N7 | C7A | HN7 | 180.0° | 179.9° |
| C6 | N7 | C7A | C4A | 2.8° | 0.3° |
| C6 | N7 | C7A | N1 | 175.9° | 179.9° |
| HC6 | C6 | N7 | C7A | 178.4° | 180.0° |
| HC6 | C6 | N7 | HN7 | 1.6° | 0.0° |
| N7 | C7A | C4A | N1 | 178.8° | 179.7° |
| N7 | C7A | C4A | C4 | 178.9° | 179.7° |
| N7 | C7A | N1 | C2 | 179.5° | 179.9° |
| HN7 | N7 | C7A | C4A | 177.2° | 179.8° |
| HN7 | N7 | C7A | N1 | 4.1° | 0.1° |
| C7A | C4A | C4 | O4 | 177.2° | 179.7° |
| C7A | C4A | C4 | N3 | 1.5° | 0.5° |
| C4A | C7A | N1 | C2 | 1.0° | 0.3° |
| N1 | C7A | C4A | C4 | 2.4° | 0.5° |
| C7A | N1 | C2 | N3 | 1.1° | 0.1° |
| C7A | N1 | C2 | N2 | 178.3° | 180.0° |
| C4A | C4 | O4 | N3 | 178.8° | 179.8° |
| C4A | C4 | N3 | C2 | 0.5° | 0.2° |
| C4A | C4 | N3 | HN3 | 179.4° | 179.7° |
| O4 | C4 | N3 | C2 | 179.4° | 180.0° |
| O4 | C4 | N3 | HN3 | 0.5° | 0.0° |
| C4 | N3 | C2 | HN3 | 180.0° | 179.9° |
| C4 | N3 | C2 | N1 | 1.9° | 0.1° |
| C4 | N3 | C2 | N2 | 179.1° | 180.0° |
| N3 | C2 | N1 | N2 | 177.1° | 179.9° |
| N3 | C2 | N2 | HN21 | 180.0° | 179.9° |
| N3 | C2 | N2 | HN22 | 54.8° | 0.1° |
| HN3 | N3 | C2 | N1 | 178.0° | 180.0° |
| HN3 | N3 | C2 | N2 | 0.9° | 0.1° |
| N1 | C2 | N2 | HN21 | 2.9° | 0.0° |
| N1 | C2 | N2 | HN22 | 122.3° | 180.0° |
| C2 | N2 | HN21 | HN22 | 125.2° | 180.0° |
