9WY
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| O5' | C5' | sing | 1.43Å | 1.40Å | |
| O2 | C2 | doub | 1.22Å | 1.39Å | |
| C5' | C4' | sing | 1.53Å | 1.53Å | |
| O4' | C4' | sing | 1.43Å | 1.40Å | |
| C2 | N3 | sing | 1.34Å | 1.32Å | |
| C2 | N1 | sing | 1.33Å | 1.33Å | |
| N3 | C4 | sing | 1.35Å | 1.32Å | |
| C4' | C3' | sing | 1.53Å | 1.53Å | |
| N1 | C10 | doub | 1.32Å | 1.35Å | |
| C4 | O4 | doub | 1.22Å | 1.38Å | |
| C4 | C4A | sing | 1.48Å | 1.42Å | |
| C3' | O3' | sing | 1.43Å | 1.39Å | |
| C3' | C2' | sing | 1.53Å | 1.53Å | |
| O1P | P | doub | 1.48Å | 1.51Å | |
| C10 | C4A | sing | 1.47Å | 1.38Å | |
| C10 | N10 | sing | 1.36Å | 1.35Å | |
| O3' | P | sing | 1.61Å | 1.64Å | |
| C4A | N5 | doub | 1.31Å | 1.35Å | |
| C1' | C2' | sing | 1.53Å | 1.52Å | |
| C1' | N10 | sing | 1.47Å | 1.46Å | |
| C2' | O2' | sing | 1.43Å | 1.18Å | |
| P | O3P | sing | 1.61Å | 1.50Å | |
| P | O2P | sing | 1.61Å | 1.51Å | |
| N10 | C9A | sing | 1.38Å | 1.36Å | |
| N5 | C5A | sing | 1.34Å | 1.36Å | |
| C9A | C5A | doub | 1.41Å | 1.39Å | Aromatic |
| C9A | C9 | sing | 1.39Å | 1.42Å | Aromatic |
| C5A | C6 | sing | 1.41Å | 1.41Å | Aromatic |
| C9 | C8 | doub | 1.38Å | 1.39Å | Aromatic |
| C6 | C7 | doub | 1.36Å | 1.39Å | Aromatic |
| C8 | C7 | sing | 1.39Å | 1.40Å | Aromatic |
| C8 | C8M | sing | 1.51Å | 1.53Å | |
| C7 | C7M | sing | 1.51Å | 1.53Å | |
| O3P | H1 | sing | 0.97Å | 0.95Å | |
| O2P | H2 | sing | 0.97Å | 0.95Å | |
| O5' | H3 | sing | 0.97Å | 0.95Å | |
| C5' | H4 | sing | 1.09Å | 1.10Å | |
| C5' | H5 | sing | 1.09Å | 1.10Å | |
| C4' | H6 | sing | 1.09Å | 1.10Å | |
| O4' | H7 | sing | 0.97Å | 0.95Å | |
| C3' | H8 | sing | 1.09Å | 1.10Å | |
| C1' | H9 | sing | 1.09Å | 1.10Å | |
| C1' | H10 | sing | 1.09Å | 1.10Å | |
| C9 | H11 | sing | 1.08Å | 1.08Å | |
| C8M | H12 | sing | 1.09Å | 1.10Å | |
| C8M | H13 | sing | 1.09Å | 1.10Å | |
| C8M | H14 | sing | 1.09Å | 1.10Å | |
| C7M | H15 | sing | 1.09Å | 1.10Å | |
| C7M | H16 | sing | 1.09Å | 1.10Å | |
| C7M | H17 | sing | 1.09Å | 1.10Å | |
| C6 | H18 | sing | 1.08Å | 1.08Å | |
| N3 | H20 | sing | 0.97Å | 1.00Å | |
| C2' | H21 | sing | 1.09Å | 1.10Å | |
| O2' | H22 | sing | 0.97Å | 0.95Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| O5' | C5' | C4' | 109.6° | 109.4° |
| C5' | O5' | H3 | 109.5° | 114.0° |
| O5' | C5' | H4 | 109.5° | 109.5° |
| O5' | C5' | H5 | 109.4° | 109.4° |
| O2 | C2 | N3 | 117.5° | 117.9° |
| O2 | C2 | N1 | 120.5° | 118.0° |
| C5' | C4' | O4' | 109.5° | 109.5° |
| C5' | C4' | C3' | 107.8° | 109.5° |
| C4' | C5' | H4 | 109.4° | 109.5° |
| C4' | C5' | H5 | 109.4° | 109.4° |
| C5' | C4' | H6 | 108.4° | 109.4° |
| O4' | C4' | C3' | 112.6° | 109.5° |
| O4' | C4' | H6 | 110.1° | 109.5° |
| C4' | O4' | H7 | 109.5° | 114.0° |
| N3 | C2 | N1 | 121.9° | 124.1° |
| C2 | N3 | C4 | 120.5° | 121.3° |
| C2 | N3 | H20 | 119.7° | 119.4° |
| C2 | N1 | C10 | 120.9° | 121.6° |
| N3 | C4 | O4 | 119.8° | 121.4° |
| N3 | C4 | C4A | 119.8° | 117.2° |
| C4 | N3 | H20 | 119.8° | 119.4° |
| C4' | C3' | O3' | 106.2° | 109.5° |
| C4' | C3' | C2' | 113.8° | 109.5° |
| C3' | C4' | H6 | 108.3° | 109.5° |
| C4' | C3' | H8 | 109.5° | 109.4° |
| N1 | C10 | C4A | 118.9° | 118.6° |
| N1 | C10 | N10 | 119.8° | 122.3° |
| O4 | C4 | C4A | 120.4° | 121.4° |
| C4 | C4A | C10 | 117.9° | 117.3° |
| C4 | C4A | N5 | 121.8° | 122.2° |
| O3' | C3' | C2' | 106.4° | 109.5° |
| C3' | O3' | P | 120.2° | 123.0° |
| O3' | C3' | H8 | 111.5° | 109.5° |
| C3' | C2' | C1' | 117.8° | 109.4° |
| C3' | C2' | O2' | 120.6° | 109.5° |
| C2' | C3' | H8 | 109.5° | 109.5° |
| C3' | C2' | H21 | 91.0° | 109.5° |
| O1P | P | O3' | 110.8° | 109.5° |
| O1P | P | O3P | 109.4° | 109.5° |
| O1P | P | O2P | 110.0° | 109.5° |
| C4A | C10 | N10 | 121.3° | 119.1° |
| C10 | C4A | N5 | 120.3° | 120.5° |
| C10 | N10 | C1' | 116.4° | 120.7° |
| C10 | N10 | C9A | 118.9° | 118.5° |
| O3' | P | O3P | 106.8° | 109.5° |
| O3' | P | O2P | 109.2° | 109.4° |
| C4A | N5 | C5A | 118.7° | 120.7° |
| C2' | C1' | N10 | 125.1° | 109.4° |
| C1' | C2' | O2' | 121.5° | 109.5° |
| C2' | C1' | H9 | 105.4° | 109.5° |
| C2' | C1' | H10 | 105.5° | 109.5° |
| C1' | C2' | H21 | 91.0° | 109.5° |
| C1' | N10 | C9A | 124.4° | 120.8° |
| N10 | C1' | H9 | 105.4° | 109.5° |
| N10 | C1' | H10 | 105.4° | 109.4° |
| O2' | C2' | H21 | 91.4° | 109.5° |
| C2' | O2' | H22 | 109.5° | 113.9° |
| O3P | P | O2P | 110.6° | 109.5° |
| P | O3P | H1 | 109.5° | 114.0° |
| P | O2P | H2 | 109.5° | 114.0° |
| N10 | C9A | C5A | 119.7° | 120.3° |
| N10 | C9A | C9 | 120.6° | 120.1° |
| N5 | C5A | C9A | 121.0° | 120.9° |
| N5 | C5A | C6 | 118.6° | 119.8° |
| C5A | C9A | C9 | 119.7° | 119.6° |
| C9A | C5A | C6 | 120.3° | 119.3° |
| C9A | C9 | C8 | 119.8° | 119.9° |
| C9A | C9 | H11 | 120.1° | 120.1° |
| C5A | C6 | C7 | 119.8° | 119.9° |
| C5A | C6 | H18 | 120.1° | 120.1° |
| C9 | C8 | C7 | 120.5° | 120.6° |
| C9 | C8 | C8M | 118.9° | 119.7° |
| C8 | C9 | H11 | 120.1° | 120.0° |
| C6 | C7 | C8 | 119.9° | 120.8° |
| C6 | C7 | C7M | 118.9° | 119.6° |
| C7 | C6 | H18 | 120.1° | 120.0° |
| C7 | C8 | C8M | 120.6° | 119.7° |
| C8 | C7 | C7M | 121.2° | 119.6° |
| C8 | C8M | H12 | 109.5° | 109.4° |
| C8 | C8M | H13 | 109.4° | 109.5° |
| C8 | C8M | H14 | 109.5° | 109.5° |
| C7 | C7M | H15 | 109.5° | 109.5° |
| C7 | C7M | H16 | 109.5° | 109.4° |
| C7 | C7M | H17 | 109.5° | 109.4° |
| H4 | C5' | H5 | 109.5° | 109.5° |
| H9 | C1' | H10 | 109.5° | 109.5° |
| H12 | C8M | H13 | 109.5° | 109.5° |
| H12 | C8M | H14 | 109.5° | 109.5° |
| H13 | C8M | H14 | 109.5° | 109.5° |
| H15 | C7M | H16 | 109.5° | 109.5° |
| H15 | C7M | H17 | 109.5° | 109.5° |
| H16 | C7M | H17 | 109.5° | 109.5° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O5' | C5' | C4' | H4 | 120.0° | 120.0° |
| O5' | C5' | C4' | H5 | 120.0° | 119.9° |
| O5' | C5' | C4' | O4' | 51.7° | 65.0° |
| O5' | C5' | C4' | C3' | 174.6° | 55.1° |
| O5' | C5' | H4 | H5 | 120.0° | 120.0° |
| O5' | C5' | C4' | H6 | 68.4° | 175.0° |
| O2 | C2 | N3 | N1 | 179.8° | 179.3° |
| O2 | C2 | N3 | C4 | 179.9° | 180.0° |
| O2 | C2 | N1 | C10 | 179.9° | 179.8° |
| O2 | C2 | N3 | H20 | 0.0° | 0.4° |
| C5' | C4' | O4' | C3' | 120.0° | 120.0° |
| C5' | C4' | O4' | H6 | 119.1° | 120.0° |
| C5' | C4' | C3' | H6 | 117.1° | 119.9° |
| C5' | C4' | C3' | O3' | 77.2° | 57.3° |
| C5' | C4' | C3' | C2' | 166.2° | 177.3° |
| C4' | C5' | O5' | H3 | 180.0° | 180.0° |
| C4' | C5' | H4 | H5 | 120.0° | 120.0° |
| C5' | C4' | O4' | H7 | 180.0° | 172.0° |
| C5' | C4' | C3' | H8 | 43.3° | 62.8° |
| O4' | C4' | C3' | H6 | 122.0° | 120.0° |
| O4' | C4' | C3' | O3' | 161.9° | 177.3° |
| O4' | C4' | C3' | C2' | 45.2° | 62.7° |
| O4' | C4' | C5' | H4 | 68.3° | 175.0° |
| O4' | C4' | C5' | H5 | 171.7° | 55.0° |
| O4' | C4' | C3' | H8 | 77.6° | 57.3° |
| C2 | N3 | C4 | H20 | 180.0° | 179.6° |
| N3 | C2 | N1 | C10 | 0.2° | 0.5° |
| C2 | N3 | C4 | O4 | 179.3° | 179.5° |
| C2 | N3 | C4 | C4A | 0.1° | 0.4° |
| N1 | C2 | N3 | C4 | 0.1° | 0.7° |
| C2 | N1 | C10 | C4A | 0.1° | 0.0° |
| C2 | N1 | C10 | N10 | 178.4° | 179.8° |
| N1 | C2 | N3 | H20 | 179.9° | 179.7° |
| N3 | C4 | O4 | C4A | 179.4° | 179.9° |
| N3 | C4 | C4A | C10 | 0.2° | 0.0° |
| N3 | C4 | C4A | N5 | 179.8° | 179.9° |
| C4' | C3' | O3' | C2' | 121.5° | 120.0° |
| C4' | C3' | O3' | H8 | 119.2° | 120.0° |
| C4' | C3' | C2' | H8 | 122.8° | 119.9° |
| C4' | C3' | O3' | P | 126.4° | 120.0° |
| C4' | C3' | C2' | C1' | 34.7° | 174.1° |
| C4' | C3' | C2' | O2' | 149.2° | 65.9° |
| C3' | C4' | C5' | H4 | 54.5° | 65.0° |
| C3' | C4' | C5' | H5 | 65.5° | 175.0° |
| C3' | C4' | O4' | H7 | 60.1° | 68.0° |
| C4' | C3' | C2' | H21 | 57.0° | 54.1° |
| N1 | C10 | C4A | C4 | 0.1° | 0.2° |
| N1 | C10 | C4A | N10 | 178.5° | 179.8° |
| N1 | C10 | C4A | N5 | 179.9° | 179.7° |
| N1 | C10 | N10 | C1' | 4.7° | 0.2° |
| N1 | C10 | N10 | C9A | 179.0° | 179.7° |
| O4 | C4 | C4A | C10 | 179.2° | 179.9° |
| O4 | C4 | C4A | N5 | 0.8° | 0.0° |
| O4 | C4 | N3 | H20 | 0.7° | 0.1° |
| C4 | C4A | C10 | N5 | 180.0° | 179.9° |
| C4 | C4A | C10 | N10 | 178.6° | 180.0° |
| C4 | C4A | N5 | C5A | 179.5° | 180.0° |
| C4A | C4 | N3 | H20 | 179.9° | 180.0° |
| O3' | C3' | C2' | H8 | 120.6° | 120.1° |
| C3' | O3' | P | O1P | 47.8° | 55.0° |
| O3' | C3' | C2' | C1' | 81.8° | 54.1° |
| O3' | C3' | C2' | O2' | 94.2° | 174.1° |
| C3' | O3' | P | O3P | 166.9° | 65.1° |
| C3' | O3' | P | O2P | 73.4° | 175.0° |
| O3' | C3' | C4' | H6 | 39.9° | 62.6° |
| O3' | C3' | C2' | H21 | 173.6° | 65.9° |
| C2' | C3' | O3' | P | 112.1° | 120.0° |
| C3' | C2' | C1' | O2' | 176.0° | 120.0° |
| C3' | C2' | C1' | H21 | 91.7° | 120.0° |
| C3' | C2' | C1' | N10 | 163.4° | 180.0° |
| C3' | C2' | O2' | H21 | 92.0° | 120.0° |
| C2' | C3' | C4' | H6 | 76.8° | 57.4° |
| C3' | C2' | C1' | H9 | 74.4° | 60.0° |
| C3' | C2' | C1' | H10 | 41.3° | 60.1° |
| C3' | C2' | O2' | H22 | 180.0° | 60.0° |
| O1P | P | O3' | O3P | 119.1° | 120.0° |
| O1P | P | O3' | O2P | 121.3° | 120.0° |
| O1P | P | O3P | O2P | 121.3° | 120.0° |
| O1P | P | O3P | H1 | 0.0° | 180.0° |
| O1P | P | O2P | H2 | 0.0° | 60.0° |
| C4A | C10 | N10 | C1' | 176.8° | 180.0° |
| C4A | C10 | N10 | C9A | 2.5° | 0.1° |
| C10 | C4A | N5 | C5A | 0.5° | 0.1° |
| N10 | C10 | C4A | N5 | 1.4° | 0.1° |
| C10 | N10 | C1' | C2' | 113.0° | 90.0° |
| C10 | N10 | C1' | C9A | 173.9° | 179.9° |
| C10 | N10 | C9A | C5A | 2.8° | 0.0° |
| C10 | N10 | C9A | C9 | 178.7° | 180.0° |
| C10 | N10 | C1' | H9 | 124.9° | 30.0° |
| C10 | N10 | C1' | H10 | 9.1° | 150.0° |
| O3' | P | O3P | O2P | 118.7° | 119.9° |
| O3' | P | O3P | H1 | 119.9° | 60.0° |
| O3' | P | O2P | H2 | 121.8° | 180.0° |
| P | O3' | C3' | H8 | 7.2° | 0.0° |
| C4A | N5 | C5A | C9A | 0.8° | 0.1° |
| C4A | N5 | C5A | C6 | 179.6° | 179.9° |
| C2' | C1' | N10 | H9 | 122.1° | 120.0° |
| C2' | C1' | N10 | H10 | 122.1° | 120.0° |
| C1' | C2' | O2' | H21 | 92.1° | 120.1° |
| C2' | C1' | N10 | C9A | 73.1° | 89.9° |
| C1' | C2' | C3' | H8 | 157.6° | 66.0° |
| C2' | C1' | H9 | H10 | 113.0° | 120.1° |
| C1' | C2' | O2' | H22 | 4.1° | 60.0° |
| N10 | C1' | C2' | O2' | 20.5° | 60.0° |
| C1' | N10 | C9A | C5A | 176.5° | 180.0° |
| C1' | N10 | C9A | C9 | 5.0° | 0.0° |
| N10 | C1' | H9 | H10 | 113.0° | 119.9° |
| N10 | C1' | C2' | H21 | 71.7° | 60.0° |
| O2' | C2' | C3' | H8 | 26.4° | 54.0° |
| O2' | C2' | C1' | H9 | 101.6° | 60.0° |
| O2' | C2' | C1' | H10 | 142.6° | 179.9° |
| O3P | P | O2P | H2 | 120.9° | 60.0° |
| O2P | P | O3P | H1 | 121.3° | 60.0° |
| N10 | C9A | C5A | N5 | 2.0° | 0.0° |
| N10 | C9A | C5A | C9 | 178.5° | 180.0° |
| N10 | C9A | C5A | C6 | 179.3° | 180.0° |
| N10 | C9A | C9 | C8 | 178.7° | 180.0° |
| C9A | N10 | C1' | H9 | 49.0° | 150.1° |
| C9A | N10 | C1' | H10 | 164.8° | 30.0° |
| N10 | C9A | C9 | H11 | 1.3° | 0.0° |
| N5 | C5A | C9A | C6 | 178.7° | 180.0° |
| N5 | C5A | C9A | C9 | 179.5° | 180.0° |
| N5 | C5A | C6 | C7 | 179.8° | 180.0° |
| N5 | C5A | C6 | H18 | 0.2° | 0.1° |
| C5A | C9A | C9 | C8 | 0.2° | 0.0° |
| C9A | C5A | C6 | C7 | 1.0° | 0.0° |
| C5A | C9A | C9 | H11 | 179.8° | 180.0° |
| C9A | C5A | C6 | H18 | 179.0° | 180.0° |
| C9 | C9A | C5A | C6 | 0.8° | 0.0° |
| C9A | C9 | C8 | H11 | 180.0° | 179.9° |
| C9A | C9 | C8 | C7 | 0.1° | 0.0° |
| C9A | C9 | C8 | C8M | 179.6° | 180.0° |
| C5A | C6 | C7 | H18 | 180.0° | 180.0° |
| C5A | C6 | C7 | C8 | 0.7° | 0.0° |
| C5A | C6 | C7 | C7M | 179.8° | 180.0° |
| C9 | C8 | C7 | C6 | 0.1° | 0.0° |
| C9 | C8 | C7 | C8M | 179.5° | 179.9° |
| C9 | C8 | C7 | C7M | 179.7° | 179.9° |
| C9 | C8 | C8M | H12 | 89.8° | 90.0° |
| C9 | C8 | C8M | H13 | 150.2° | 150.0° |
| C9 | C8 | C8M | H14 | 30.2° | 30.0° |
| C6 | C7 | C8 | C7M | 179.5° | 180.0° |
| C6 | C7 | C8 | C8M | 179.3° | 180.0° |
| C6 | C7 | C7M | H15 | 90.2° | 90.0° |
| C6 | C7 | C7M | H16 | 149.8° | 30.1° |
| C6 | C7 | C7M | H17 | 29.8° | 150.0° |
| C7 | C8 | C9 | H11 | 179.9° | 180.0° |
| C7 | C8 | C8M | H12 | 89.7° | 90.0° |
| C7 | C8 | C8M | H13 | 30.2° | 30.0° |
| C7 | C8 | C8M | H14 | 150.3° | 150.1° |
| C8 | C7 | C7M | H15 | 90.3° | 90.0° |
| C8 | C7 | C7M | H16 | 29.7° | 149.9° |
| C8 | C7 | C7M | H17 | 149.7° | 30.0° |
| C8 | C7 | C6 | H18 | 179.3° | 179.9° |
| C8M | C8 | C7 | C7M | 0.2° | 0.0° |
| C8M | C8 | C9 | H11 | 0.4° | 0.1° |
| C8 | C8M | H12 | H13 | 120.0° | 120.0° |
| C8 | C8M | H12 | H14 | 120.0° | 120.0° |
| C8 | C8M | H13 | H14 | 120.0° | 120.0° |
| C7 | C7M | H15 | H16 | 120.0° | 120.0° |
| C7 | C7M | H15 | H17 | 120.0° | 120.0° |
| C7 | C7M | H16 | H17 | 120.0° | 119.9° |
| C7M | C7 | C6 | H18 | 0.2° | 0.1° |
| H3 | O5' | C5' | H4 | 60.0° | 60.0° |
| H3 | O5' | C5' | H5 | 60.0° | 60.1° |
| H4 | C5' | C4' | H6 | 171.5° | 55.0° |
| H5 | C5' | C4' | H6 | 51.5° | 65.0° |
| H6 | C4' | O4' | H7 | 60.9° | 52.0° |
| H6 | C4' | C3' | H8 | 160.4° | 177.3° |
| H8 | C3' | C2' | H21 | 65.8° | 174.0° |
| H9 | C1' | C2' | H21 | 166.2° | 180.0° |
| H10 | C1' | C2' | H21 | 50.4° | 59.9° |
| H12 | C8M | H13 | H14 | 120.0° | 120.0° |
| H15 | C7M | H16 | H17 | 120.0° | 120.1° |
| H21 | C2' | O2' | H22 | 88.0° | 180.0° |
