OKN
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| OP1 | P | doub | 1.48Å | 1.65Å | |
| P | S01 | sing | 2.12Å | 2.03Å | |
| P | O5' | sing | 1.61Å | 1.65Å | |
| O5' | C5' | sing | 1.43Å | 1.40Å | |
| C5' | C4' | sing | 1.53Å | 1.42Å | |
| C3' | C4' | sing | 1.55Å | 1.59Å | |
| C3' | O3' | sing | 1.43Å | 1.51Å | |
| C3' | C2' | sing | 1.55Å | 1.22Å | |
| C4' | O4' | sing | 1.45Å | 1.47Å | |
| C2' | C1' | sing | 1.54Å | 1.63Å | |
| CM5 | C5 | sing | 1.51Å | 1.52Å | |
| O4' | C1' | sing | 1.44Å | 1.31Å | |
| C6 | C5 | doub | 1.35Å | 1.38Å | |
| C6 | N1 | sing | 1.36Å | 1.32Å | |
| C1' | N1 | sing | 1.46Å | 1.43Å | |
| C5 | C4 | sing | 1.41Å | 1.38Å | |
| N1 | C2 | sing | 1.35Å | 1.33Å | |
| C4 | N4 | sing | 1.38Å | 1.45Å | |
| C4 | N3 | doub | 1.33Å | 1.32Å | |
| C2 | N3 | sing | 1.33Å | 1.33Å | |
| C2 | O2 | doub | 1.22Å | 1.18Å | |
| P | OP3 | sing | 1.61Å | 1.56Å | |
| C1' | H1 | sing | 1.09Å | 1.10Å | |
| C2' | H2 | sing | 1.09Å | 1.10Å | |
| C2' | H3 | sing | 1.09Å | 1.10Å | |
| C3' | H4 | sing | 1.09Å | 1.10Å | |
| C4' | H5 | sing | 1.09Å | 1.10Å | |
| C5' | H6 | sing | 1.09Å | 1.10Å | |
| C5' | H7 | sing | 1.09Å | 1.10Å | |
| C6 | H8 | sing | 1.08Å | 1.08Å | |
| CM5 | H9 | sing | 1.09Å | 1.10Å | |
| CM5 | H10 | sing | 1.09Å | 1.10Å | |
| CM5 | H11 | sing | 1.09Å | 1.10Å | |
| N4 | H12 | sing | 0.97Å | 1.00Å | |
| N4 | H13 | sing | 0.97Å | 1.00Å | |
| O3' | H14 | sing | 0.97Å | 0.95Å | |
| S01 | H15 | sing | 1.34Å | 1.30Å | |
| OP3 | HOP3 | sing | 0.97Å | 0.95Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| OP1 | P | S01 | 109.0° | 109.5° |
| OP1 | P | O5' | 108.5° | 109.5° |
| OP1 | P | OP3 | 92.2° | 109.5° |
| S01 | P | O5' | 109.9° | 109.5° |
| S01 | P | OP3 | 140.3° | 109.5° |
| P | S01 | H15 | 102.0° | 103.0° |
| P | O5' | C5' | 120.1° | 123.0° |
| O5' | P | OP3 | 93.6° | 109.5° |
| O5' | C5' | C4' | 106.7° | 109.5° |
| O5' | C5' | H6 | 110.1° | 109.5° |
| O5' | C5' | H7 | 110.2° | 109.5° |
| C5' | C4' | C3' | 110.3° | 110.6° |
| C5' | C4' | O4' | 111.5° | 110.5° |
| C5' | C4' | H5 | 110.9° | 110.7° |
| C4' | C5' | H6 | 110.2° | 109.4° |
| C4' | C5' | H7 | 110.1° | 109.4° |
| C4' | C3' | O3' | 108.5° | 110.9° |
| C4' | C3' | C2' | 104.7° | 102.1° |
| C3' | C4' | O4' | 105.1° | 103.6° |
| C4' | C3' | H4 | 108.8° | 110.8° |
| C3' | C4' | H5 | 108.6° | 110.6° |
| O3' | C3' | C2' | 109.8° | 111.0° |
| O3' | C3' | H4 | 109.8° | 110.9° |
| C3' | O3' | H14 | 109.5° | 114.0° |
| C3' | C2' | C1' | 105.0° | 104.2° |
| C3' | C2' | H2 | 110.6° | 110.4° |
| C3' | C2' | H3 | 110.6° | 110.6° |
| C2' | C3' | H4 | 114.9° | 110.9° |
| C4' | O4' | C1' | 106.5° | 106.9° |
| O4' | C4' | H5 | 110.3° | 110.6° |
| C2' | C1' | O4' | 106.2° | 107.4° |
| C2' | C1' | N1 | 110.7° | 109.9° |
| C2' | C1' | H1 | 107.9° | 109.9° |
| C1' | C2' | H2 | 110.6° | 110.5° |
| C1' | C2' | H3 | 110.6° | 110.6° |
| CM5 | C5 | C6 | 120.8° | 120.5° |
| CM5 | C5 | C4 | 121.5° | 120.5° |
| C5 | CM5 | H9 | 109.5° | 109.5° |
| C5 | CM5 | H10 | 109.5° | 109.5° |
| C5 | CM5 | H11 | 109.5° | 109.4° |
| O4' | C1' | N1 | 108.9° | 109.9° |
| O4' | C1' | H1 | 112.5° | 109.9° |
| C5 | C6 | N1 | 120.4° | 119.3° |
| C6 | C5 | C4 | 117.7° | 119.0° |
| C5 | C6 | H8 | 119.8° | 120.4° |
| C6 | N1 | C1' | 119.7° | 119.8° |
| C6 | N1 | C2 | 120.6° | 120.3° |
| N1 | C6 | H8 | 119.8° | 120.3° |
| C1' | N1 | C2 | 119.7° | 119.8° |
| N1 | C1' | H1 | 110.4° | 109.9° |
| C5 | C4 | N4 | 120.6° | 120.2° |
| C5 | C4 | N3 | 119.3° | 119.6° |
| N1 | C2 | N3 | 120.2° | 121.1° |
| N1 | C2 | O2 | 119.9° | 119.5° |
| N4 | C4 | N3 | 120.1° | 120.2° |
| C4 | N4 | H12 | 120.0° | 120.0° |
| C4 | N4 | H13 | 120.0° | 120.0° |
| C4 | N3 | C2 | 121.8° | 120.7° |
| N3 | C2 | O2 | 119.9° | 119.4° |
| P | OP3 | HOP3 | 109.5° | 114.0° |
| H2 | C2' | H3 | 109.5° | 110.4° |
| H6 | C5' | H7 | 109.5° | 109.5° |
| H9 | CM5 | H10 | 109.4° | 109.5° |
| H9 | CM5 | H11 | 109.5° | 109.5° |
| H10 | CM5 | H11 | 109.5° | 109.4° |
| H12 | N4 | H13 | 120.0° | 120.0° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| OP1 | P | S01 | O5' | 118.8° | 120.0° |
| OP1 | P | S01 | OP3 | 118.6° | 120.0° |
| OP1 | P | O5' | OP3 | 93.5° | 120.1° |
| OP1 | P | O5' | C5' | 134.3° | 55.0° |
| OP1 | P | S01 | H15 | 0.0° | 179.9° |
| OP1 | P | OP3 | HOP3 | 0.0° | 60.0° |
| S01 | P | O5' | OP3 | 147.4° | 120.0° |
| S01 | P | O5' | C5' | 15.2° | 65.0° |
| S01 | P | OP3 | HOP3 | 123.8° | 60.0° |
| P | O5' | C5' | C4' | 159.9° | 180.0° |
| P | O5' | C5' | H6 | 80.6° | 60.0° |
| P | O5' | C5' | H7 | 40.3° | 60.0° |
| O5' | P | S01 | H15 | 118.8° | 60.0° |
| O5' | P | OP3 | HOP3 | 108.7° | 180.0° |
| O5' | C5' | C4' | H6 | 119.6° | 120.0° |
| O5' | C5' | C4' | H7 | 119.6° | 120.0° |
| O5' | C5' | C4' | C3' | 58.9° | 175.0° |
| O5' | C5' | C4' | O4' | 175.2° | 70.9° |
| C5' | O5' | P | OP3 | 132.2° | 175.0° |
| O5' | C5' | C4' | H5 | 61.5° | 52.0° |
| O5' | C5' | H6 | H7 | 121.3° | 120.0° |
| C5' | C4' | C3' | O4' | 120.3° | 118.5° |
| C5' | C4' | C3' | H5 | 121.8° | 123.0° |
| C5' | C4' | C3' | O3' | 146.0° | 86.3° |
| C5' | C4' | C3' | C2' | 96.8° | 155.4° |
| C5' | C4' | O4' | H5 | 123.7° | 122.9° |
| C5' | C4' | O4' | C1' | 120.3° | 158.4° |
| C5' | C4' | C3' | H4 | 26.5° | 37.3° |
| C4' | C5' | H6 | H7 | 121.3° | 120.0° |
| C4' | C3' | O3' | C2' | 113.9° | 112.7° |
| C4' | C3' | O3' | H4 | 118.8° | 123.5° |
| C4' | C3' | C2' | H4 | 119.3° | 118.1° |
| C3' | C4' | O4' | H5 | 116.8° | 118.6° |
| C4' | C3' | C2' | C1' | 33.0° | 20.9° |
| C3' | C4' | O4' | C1' | 0.8° | 39.9° |
| C4' | C3' | C2' | H2 | 86.3° | 97.8° |
| C4' | C3' | C2' | H3 | 152.3° | 139.7° |
| C3' | C4' | C5' | H6 | 178.4° | 55.0° |
| C3' | C4' | C5' | H7 | 60.7° | 65.0° |
| C4' | C3' | O3' | H14 | 180.0° | 180.0° |
| O3' | C3' | C2' | H4 | 124.4° | 123.7° |
| O3' | C3' | C4' | O4' | 93.7° | 155.2° |
| O3' | C3' | C2' | C1' | 83.3° | 139.1° |
| O3' | C3' | C2' | H2 | 157.3° | 20.4° |
| O3' | C3' | C2' | H3 | 35.9° | 102.1° |
| O3' | C3' | C4' | H5 | 24.3° | 36.7° |
| C2' | C3' | C4' | O4' | 23.5° | 36.9° |
| C3' | C2' | C1' | H2 | 119.3° | 118.6° |
| C3' | C2' | C1' | H3 | 119.3° | 118.8° |
| C3' | C2' | C1' | O4' | 36.4° | 2.0° |
| C3' | C2' | C1' | N1 | 154.5° | 121.4° |
| C3' | C2' | C1' | H1 | 84.5° | 117.5° |
| C3' | C2' | H2 | H3 | 122.1° | 122.6° |
| C2' | C3' | C4' | H5 | 141.5° | 81.6° |
| C2' | C3' | O3' | H14 | 66.1° | 67.3° |
| C4' | O4' | C1' | C2' | 18.7° | 26.4° |
| C4' | O4' | C1' | N1 | 138.1° | 145.9° |
| C4' | O4' | C1' | H1 | 99.2° | 93.2° |
| O4' | C4' | C3' | H4 | 146.8° | 81.2° |
| O4' | C4' | C5' | H6 | 65.2° | 169.1° |
| O4' | C4' | C5' | H7 | 55.6° | 49.2° |
| C2' | C1' | O4' | N1 | 119.3° | 119.5° |
| C2' | C1' | O4' | H1 | 117.9° | 119.5° |
| C2' | C1' | N1 | C6 | 38.7° | 115.3° |
| C2' | C1' | N1 | H1 | 119.5° | 121.1° |
| C2' | C1' | N1 | C2 | 142.1° | 64.7° |
| C1' | C2' | H2 | H3 | 122.1° | 122.6° |
| C1' | C2' | C3' | H4 | 152.3° | 97.2° |
| CM5 | C5 | C6 | C4 | 180.0° | 179.5° |
| CM5 | C5 | C6 | N1 | 179.9° | 179.7° |
| CM5 | C5 | C4 | N4 | 0.0° | 0.0° |
| CM5 | C5 | C4 | N3 | 180.0° | 180.0° |
| CM5 | C5 | C6 | H8 | 0.1° | 0.5° |
| C5 | CM5 | H9 | H10 | 120.0° | 120.0° |
| C5 | CM5 | H9 | H11 | 120.0° | 120.0° |
| C5 | CM5 | H10 | H11 | 120.0° | 119.9° |
| O4' | C1' | N1 | C6 | 77.8° | 126.7° |
| O4' | C1' | N1 | H1 | 124.0° | 121.0° |
| O4' | C1' | N1 | C2 | 101.5° | 53.3° |
| O4' | C1' | C2' | H2 | 82.9° | 120.6° |
| O4' | C1' | C2' | H3 | 155.7° | 116.8° |
| C1' | O4' | C4' | H5 | 116.0° | 78.7° |
| C5 | C6 | N1 | H8 | 180.0° | 179.2° |
| C5 | C6 | N1 | C1' | 179.6° | 179.4° |
| C5 | C6 | N1 | C2 | 0.3° | 0.5° |
| C6 | C5 | C4 | N4 | 180.0° | 179.5° |
| C6 | C5 | C4 | N3 | 0.0° | 0.6° |
| C6 | C5 | CM5 | H9 | 180.0° | 179.4° |
| C6 | C5 | CM5 | H10 | 60.0° | 60.5° |
| C6 | C5 | CM5 | H11 | 60.0° | 59.4° |
| C6 | N1 | C1' | C2 | 179.2° | 180.0° |
| N1 | C6 | C5 | C4 | 0.2° | 0.8° |
| C6 | N1 | C2 | N3 | 0.4° | 0.0° |
| C6 | N1 | C2 | O2 | 179.8° | 179.8° |
| C6 | N1 | C1' | H1 | 158.2° | 5.8° |
| C1' | N1 | C2 | N3 | 179.6° | 180.0° |
| C1' | N1 | C2 | O2 | 0.6° | 0.3° |
| N1 | C1' | C2' | H2 | 35.2° | 119.9° |
| N1 | C1' | C2' | H3 | 86.2° | 2.6° |
| C1' | N1 | C6 | H8 | 0.5° | 0.2° |
| C5 | C4 | N4 | N3 | 180.0° | 180.0° |
| C5 | C4 | N3 | C2 | 0.1° | 0.0° |
| C4 | C5 | C6 | H8 | 179.8° | 180.0° |
| C4 | C5 | CM5 | H9 | 0.0° | 0.0° |
| C4 | C5 | CM5 | H10 | 120.0° | 120.0° |
| C4 | C5 | CM5 | H11 | 120.1° | 120.1° |
| C5 | C4 | N4 | H12 | 179.9° | 179.9° |
| C5 | C4 | N4 | H13 | 0.1° | 0.0° |
| N1 | C2 | N3 | C4 | 0.2° | 0.3° |
| N1 | C2 | N3 | O2 | 179.8° | 179.8° |
| C2 | N1 | C1' | H1 | 22.6° | 174.3° |
| C2 | N1 | C6 | H8 | 179.7° | 179.8° |
| N4 | C4 | N3 | C2 | 180.0° | 180.0° |
| C4 | N4 | H12 | H13 | 180.0° | 180.0° |
| C4 | N3 | C2 | O2 | 180.0° | 180.0° |
| N3 | C4 | N4 | H12 | 0.0° | 0.0° |
| N3 | C4 | N4 | H13 | 180.0° | 180.0° |
| OP3 | P | S01 | H15 | 118.6° | 60.0° |
| H1 | C1' | C2' | H2 | 156.2° | 1.1° |
| H1 | C1' | C2' | H3 | 34.8° | 123.7° |
| H2 | C2' | C3' | H4 | 33.0° | 144.1° |
| H3 | C2' | C3' | H4 | 88.5° | 21.6° |
| H4 | C3' | C4' | H5 | 95.2° | 160.3° |
| H4 | C3' | O3' | H14 | 61.2° | 56.5° |
| H5 | C4' | C5' | H6 | 58.1° | 68.0° |
| H5 | C4' | C5' | H7 | 178.9° | 172.0° |
| H9 | CM5 | H10 | H11 | 120.0° | 120.1° |
