OGX
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| P | OP2 | doub | 1.48Å | 1.59Å | |
| O5' | P | sing | 1.61Å | 1.61Å | |
| P | N4 | sing | 1.68Å | 1.61Å | |
| P | OP1 | sing | 1.61Å | 1.48Å | |
| S | C8' | sing | 1.81Å | 1.83Å | |
| S | HS | sing | 1.34Å | 1.30Å | |
| C6 | N1 | sing | 1.35Å | 1.39Å | |
| N1 | C2 | sing | 1.36Å | 1.38Å | |
| N1 | HN1 | sing | 0.97Å | 1.00Å | |
| N3 | C2 | doub | 1.32Å | 1.33Å | |
| C2 | N2 | sing | 1.37Å | 1.35Å | |
| N2 | HN2 | sing | 0.97Å | 1.00Å | |
| N2 | HN2A | sing | 0.97Å | 1.00Å | |
| C4 | N3 | sing | 1.34Å | 1.36Å | |
| N9 | C4 | sing | 1.38Å | 1.38Å | |
| C5 | C4 | doub | 1.39Å | 1.37Å | |
| N4 | C7' | sing | 1.47Å | 1.46Å | |
| N4 | HN4 | sing | 1.01Å | 1.00Å | |
| N7 | C5 | sing | 1.40Å | 1.39Å | |
| C5 | C6 | sing | 1.40Å | 1.42Å | |
| O6 | C6 | doub | 1.22Å | 1.23Å | |
| C8 | N7 | sing | 1.35Å | 1.31Å | |
| N7 | HN7 | sing | 0.97Å | 1.00Å | |
| O8 | C8 | doub | 1.22Å | 1.23Å | |
| C8 | N9 | sing | 1.35Å | 1.38Å | |
| N9 | C1' | sing | 1.46Å | 1.46Å | |
| C1' | C2' | sing | 1.54Å | 1.52Å | |
| C1' | O4' | sing | 1.44Å | 1.45Å | |
| C1' | H1' | sing | 1.09Å | 1.10Å | |
| C2' | C3' | sing | 1.55Å | 1.53Å | |
| C2' | H2' | sing | 1.09Å | 1.10Å | |
| C2' | H2'A | sing | 1.09Å | 1.10Å | |
| O3' | C3' | sing | 1.43Å | 1.45Å | |
| C3' | C4' | sing | 1.55Å | 1.52Å | |
| C3' | H3' | sing | 1.09Å | 1.10Å | |
| O3' | HO3' | sing | 0.97Å | 0.95Å | |
| O4' | C4' | sing | 1.44Å | 1.45Å | |
| C4' | C5' | sing | 1.53Å | 1.53Å | |
| C4' | H4' | sing | 1.09Å | 1.10Å | |
| C5' | O5' | sing | 1.43Å | 1.40Å | |
| C5' | H5' | sing | 1.09Å | 1.10Å | |
| C5' | H5'A | sing | 1.09Å | 1.10Å | |
| C8' | C7' | sing | 1.53Å | 1.52Å | |
| C7' | H7' | sing | 1.09Å | 1.10Å | |
| C7' | H7'A | sing | 1.09Å | 1.10Å | |
| C8' | H8' | sing | 1.09Å | 1.10Å | |
| C8' | H8'A | sing | 1.09Å | 1.10Å | |
| OP1 | HOP1 | sing | 0.97Å | 0.95Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| OP2 | P | O5' | 107.2° | 109.4° |
| OP2 | P | N4 | 117.8° | 109.5° |
| OP2 | P | OP1 | 105.8° | 109.5° |
| O5' | P | N4 | 101.4° | 109.5° |
| O5' | P | OP1 | 109.6° | 109.4° |
| P | O5' | C5' | 122.0° | 123.0° |
| N4 | P | OP1 | 114.8° | 109.5° |
| P | N4 | C7' | 120.7° | 111.0° |
| P | N4 | HN4 | 105.9° | 111.0° |
| P | OP1 | HOP1 | 109.5° | 114.1° |
| C8' | S | HS | 102.0° | 103.0° |
| S | C8' | C7' | 112.6° | 109.5° |
| S | C8' | H8' | 108.5° | 109.5° |
| S | C8' | H8'A | 108.4° | 109.5° |
| C6 | N1 | C2 | 124.6° | 120.1° |
| C6 | N1 | HN1 | 117.7° | 119.9° |
| N1 | C6 | C5 | 111.9° | 118.5° |
| N1 | C6 | O6 | 119.5° | 120.7° |
| C2 | N1 | HN1 | 117.7° | 120.0° |
| N1 | C2 | N3 | 123.1° | 121.7° |
| N1 | C2 | N2 | 117.5° | 119.1° |
| N3 | C2 | N2 | 119.4° | 119.1° |
| C2 | N3 | C4 | 113.5° | 121.1° |
| C2 | N2 | HN2 | 120.0° | 120.1° |
| C2 | N2 | HN2A | 120.0° | 120.0° |
| HN2 | N2 | HN2A | 120.0° | 119.9° |
| N3 | C4 | N9 | 126.8° | 133.5° |
| N3 | C4 | C5 | 126.8° | 119.5° |
| N9 | C4 | C5 | 106.3° | 107.0° |
| C4 | N9 | C8 | 108.2° | 108.7° |
| C4 | N9 | C1' | 128.5° | 125.6° |
| C4 | C5 | N7 | 107.7° | 107.0° |
| C4 | C5 | C6 | 120.0° | 119.0° |
| C7' | N4 | HN4 | 105.9° | 111.0° |
| N4 | C7' | C8' | 107.6° | 109.5° |
| N4 | C7' | H7' | 110.1° | 109.4° |
| N4 | C7' | H7'A | 110.1° | 109.5° |
| N7 | C5 | C6 | 132.3° | 134.0° |
| C5 | N7 | C8 | 109.1° | 107.8° |
| C5 | N7 | HN7 | 125.5° | 126.1° |
| C5 | C6 | O6 | 128.6° | 120.7° |
| C8 | N7 | HN7 | 125.5° | 126.0° |
| N7 | C8 | O8 | 128.0° | 125.3° |
| N7 | C8 | N9 | 108.8° | 109.5° |
| O8 | C8 | N9 | 123.2° | 125.2° |
| C8 | N9 | C1' | 123.1° | 125.6° |
| N9 | C1' | C2' | 124.8° | 109.9° |
| N9 | C1' | O4' | 94.4° | 109.9° |
| N9 | C1' | H1' | 107.9° | 109.9° |
| C2' | C1' | O4' | 101.5° | 107.3° |
| C2' | C1' | H1' | 101.6° | 109.9° |
| C1' | C2' | C3' | 100.1° | 104.2° |
| C1' | C2' | H2' | 112.7° | 110.5° |
| C1' | C2' | H2'A | 112.7° | 110.5° |
| O4' | C1' | H1' | 129.3° | 110.0° |
| C1' | O4' | C4' | 110.5° | 106.9° |
| C3' | C2' | H2' | 112.7° | 110.5° |
| C3' | C2' | H2'A | 112.8° | 110.5° |
| C2' | C3' | O3' | 111.0° | 110.9° |
| C2' | C3' | C4' | 99.2° | 102.1° |
| C2' | C3' | H3' | 115.9° | 110.9° |
| H2' | C2' | H2'A | 106.0° | 110.5° |
| O3' | C3' | C4' | 111.9° | 110.9° |
| O3' | C3' | H3' | 104.1° | 110.8° |
| C3' | O3' | HO3' | 109.5° | 113.9° |
| C4' | C3' | H3' | 115.0° | 110.9° |
| C3' | C4' | O4' | 103.8° | 103.5° |
| C3' | C4' | C5' | 113.1° | 110.6° |
| C3' | C4' | H4' | 111.8° | 110.6° |
| O4' | C4' | C5' | 111.8° | 110.6° |
| O4' | C4' | H4' | 113.0° | 110.8° |
| C5' | C4' | H4' | 103.7° | 110.5° |
| C4' | C5' | O5' | 108.3° | 109.5° |
| C4' | C5' | H5' | 109.9° | 109.5° |
| C4' | C5' | H5'A | 109.9° | 109.5° |
| O5' | C5' | H5' | 109.9° | 109.4° |
| O5' | C5' | H5'A | 109.9° | 109.4° |
| H5' | C5' | H5'A | 109.1° | 109.5° |
| C8' | C7' | H7' | 110.1° | 109.5° |
| C8' | C7' | H7'A | 110.1° | 109.5° |
| C7' | C8' | H8' | 108.4° | 109.5° |
| C7' | C8' | H8'A | 108.5° | 109.4° |
| H7' | C7' | H7'A | 108.8° | 109.5° |
| H8' | C8' | H8'A | 110.5° | 109.5° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| OP2 | P | O5' | N4 | 124.0° | 120.0° |
| OP2 | P | O5' | OP1 | 114.3° | 120.0° |
| OP2 | P | N4 | OP1 | 125.5° | 120.0° |
| OP2 | P | N4 | C7' | 95.3° | 180.0° |
| OP2 | P | N4 | HN4 | 144.7° | 56.0° |
| OP2 | P | O5' | C5' | 52.1° | 50.0° |
| OP2 | P | OP1 | HOP1 | 0.0° | 180.0° |
| O5' | P | N4 | OP1 | 118.0° | 120.0° |
| O5' | P | N4 | C7' | 148.2° | 60.0° |
| O5' | P | N4 | HN4 | 28.2° | 64.0° |
| P | O5' | C5' | C4' | 177.0° | 180.0° |
| P | O5' | C5' | H5' | 63.0° | 60.0° |
| P | O5' | C5' | H5'A | 57.0° | 60.1° |
| O5' | P | OP1 | HOP1 | 115.2° | 60.0° |
| P | N4 | C7' | HN4 | 120.0° | 124.0° |
| N4 | P | O5' | C5' | 176.1° | 70.0° |
| P | N4 | C7' | C8' | 115.4° | 135.0° |
| P | N4 | C7' | H7' | 124.6° | 105.0° |
| P | N4 | C7' | H7'A | 4.6° | 15.0° |
| N4 | P | OP1 | HOP1 | 131.5° | 60.0° |
| OP1 | P | N4 | C7' | 30.2° | 60.0° |
| OP1 | P | N4 | HN4 | 89.8° | 176.1° |
| OP1 | P | O5' | C5' | 62.2° | 170.0° |
| S | C8' | C7' | N4 | 25.3° | 180.0° |
| S | C8' | C7' | H8' | 120.0° | 120.0° |
| S | C8' | C7' | H8'A | 120.0° | 120.0° |
| S | C8' | C7' | H7' | 94.7° | 60.0° |
| S | C8' | C7' | H7'A | 145.3° | 60.0° |
| S | C8' | H8' | H8'A | 118.7° | 120.1° |
| HS | S | C8' | C7' | 180.0° | 180.0° |
| HS | S | C8' | H8' | 60.0° | 60.0° |
| HS | S | C8' | H8'A | 60.0° | 60.0° |
| C6 | N1 | C2 | HN1 | 180.0° | 179.8° |
| C6 | N1 | C2 | N3 | 0.0° | 0.2° |
| C6 | N1 | C2 | N2 | 179.9° | 179.7° |
| N1 | C6 | C5 | C4 | 1.8° | 0.5° |
| N1 | C6 | C5 | N7 | 179.7° | 179.9° |
| N1 | C6 | C5 | O6 | 179.7° | 179.5° |
| N1 | C2 | N3 | N2 | 179.8° | 179.9° |
| N1 | C2 | N2 | HN2 | 179.9° | 0.1° |
| N1 | C2 | N2 | HN2A | 0.2° | 180.0° |
| N1 | C2 | N3 | C4 | 0.2° | 0.1° |
| C2 | N1 | C6 | C5 | 1.0° | 0.5° |
| C2 | N1 | C6 | O6 | 179.3° | 180.0° |
| HN1 | N1 | C2 | N3 | 180.0° | 180.0° |
| HN1 | N1 | C2 | N2 | 0.1° | 0.0° |
| HN1 | N1 | C6 | C5 | 179.0° | 179.8° |
| HN1 | N1 | C6 | O6 | 0.7° | 0.2° |
| N3 | C2 | N2 | HN2 | 0.0° | 180.0° |
| N3 | C2 | N2 | HN2A | 180.0° | 0.1° |
| C2 | N3 | C4 | N9 | 179.0° | 180.0° |
| C2 | N3 | C4 | C5 | 0.7° | 0.1° |
| C2 | N2 | HN2 | HN2A | 179.9° | 179.9° |
| N2 | C2 | N3 | C4 | 179.9° | 180.0° |
| N3 | C4 | N9 | C5 | 178.5° | 179.9° |
| N3 | C4 | C5 | N7 | 179.3° | 179.9° |
| N3 | C4 | C5 | C6 | 1.9° | 0.2° |
| N3 | C4 | N9 | C8 | 179.2° | 179.9° |
| N3 | C4 | N9 | C1' | 5.1° | 0.1° |
| N9 | C4 | C5 | N7 | 0.8° | 0.0° |
| N9 | C4 | C5 | C6 | 179.6° | 179.7° |
| C4 | N9 | C8 | N7 | 0.3° | 0.0° |
| C4 | N9 | C8 | O8 | 179.8° | 179.9° |
| C4 | N9 | C8 | C1' | 176.0° | 180.0° |
| C4 | N9 | C1' | C2' | 10.9° | 115.0° |
| C4 | N9 | C1' | O4' | 96.3° | 127.2° |
| C4 | N9 | C1' | H1' | 129.8° | 6.1° |
| C4 | C5 | N7 | C6 | 178.6° | 179.7° |
| C4 | C5 | C6 | O6 | 178.5° | 180.0° |
| C4 | C5 | N7 | C8 | 0.6° | 0.0° |
| C4 | C5 | N7 | HN7 | 179.3° | 180.0° |
| C5 | C4 | N9 | C8 | 0.7° | 0.0° |
| C5 | C4 | N9 | C1' | 176.4° | 180.0° |
| N4 | C7' | C8' | H7' | 120.0° | 120.0° |
| N4 | C7' | C8' | H7'A | 120.0° | 120.0° |
| N4 | C7' | H7' | H7'A | 120.8° | 120.0° |
| N4 | C7' | C8' | H8' | 94.7° | 60.0° |
| N4 | C7' | C8' | H8'A | 145.3° | 60.0° |
| HN4 | N4 | C7' | C8' | 4.6° | 11.1° |
| HN4 | N4 | C7' | H7' | 115.4° | 131.0° |
| HN4 | N4 | C7' | H7'A | 124.6° | 109.0° |
| N7 | C5 | C6 | O6 | 0.0° | 0.4° |
| C5 | N7 | C8 | HN7 | 180.0° | 180.0° |
| C5 | N7 | C8 | O8 | 179.3° | 179.9° |
| C5 | N7 | C8 | N9 | 0.2° | 0.0° |
| C6 | C5 | N7 | C8 | 179.2° | 179.7° |
| C6 | C5 | N7 | HN7 | 0.7° | 0.4° |
| N7 | C8 | O8 | N9 | 179.4° | 179.9° |
| N7 | C8 | N9 | C1' | 176.3° | 180.0° |
| HN7 | N7 | C8 | O8 | 0.8° | 0.0° |
| HN7 | N7 | C8 | N9 | 179.8° | 180.0° |
| O8 | C8 | N9 | C1' | 4.2° | 0.1° |
| C8 | N9 | C1' | C2' | 173.9° | 65.0° |
| C8 | N9 | C1' | O4' | 78.8° | 52.8° |
| C8 | N9 | C1' | H1' | 55.1° | 173.9° |
| N9 | C1' | C2' | O4' | 103.7° | 119.4° |
| N9 | C1' | C2' | H1' | 121.7° | 121.1° |
| N9 | C1' | O4' | H1' | 117.5° | 121.1° |
| N9 | C1' | C2' | C3' | 147.0° | 121.5° |
| N9 | C1' | C2' | H2' | 93.0° | 119.9° |
| N9 | C1' | C2' | H2'A | 27.0° | 2.7° |
| N9 | C1' | O4' | C4' | 148.1° | 146.0° |
| C2' | C1' | O4' | H1' | 115.6° | 119.5° |
| C1' | C2' | C3' | H2' | 120.0° | 118.6° |
| C1' | C2' | C3' | H2'A | 120.0° | 118.7° |
| C1' | C2' | H2' | H2'A | 123.8° | 122.6° |
| C1' | C2' | C3' | O3' | 69.2° | 139.1° |
| C1' | C2' | C3' | C4' | 48.7° | 20.9° |
| C1' | C2' | C3' | H3' | 172.4° | 97.3° |
| C2' | C1' | O4' | C4' | 21.2° | 26.5° |
| O4' | C1' | C2' | C3' | 43.3° | 2.1° |
| O4' | C1' | C2' | H2' | 163.3° | 120.7° |
| O4' | C1' | C2' | H2'A | 76.7° | 116.7° |
| C1' | O4' | C4' | C3' | 9.6° | 40.1° |
| C1' | O4' | C4' | C5' | 112.5° | 158.6° |
| C1' | O4' | C4' | H4' | 130.9° | 78.5° |
| H1' | C1' | C2' | C3' | 91.3° | 117.5° |
| H1' | C1' | C2' | H2' | 28.7° | 1.2° |
| H1' | C1' | C2' | H2'A | 148.7° | 123.8° |
| H1' | C1' | O4' | C4' | 94.4° | 93.0° |
| C3' | C2' | H2' | H2'A | 123.8° | 122.7° |
| C2' | C3' | O3' | C4' | 109.9° | 112.7° |
| C2' | C3' | O3' | H3' | 125.3° | 123.6° |
| C2' | C3' | C4' | H3' | 124.3° | 118.2° |
| C2' | C3' | O3' | HO3' | 180.0° | 61.5° |
| C2' | C3' | C4' | O4' | 36.1° | 37.0° |
| C2' | C3' | C4' | C5' | 85.2° | 155.5° |
| C2' | C3' | C4' | H4' | 158.2° | 81.7° |
| H2' | C2' | C3' | O3' | 50.8° | 20.4° |
| H2' | C2' | C3' | C4' | 168.6° | 97.8° |
| H2' | C2' | C3' | H3' | 67.6° | 144.0° |
| H2'A | C2' | C3' | O3' | 170.8° | 102.2° |
| H2'A | C2' | C3' | C4' | 71.4° | 139.5° |
| H2'A | C2' | C3' | H3' | 52.4° | 21.3° |
| O3' | C3' | C4' | H3' | 118.5° | 123.5° |
| O3' | C3' | C4' | O4' | 81.1° | 155.3° |
| O3' | C3' | C4' | C5' | 157.6° | 86.2° |
| O3' | C3' | C4' | H4' | 41.0° | 36.6° |
| C4' | C3' | O3' | HO3' | 70.1° | 174.2° |
| C3' | C4' | O4' | C5' | 122.2° | 118.5° |
| C3' | C4' | O4' | H4' | 121.3° | 118.6° |
| C3' | C4' | C5' | H4' | 121.2° | 122.9° |
| C3' | C4' | C5' | O5' | 60.1° | 175.0° |
| C3' | C4' | C5' | H5' | 59.9° | 55.0° |
| C3' | C4' | C5' | H5'A | 179.9° | 65.1° |
| H3' | C3' | O3' | HO3' | 54.7° | 62.2° |
| H3' | C3' | C4' | O4' | 160.4° | 81.2° |
| H3' | C3' | C4' | C5' | 39.1° | 37.3° |
| H3' | C3' | C4' | H4' | 77.5° | 160.1° |
| O4' | C4' | C5' | H4' | 122.1° | 123.0° |
| O4' | C4' | C5' | O5' | 176.8° | 70.9° |
| O4' | C4' | C5' | H5' | 56.8° | 169.1° |
| O4' | C4' | C5' | H5'A | 63.2° | 49.0° |
| C4' | C5' | O5' | H5' | 120.0° | 120.0° |
| C4' | C5' | O5' | H5'A | 120.0° | 120.0° |
| C4' | C5' | H5' | H5'A | 120.5° | 120.0° |
| H4' | C4' | C5' | O5' | 61.1° | 52.1° |
| H4' | C4' | C5' | H5' | 178.9° | 67.9° |
| H4' | C4' | C5' | H5'A | 58.9° | 172.1° |
| O5' | C5' | H5' | H5'A | 120.5° | 120.0° |
| C8' | C7' | H7' | H7'A | 120.8° | 120.0° |
| C7' | C8' | H8' | H8'A | 118.7° | 120.0° |
| H7' | C7' | C8' | H8' | 145.3° | 60.0° |
| H7' | C7' | C8' | H8'A | 25.3° | 180.0° |
| H7'A | C7' | C8' | H8' | 25.3° | 180.0° |
| H7'A | C7' | C8' | H8'A | 94.7° | 60.0° |
