XY7
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| OP1 | P | sing | 1.61Å | 1.48Å | |
| O4 | C4 | doub | 1.22Å | 1.21Å | |
| P | OP2 | sing | 1.61Å | 1.47Å | |
| P | O5' | sing | 1.61Å | 1.58Å | |
| C5 | C4 | sing | 1.42Å | 1.41Å | |
| C5 | C6 | doub | 1.35Å | 1.37Å | |
| C4 | N3 | sing | 1.35Å | 1.38Å | |
| O5' | C5' | sing | 1.43Å | 1.42Å | |
| C6 | N1 | sing | 1.37Å | 1.41Å | |
| N3 | C2 | sing | 1.35Å | 1.38Å | |
| C5' | C4' | sing | 1.53Å | 1.54Å | |
| N1 | C2 | sing | 1.34Å | 1.37Å | |
| N1 | C1' | sing | 1.46Å | 1.47Å | |
| O3' | C3' | sing | 1.43Å | 1.43Å | |
| C3' | C4' | sing | 1.54Å | 1.54Å | |
| C3' | C2' | sing | 1.55Å | 1.54Å | |
| C2 | O2 | doub | 1.22Å | 1.22Å | |
| C4' | O4' | sing | 1.44Å | 1.46Å | |
| C2' | C1' | sing | 1.55Å | 1.49Å | |
| C2' | F2' | sing | 1.40Å | 1.35Å | |
| O4' | C1' | sing | 1.44Å | 1.45Å | |
| N3 | H1 | sing | 0.97Å | 1.00Å | |
| C6 | H2 | sing | 1.08Å | 1.08Å | |
| C5 | H3 | sing | 1.08Å | 1.08Å | |
| C1' | H4 | sing | 1.09Å | 1.10Å | |
| C2' | H5 | sing | 1.09Å | 1.10Å | |
| C3' | H6 | sing | 1.09Å | 1.10Å | |
| O3' | H7 | sing | 0.97Å | 0.95Å | |
| C4' | H8 | sing | 1.09Å | 1.10Å | |
| C5' | H9 | sing | 1.09Å | 1.10Å | |
| C5' | H10 | sing | 1.09Å | 1.10Å | |
| OP1 | H11 | sing | 0.97Å | 0.95Å | |
| OP2 | H12 | sing | 0.97Å | 0.95Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| OP1 | P | OP2 | 119.5° | 102.0° |
| OP1 | P | O5' | 104.9° | 102.0° |
| P | OP1 | H11 | 109.5° | 114.0° |
| O4 | C4 | C5 | 123.4° | 120.3° |
| O4 | C4 | N3 | 118.6° | 120.3° |
| OP2 | P | O5' | 109.6° | 102.0° |
| P | OP2 | H12 | 109.5° | 114.0° |
| P | O5' | C5' | 120.4° | 123.0° |
| C4 | C5 | C6 | 119.3° | 119.1° |
| C5 | C4 | N3 | 118.0° | 119.4° |
| C4 | C5 | H3 | 120.3° | 120.4° |
| C5 | C6 | N1 | 121.1° | 119.7° |
| C5 | C6 | H2 | 119.4° | 120.2° |
| C6 | C5 | H3 | 120.4° | 120.5° |
| C4 | N3 | C2 | 123.2° | 120.2° |
| C4 | N3 | H1 | 118.4° | 119.9° |
| O5' | C5' | C4' | 109.0° | 109.5° |
| O5' | C5' | H9 | 109.6° | 109.5° |
| O5' | C5' | H10 | 109.6° | 109.5° |
| C6 | N1 | C2 | 120.0° | 120.6° |
| C6 | N1 | C1' | 122.4° | 119.7° |
| N1 | C6 | H2 | 119.4° | 120.1° |
| N3 | C2 | N1 | 118.4° | 120.9° |
| N3 | C2 | O2 | 121.7° | 119.5° |
| C2 | N3 | H1 | 118.4° | 119.8° |
| C5' | C4' | C3' | 114.0° | 109.9° |
| C5' | C4' | O4' | 109.7° | 109.9° |
| C5' | C4' | H8 | 109.6° | 110.0° |
| C4' | C5' | H9 | 109.6° | 109.5° |
| C4' | C5' | H10 | 109.6° | 109.5° |
| C2 | N1 | C1' | 117.5° | 119.7° |
| N1 | C2 | O2 | 119.8° | 119.6° |
| N1 | C1' | C2' | 112.4° | 110.7° |
| N1 | C1' | O4' | 108.5° | 110.6° |
| N1 | C1' | H4 | 109.6° | 110.5° |
| O3' | C3' | C4' | 112.4° | 110.5° |
| O3' | C3' | C2' | 113.2° | 110.5° |
| O3' | C3' | H6 | 111.8° | 110.5° |
| C3' | O3' | H7 | 109.5° | 114.0° |
| C4' | C3' | C2' | 98.5° | 104.2° |
| C3' | C4' | O4' | 103.1° | 107.3° |
| C4' | C3' | H6 | 110.1° | 110.5° |
| C3' | C4' | H8 | 109.6° | 109.9° |
| C3' | C2' | C1' | 101.1° | 102.1° |
| C3' | C2' | F2' | 112.0° | 111.0° |
| C3' | C2' | H5 | 110.0° | 110.9° |
| C2' | C3' | H6 | 110.1° | 110.5° |
| C4' | O4' | C1' | 107.8° | 107.0° |
| O4' | C4' | H8 | 110.8° | 109.9° |
| C1' | C2' | F2' | 109.3° | 110.9° |
| C2' | C1' | O4' | 107.1° | 103.6° |
| C2' | C1' | H4 | 109.3° | 110.6° |
| C1' | C2' | H5 | 110.8° | 110.9° |
| F2' | C2' | H5 | 113.0° | 110.8° |
| O4' | C1' | H4 | 109.8° | 110.6° |
| H9 | C5' | H10 | 109.5° | 109.5° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| OP1 | P | OP2 | O5' | 121.1° | 105.2° |
| OP1 | P | O5' | C5' | 170.4° | 89.8° |
| OP1 | P | OP2 | H12 | 180.0° | 74.8° |
| O4 | C4 | C5 | N3 | 178.7° | 179.7° |
| O4 | C4 | C5 | C6 | 178.4° | 179.7° |
| O4 | C4 | N3 | C2 | 179.0° | 179.7° |
| O4 | C4 | N3 | H1 | 1.1° | 0.3° |
| O4 | C4 | C5 | H3 | 1.6° | 0.2° |
| OP2 | P | O5' | C5' | 40.8° | 165.0° |
| OP2 | P | OP1 | H11 | 180.0° | 180.0° |
| P | O5' | C5' | C4' | 177.7° | 180.0° |
| P | O5' | C5' | H9 | 62.4° | 60.0° |
| P | O5' | C5' | H10 | 57.7° | 60.0° |
| O5' | P | OP1 | H11 | 56.6° | 74.8° |
| O5' | P | OP2 | H12 | 58.9° | 180.0° |
| C4 | C5 | C6 | H3 | 180.0° | 180.0° |
| C4 | C5 | C6 | N1 | 0.9° | 0.0° |
| C5 | C4 | N3 | C2 | 0.2° | 0.0° |
| C5 | C4 | N3 | H1 | 179.8° | 179.9° |
| C4 | C5 | C6 | H2 | 179.0° | 180.0° |
| C6 | C5 | C4 | N3 | 0.3° | 0.0° |
| C5 | C6 | N1 | H2 | 180.0° | 180.0° |
| C5 | C6 | N1 | C2 | 1.2° | 0.0° |
| C5 | C6 | N1 | C1' | 177.6° | 180.0° |
| C4 | N3 | C2 | H1 | 180.0° | 179.9° |
| C4 | N3 | C2 | N1 | 0.0° | 0.0° |
| C4 | N3 | C2 | O2 | 176.0° | 180.0° |
| N3 | C4 | C5 | H3 | 179.7° | 180.0° |
| O5' | C5' | C4' | H9 | 119.9° | 120.0° |
| O5' | C5' | C4' | H10 | 119.9° | 120.0° |
| O5' | C5' | C4' | C3' | 48.3° | 175.0° |
| O5' | C5' | C4' | O4' | 66.7° | 67.2° |
| O5' | C5' | C4' | H8 | 171.5° | 53.9° |
| O5' | C5' | H9 | H10 | 120.2° | 120.0° |
| C6 | N1 | C2 | N3 | 0.7° | 0.0° |
| C6 | N1 | C2 | C1' | 176.6° | 179.9° |
| C6 | N1 | C2 | O2 | 176.8° | 180.0° |
| C6 | N1 | C1' | C2' | 102.6° | 62.2° |
| C6 | N1 | C1' | O4' | 15.7° | 176.4° |
| N1 | C6 | C5 | H3 | 179.0° | 180.0° |
| C6 | N1 | C1' | H4 | 135.6° | 60.7° |
| N3 | C2 | N1 | O2 | 176.1° | 180.0° |
| N3 | C2 | N1 | C1' | 177.3° | 180.0° |
| C5' | C4' | C3' | O3' | 78.7° | 119.9° |
| C5' | C4' | C3' | O4' | 118.8° | 119.4° |
| C5' | C4' | C3' | H8 | 123.2° | 121.1° |
| C5' | C4' | C3' | C2' | 161.8° | 121.5° |
| C5' | C4' | O4' | H8 | 121.1° | 121.1° |
| C5' | C4' | O4' | C1' | 146.8° | 145.8° |
| C5' | C4' | C3' | H6 | 46.6° | 2.7° |
| C4' | C5' | H9 | H10 | 120.2° | 120.0° |
| C2 | N1 | C1' | C2' | 80.9° | 117.8° |
| C2 | N1 | C1' | O4' | 160.8° | 3.5° |
| N1 | C2 | N3 | H1 | 179.9° | 179.9° |
| C2 | N1 | C6 | H2 | 178.8° | 180.0° |
| C2 | N1 | C1' | H4 | 40.9° | 119.3° |
| N1 | C1' | C2' | C3' | 87.6° | 155.5° |
| C1' | N1 | C2 | O2 | 6.7° | 0.1° |
| N1 | C1' | O4' | C4' | 117.4° | 158.6° |
| N1 | C1' | C2' | O4' | 119.1° | 118.6° |
| N1 | C1' | C2' | H4 | 121.9° | 122.9° |
| N1 | C1' | C2' | F2' | 154.2° | 86.2° |
| N1 | C1' | O4' | H4 | 119.8° | 122.8° |
| C1' | N1 | C6 | H2 | 2.4° | 0.0° |
| N1 | C1' | C2' | H5 | 29.0° | 37.3° |
| O3' | C3' | C4' | C2' | 119.5° | 118.7° |
| O3' | C3' | C4' | H6 | 125.3° | 122.6° |
| O3' | C3' | C2' | H6 | 126.0° | 122.6° |
| O3' | C3' | C4' | O4' | 162.5° | 120.7° |
| O3' | C3' | C2' | C1' | 163.7° | 97.9° |
| O3' | C3' | C2' | F2' | 47.4° | 20.3° |
| O3' | C3' | C2' | H5 | 79.2° | 143.9° |
| O3' | C3' | C4' | H8 | 44.5° | 1.3° |
| C4' | C3' | C2' | H6 | 115.1° | 118.7° |
| C3' | C4' | O4' | H8 | 117.1° | 119.5° |
| C4' | C3' | C2' | C1' | 44.8° | 20.8° |
| C4' | C3' | C2' | F2' | 71.5° | 139.0° |
| C3' | C4' | O4' | C1' | 25.1° | 26.4° |
| C4' | C3' | C2' | H5 | 161.9° | 97.4° |
| C4' | C3' | O3' | H7 | 180.0° | 180.0° |
| C3' | C4' | C5' | H9 | 168.2° | 65.0° |
| C3' | C4' | C5' | H10 | 71.6° | 55.0° |
| C2' | C3' | C4' | O4' | 43.0° | 2.1° |
| C3' | C2' | C1' | F2' | 118.2° | 118.3° |
| C3' | C2' | C1' | H5 | 116.6° | 118.2° |
| C3' | C2' | F2' | H5 | 124.9° | 123.7° |
| C3' | C2' | C1' | O4' | 31.5° | 36.9° |
| C3' | C2' | C1' | H4 | 150.5° | 81.6° |
| C2' | C3' | O3' | H7 | 69.4° | 65.2° |
| C2' | C3' | C4' | H8 | 75.0° | 117.4° |
| O2 | C2 | N3 | H1 | 4.0° | 0.0° |
| C4' | O4' | C1' | C2' | 4.2° | 39.9° |
| C4' | O4' | C1' | H4 | 122.8° | 78.6° |
| O4' | C4' | C3' | H6 | 72.2° | 116.7° |
| O4' | C4' | C5' | H9 | 53.2° | 52.8° |
| O4' | C4' | C5' | H10 | 173.4° | 172.8° |
| C1' | C2' | F2' | H5 | 123.9° | 123.6° |
| C2' | C1' | O4' | H4 | 118.7° | 118.6° |
| C1' | C2' | C3' | H6 | 70.4° | 139.5° |
| F2' | C2' | C1' | O4' | 86.7° | 155.2° |
| F2' | C2' | C1' | H4 | 32.3° | 36.6° |
| F2' | C2' | C3' | H6 | 173.3° | 102.3° |
| O4' | C1' | C2' | H5 | 148.1° | 81.3° |
| C1' | O4' | C4' | H8 | 92.1° | 93.0° |
| H2 | C6 | C5 | H3 | 1.0° | 0.0° |
| H4 | C1' | C2' | H5 | 92.9° | 160.1° |
| H5 | C2' | C3' | H6 | 46.8° | 21.3° |
| H6 | C3' | O3' | H7 | 55.7° | 57.4° |
| H6 | C3' | C4' | H8 | 169.8° | 123.9° |
| H8 | C4' | C5' | H9 | 68.6° | 173.9° |
| H8 | C4' | C5' | H10 | 51.5° | 66.1° |
