TM2
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| P | O1P | doub | 1.48Å | 1.48Å | |
| P | O2P | sing | 1.61Å | 1.48Å | |
| P | O3P | sing | 1.61Å | 1.47Å | |
| P | O5' | sing | 1.61Å | 1.60Å | |
| O5' | C5' | sing | 1.43Å | 1.42Å | |
| C5' | C4' | sing | 1.53Å | 1.52Å | |
| C4' | O4' | sing | 1.44Å | 1.45Å | |
| C4' | C3' | sing | 1.54Å | 1.52Å | |
| O4' | C1' | sing | 1.44Å | 1.42Å | |
| C1' | N1 | sing | 1.47Å | 1.49Å | |
| C1' | C2' | sing | 1.55Å | 1.52Å | |
| N1 | C6 | sing | 1.37Å | 1.38Å | |
| N1 | C2 | sing | 1.35Å | 1.38Å | |
| C6 | C5 | doub | 1.35Å | 1.34Å | |
| C2 | O2 | doub | 1.22Å | 1.22Å | |
| C2 | N3 | sing | 1.35Å | 1.37Å | |
| N3 | C4 | sing | 1.35Å | 1.38Å | |
| C4 | O4 | doub | 1.22Å | 1.23Å | |
| C4 | C5 | sing | 1.42Å | 1.44Å | |
| C5 | C7 | sing | 1.51Å | 1.55Å | |
| C2' | O2' | sing | 1.43Å | 1.41Å | |
| C2' | C3' | sing | 1.55Å | 1.53Å | |
| C3' | O3' | sing | 1.43Å | 1.42Å | |
| C7 | N8 | sing | 1.47Å | 1.59Å | |
| N8 | C9 | sing | 1.47Å | 1.53Å | |
| C9 | C11 | sing | 1.53Å | 1.53Å | |
| C11 | S12 | sing | 1.81Å | 1.85Å | |
| S12 | O1S | doub | 1.42Å | 1.47Å | |
| S12 | O2S | doub | 1.42Å | 1.48Å | |
| S12 | O3S | sing | 1.52Å | 1.47Å | |
| O3S | H3S | sing | 0.97Å | 0.95Å | |
| O2P | H2P | sing | 0.97Å | 0.95Å | |
| O3P | H3P | sing | 0.97Å | 0.95Å | |
| C5' | H5'1 | sing | 1.09Å | 1.10Å | |
| C5' | H5'2 | sing | 1.09Å | 1.10Å | |
| C4' | H4' | sing | 1.09Å | 1.10Å | |
| C3' | H3' | sing | 1.09Å | 1.10Å | |
| C1' | H1' | sing | 1.09Å | 1.10Å | |
| C2' | H2' | sing | 1.09Å | 1.10Å | |
| C6 | H6 | sing | 1.08Å | 1.08Å | |
| N3 | H3 | sing | 0.97Å | 1.00Å | |
| C7 | H7C1 | sing | 1.09Å | 1.10Å | |
| C7 | H7C2 | sing | 1.09Å | 1.10Å | |
| O2' | HA | sing | 0.97Å | 0.95Å | |
| O3' | HB | sing | 0.97Å | 0.95Å | |
| N8 | H8 | sing | 1.01Å | 1.00Å | |
| C9 | H9C1 | sing | 1.09Å | 1.10Å | |
| C9 | H9C2 | sing | 1.09Å | 1.10Å | |
| C11 | H111 | sing | 1.09Å | 1.10Å | |
| C11 | H112 | sing | 1.09Å | 1.10Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| O1P | P | O2P | 120.1° | 109.5° |
| O1P | P | O3P | 105.7° | 109.5° |
| O1P | P | O5' | 109.0° | 109.5° |
| O2P | P | O3P | 113.4° | 109.5° |
| O2P | P | O5' | 108.0° | 109.4° |
| P | O2P | H2P | 109.5° | 114.0° |
| O3P | P | O5' | 98.5° | 109.5° |
| P | O3P | H3P | 109.5° | 113.9° |
| P | O5' | C5' | 120.0° | 123.0° |
| O5' | C5' | C4' | 110.9° | 109.5° |
| O5' | C5' | H5'1 | 109.0° | 109.4° |
| O5' | C5' | H5'2 | 108.7° | 109.5° |
| C5' | C4' | O4' | 109.3° | 109.9° |
| C5' | C4' | C3' | 114.9° | 109.9° |
| C4' | C5' | H5'1 | 109.0° | 109.5° |
| C4' | C5' | H5'2 | 108.7° | 109.5° |
| C5' | C4' | H4' | 104.7° | 109.9° |
| O4' | C4' | C3' | 105.5° | 107.3° |
| C4' | O4' | C1' | 110.0° | 106.9° |
| O4' | C4' | H4' | 114.1° | 109.8° |
| C4' | C3' | C2' | 102.2° | 104.2° |
| C4' | C3' | O3' | 110.0° | 110.5° |
| C3' | C4' | H4' | 108.5° | 110.0° |
| C4' | C3' | H3' | 114.5° | 110.5° |
| O4' | C1' | N1 | 108.4° | 110.6° |
| O4' | C1' | C2' | 106.7° | 103.5° |
| O4' | C1' | H1' | 113.4° | 110.6° |
| N1 | C1' | C2' | 113.5° | 110.6° |
| C1' | N1 | C6 | 119.4° | 119.7° |
| C1' | N1 | C2 | 119.3° | 119.7° |
| N1 | C1' | H1' | 106.6° | 110.5° |
| C1' | C2' | O2' | 110.2° | 110.9° |
| C1' | C2' | C3' | 101.5° | 102.1° |
| C2' | C1' | H1' | 108.3° | 110.8° |
| C1' | C2' | H2' | 115.1° | 110.9° |
| C6 | N1 | C2 | 121.3° | 120.6° |
| N1 | C6 | C5 | 122.8° | 119.7° |
| N1 | C6 | H6 | 118.6° | 120.1° |
| N1 | C2 | O2 | 123.2° | 119.5° |
| N1 | C2 | N3 | 114.8° | 120.9° |
| C6 | C5 | C4 | 119.2° | 119.1° |
| C6 | C5 | C7 | 129.3° | 120.4° |
| C5 | C6 | H6 | 118.6° | 120.1° |
| O2 | C2 | N3 | 121.9° | 119.5° |
| C2 | N3 | C4 | 127.0° | 120.3° |
| C2 | N3 | H3 | 116.5° | 119.9° |
| N3 | C4 | O4 | 119.8° | 120.4° |
| N3 | C4 | C5 | 114.8° | 119.3° |
| C4 | N3 | H3 | 116.5° | 119.8° |
| O4 | C4 | C5 | 125.4° | 120.3° |
| C4 | C5 | C7 | 111.5° | 120.4° |
| C5 | C7 | N8 | 134.1° | 109.5° |
| C5 | C7 | H7C1 | 102.0° | 109.4° |
| C5 | C7 | H7C2 | 96.3° | 109.5° |
| O2' | C2' | C3' | 112.4° | 110.9° |
| O2' | C2' | H2' | 104.9° | 110.8° |
| C2' | O2' | HA | 109.5° | 114.0° |
| C2' | C3' | O3' | 111.5° | 110.4° |
| C2' | C3' | H3' | 113.0° | 110.4° |
| C3' | C2' | H2' | 113.0° | 110.9° |
| O3' | C3' | H3' | 105.7° | 110.6° |
| C3' | O3' | HB | 109.5° | 114.0° |
| C7 | N8 | C9 | 106.1° | 111.0° |
| N8 | C7 | H7C1 | 101.9° | 109.5° |
| N8 | C7 | H7C2 | 96.3° | 109.5° |
| C7 | N8 | H8 | 110.6° | 111.0° |
| N8 | C9 | C11 | 96.7° | 109.5° |
| C9 | N8 | H8 | 110.6° | 111.0° |
| N8 | C9 | H9C1 | 114.0° | 109.4° |
| N8 | C9 | H9C2 | 116.5° | 109.5° |
| C9 | C11 | S12 | 115.7° | 109.5° |
| C11 | C9 | H9C1 | 114.0° | 109.5° |
| C11 | C9 | H9C2 | 116.5° | 109.5° |
| C9 | C11 | H111 | 107.4° | 109.5° |
| C9 | C11 | H112 | 106.0° | 109.4° |
| C11 | S12 | O1S | 111.1° | 110.6° |
| C11 | S12 | O2S | 112.1° | 110.5° |
| C11 | S12 | O3S | 109.3° | 104.5° |
| S12 | C11 | H111 | 107.4° | 109.5° |
| S12 | C11 | H112 | 106.0° | 109.5° |
| O1S | S12 | O2S | 106.0° | 121.0° |
| O1S | S12 | O3S | 109.6° | 104.2° |
| O2S | S12 | O3S | 108.8° | 104.3° |
| S12 | O3S | H3S | 109.5° | 114.0° |
| H5'1 | C5' | H5'2 | 110.6° | 109.5° |
| H7C1 | C7 | H7C2 | 131.6° | 109.4° |
| H9C1 | C9 | H9C2 | 100.1° | 109.5° |
| H111 | C11 | H112 | 114.5° | 109.5° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O1P | P | O2P | O3P | 126.3° | 120.0° |
| O1P | P | O2P | O5' | 125.7° | 120.0° |
| O1P | P | O3P | O5' | 112.6° | 120.0° |
| O1P | P | O5' | C5' | 53.7° | 55.0° |
| O1P | P | O2P | H2P | 40.5° | 60.0° |
| O1P | P | O3P | H3P | 115.7° | 179.9° |
| O2P | P | O3P | O5' | 113.9° | 120.0° |
| O2P | P | O5' | C5' | 78.3° | 175.0° |
| O2P | P | O3P | H3P | 17.8° | 59.9° |
| O3P | P | O5' | C5' | 163.6° | 65.0° |
| O3P | P | O2P | H2P | 166.8° | 60.0° |
| P | O5' | C5' | C4' | 177.8° | 180.0° |
| O5' | P | O2P | H2P | 85.2° | 180.0° |
| O5' | P | O3P | H3P | 131.7° | 60.0° |
| P | O5' | C5' | H5'1 | 57.8° | 60.0° |
| P | O5' | C5' | H5'2 | 62.8° | 60.0° |
| O5' | C5' | C4' | H5'1 | 120.0° | 120.0° |
| O5' | C5' | C4' | H5'2 | 119.4° | 120.0° |
| O5' | C5' | C4' | O4' | 91.6° | 66.4° |
| O5' | C5' | C4' | C3' | 26.8° | 175.7° |
| O5' | C5' | H5'1 | H5'2 | 119.4° | 120.0° |
| O5' | C5' | C4' | H4' | 145.7° | 54.5° |
| C5' | C4' | O4' | C3' | 124.1° | 119.4° |
| C5' | C4' | O4' | H4' | 116.9° | 121.0° |
| C5' | C4' | C3' | H4' | 116.7° | 121.1° |
| C5' | C4' | O4' | C1' | 135.6° | 145.9° |
| C5' | C4' | C3' | C2' | 151.0° | 121.4° |
| C5' | C4' | C3' | O3' | 90.4° | 119.9° |
| C4' | C5' | H5'1 | H5'2 | 119.4° | 120.0° |
| C5' | C4' | C3' | H3' | 28.4° | 2.8° |
| O4' | C4' | C3' | H4' | 122.7° | 119.4° |
| C4' | O4' | C1' | N1 | 110.0° | 158.5° |
| C4' | O4' | C1' | C2' | 12.6° | 40.1° |
| O4' | C4' | C3' | C2' | 30.5° | 2.0° |
| O4' | C4' | C3' | O3' | 149.1° | 120.6° |
| O4' | C4' | C5' | H5'1 | 148.4° | 53.6° |
| O4' | C4' | C5' | H5'2 | 27.8° | 173.6° |
| O4' | C4' | C3' | H3' | 92.1° | 116.7° |
| C4' | O4' | C1' | H1' | 131.8° | 78.7° |
| C3' | C4' | O4' | C1' | 11.5° | 26.5° |
| C4' | C3' | C2' | C1' | 36.8° | 20.9° |
| C4' | C3' | C2' | O2' | 80.9° | 139.1° |
| C4' | C3' | C2' | O3' | 117.5° | 118.7° |
| C4' | C3' | C2' | H3' | 123.6° | 118.7° |
| C4' | C3' | O3' | H3' | 124.1° | 122.7° |
| C3' | C4' | C5' | H5'1 | 93.2° | 64.3° |
| C3' | C4' | C5' | H5'2 | 146.2° | 55.7° |
| C4' | C3' | C2' | H2' | 160.7° | 97.3° |
| C4' | C3' | O3' | HB | 108.2° | 179.9° |
| O4' | C1' | N1 | C2' | 118.4° | 114.1° |
| O4' | C1' | N1 | H1' | 122.5° | 122.8° |
| O4' | C1' | C2' | H1' | 122.5° | 118.6° |
| O4' | C1' | N1 | C6 | 28.7° | 126.4° |
| O4' | C1' | N1 | C2 | 151.3° | 53.3° |
| O4' | C1' | C2' | O2' | 88.1° | 155.2° |
| O4' | C1' | C2' | C3' | 31.2° | 37.0° |
| C1' | O4' | C4' | H4' | 107.6° | 93.1° |
| O4' | C1' | C2' | H2' | 153.6° | 81.2° |
| N1 | C1' | C2' | H1' | 118.2° | 122.9° |
| C1' | N1 | C6 | C2 | 180.0° | 179.8° |
| C1' | N1 | C6 | C5 | 180.0° | 180.0° |
| C1' | N1 | C2 | O2 | 0.0° | 0.0° |
| C1' | N1 | C2 | N3 | 179.9° | 180.0° |
| N1 | C1' | C2' | O2' | 152.6° | 86.3° |
| N1 | C1' | C2' | C3' | 88.2° | 155.5° |
| N1 | C1' | C2' | H2' | 34.3° | 37.3° |
| C1' | N1 | C6 | H6 | 0.0° | 0.0° |
| C2' | C1' | N1 | C6 | 89.6° | 119.5° |
| C2' | C1' | N1 | C2 | 90.3° | 60.8° |
| C1' | C2' | O2' | C3' | 112.4° | 112.7° |
| C1' | C2' | O2' | H2' | 124.5° | 123.7° |
| C1' | C2' | C3' | H2' | 123.9° | 118.2° |
| C1' | C2' | C3' | O3' | 154.2° | 97.8° |
| C1' | C2' | C3' | H3' | 86.9° | 139.6° |
| C1' | C2' | O2' | HA | 128.4° | 179.9° |
| N1 | C6 | C5 | H6 | 180.0° | 180.0° |
| C6 | N1 | C2 | O2 | 180.0° | 179.8° |
| C6 | N1 | C2 | N3 | 0.0° | 0.3° |
| N1 | C6 | C5 | C4 | 0.0° | 0.0° |
| N1 | C6 | C5 | C7 | 179.4° | 180.0° |
| C6 | N1 | C1' | H1' | 151.2° | 3.6° |
| C2 | N1 | C6 | C5 | 0.0° | 0.2° |
| N1 | C2 | O2 | N3 | 180.0° | 180.0° |
| N1 | C2 | N3 | C4 | 0.1° | 0.1° |
| C2 | N1 | C1' | H1' | 28.8° | 176.1° |
| C2 | N1 | C6 | H6 | 180.0° | 179.8° |
| N1 | C2 | N3 | H3 | 179.9° | 180.0° |
| C6 | C5 | C4 | N3 | 0.1° | 0.2° |
| C6 | C5 | C4 | O4 | 179.9° | 180.0° |
| C6 | C5 | C4 | C7 | 179.5° | 180.0° |
| C6 | C5 | C7 | N8 | 133.8° | 95.0° |
| C6 | C5 | C7 | H7C1 | 106.3° | 145.0° |
| C6 | C5 | C7 | H7C2 | 28.6° | 25.1° |
| O2 | C2 | N3 | C4 | 179.9° | 180.0° |
| O2 | C2 | N3 | H3 | 0.1° | 0.1° |
| C2 | N3 | C4 | H3 | 180.0° | 179.9° |
| C2 | N3 | C4 | O4 | 180.0° | 180.0° |
| C2 | N3 | C4 | C5 | 0.1° | 0.2° |
| N3 | C4 | O4 | C5 | 179.8° | 179.8° |
| N3 | C4 | C5 | C7 | 179.4° | 179.8° |
| O4 | C4 | C5 | C7 | 0.4° | 0.1° |
| O4 | C4 | N3 | H3 | 0.0° | 0.1° |
| C4 | C5 | C7 | N8 | 45.7° | 84.9° |
| C4 | C5 | C6 | H6 | 180.0° | 180.0° |
| C5 | C4 | N3 | H3 | 179.9° | 179.8° |
| C4 | C5 | C7 | H7C1 | 74.3° | 35.0° |
| C4 | C5 | C7 | H7C2 | 150.8° | 155.0° |
| C5 | C7 | N8 | H7C1 | 120.0° | 120.0° |
| C5 | C7 | N8 | H7C2 | 105.1° | 120.0° |
| C5 | C7 | N8 | C9 | 105.4° | 180.0° |
| C7 | C5 | C6 | H6 | 0.6° | 0.0° |
| C5 | C7 | H7C1 | H7C2 | 109.8° | 119.9° |
| C5 | C7 | N8 | H8 | 14.6° | 56.1° |
| O2' | C2' | C3' | H2' | 118.4° | 123.6° |
| O2' | C2' | C3' | O3' | 36.5° | 20.4° |
| O2' | C2' | C3' | H3' | 155.5° | 102.2° |
| O2' | C2' | C1' | H1' | 34.4° | 36.6° |
| C2' | C3' | O3' | H3' | 123.2° | 122.6° |
| C2' | C3' | C4' | H4' | 92.2° | 117.4° |
| C3' | C2' | C1' | H1' | 153.6° | 81.5° |
| C3' | C2' | O2' | HA | 16.0° | 67.3° |
| C2' | C3' | O3' | HB | 139.2° | 65.3° |
| O3' | C3' | C4' | H4' | 26.3° | 1.2° |
| O3' | C3' | C2' | H2' | 81.9° | 144.0° |
| C7 | N8 | C9 | H8 | 120.0° | 123.9° |
| C7 | N8 | C9 | C11 | 153.3° | 180.0° |
| N8 | C7 | H7C1 | H7C2 | 109.7° | 120.1° |
| C7 | N8 | C9 | H9C1 | 86.7° | 60.1° |
| C7 | N8 | C9 | H9C2 | 29.2° | 60.0° |
| N8 | C9 | C11 | H9C1 | 120.0° | 119.9° |
| N8 | C9 | C11 | H9C2 | 124.1° | 120.0° |
| N8 | C9 | C11 | S12 | 86.8° | 180.0° |
| C9 | N8 | C7 | H7C1 | 134.6° | 60.0° |
| C9 | N8 | C7 | H7C2 | 0.3° | 60.0° |
| N8 | C9 | H9C1 | H9C2 | 125.1° | 120.0° |
| N8 | C9 | C11 | H111 | 33.2° | 60.0° |
| N8 | C9 | C11 | H112 | 156.1° | 60.0° |
| C9 | C11 | S12 | H111 | 120.0° | 120.0° |
| C9 | C11 | S12 | H112 | 117.1° | 120.0° |
| C9 | C11 | S12 | O1S | 89.7° | 68.4° |
| C9 | C11 | S12 | O2S | 28.6° | 68.4° |
| C9 | C11 | S12 | O3S | 149.3° | 180.0° |
| C11 | C9 | N8 | H8 | 33.3° | 56.1° |
| C11 | C9 | H9C1 | H9C2 | 125.1° | 120.1° |
| C9 | C11 | H111 | H112 | 117.4° | 120.0° |
| C11 | S12 | O1S | O2S | 121.9° | 131.5° |
| C11 | S12 | O1S | O3S | 120.8° | 111.7° |
| C11 | S12 | O2S | O3S | 121.0° | 111.8° |
| C11 | S12 | O3S | H3S | 12.2° | 180.0° |
| S12 | C11 | C9 | H9C1 | 153.2° | 60.0° |
| S12 | C11 | C9 | H9C2 | 37.4° | 60.0° |
| S12 | C11 | H111 | H112 | 117.4° | 120.0° |
| O1S | S12 | O2S | O3S | 117.7° | 116.7° |
| O1S | S12 | O3S | H3S | 134.1° | 63.9° |
| O1S | S12 | C11 | H111 | 150.3° | 171.6° |
| O1S | S12 | C11 | H112 | 27.4° | 51.6° |
| O2S | S12 | O3S | H3S | 110.4° | 63.9° |
| O2S | S12 | C11 | H111 | 91.4° | 51.7° |
| O2S | S12 | C11 | H112 | 145.7° | 171.7° |
| O3S | S12 | C11 | H111 | 29.3° | 60.0° |
| O3S | S12 | C11 | H112 | 93.6° | 60.0° |
| H5'1 | C5' | C4' | H4' | 25.7° | 174.5° |
| H5'2 | C5' | C4' | H4' | 94.9° | 65.5° |
| H4' | C4' | C3' | H3' | 145.2° | 123.9° |
| H3' | C3' | C2' | H2' | 37.0° | 21.4° |
| H3' | C3' | O3' | HB | 16.0° | 57.3° |
| H1' | C1' | C2' | H2' | 83.9° | 160.2° |
| H2' | C2' | O2' | HA | 107.2° | 56.4° |
| H7C1 | C7 | N8 | H8 | 105.4° | 176.1° |
| H7C2 | C7 | N8 | H8 | 119.7° | 63.9° |
| H8 | N8 | C9 | H9C1 | 153.3° | 176.0° |
| H8 | N8 | C9 | H9C2 | 90.8° | 63.9° |
| H9C1 | C9 | C11 | H111 | 86.8° | 180.0° |
| H9C1 | C9 | C11 | H112 | 36.1° | 59.9° |
| H9C2 | C9 | C11 | H111 | 157.3° | 60.0° |
| H9C2 | C9 | C11 | H112 | 79.8° | 180.0° |
