AMD
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| P | O1P | doub | 1.48Å | 1.54Å | |
| P | O2P | sing | 1.61Å | 1.54Å | |
| P | O3P | sing | 1.61Å | 1.68Å | |
| P | O5' | sing | 1.61Å | 1.62Å | |
| O2P | HOP2 | sing | 0.97Å | 0.95Å | |
| O3P | C | sing | 1.34Å | 1.16Å | |
| O5' | C5' | sing | 1.43Å | 1.45Å | |
| C5' | C4' | sing | 1.53Å | 1.52Å | |
| C5' | H5'1 | sing | 1.09Å | 1.11Å | |
| C5' | H5'2 | sing | 1.09Å | 1.11Å | |
| C4' | O4' | sing | 1.44Å | 1.45Å | |
| C4' | C3' | sing | 1.55Å | 1.52Å | |
| C4' | H4' | sing | 1.09Å | 1.11Å | |
| O4' | C1' | sing | 1.44Å | 1.42Å | |
| C1' | N9 | sing | 1.47Å | 1.46Å | |
| C1' | C2' | sing | 1.54Å | 1.53Å | |
| C1' | H1' | sing | 1.09Å | 1.11Å | |
| N9 | C4 | sing | 1.37Å | 1.38Å | Aromatic |
| N9 | C8 | sing | 1.36Å | 1.37Å | Aromatic |
| C4 | N3 | sing | 1.33Å | 1.34Å | Aromatic |
| C4 | C5 | doub | 1.41Å | 1.38Å | Aromatic |
| N3 | C2 | doub | 1.32Å | 1.34Å | Aromatic |
| C2 | N1 | sing | 1.32Å | 1.33Å | Aromatic |
| C2 | H2 | sing | 1.08Å | 1.10Å | |
| N1 | C6 | doub | 1.33Å | 1.36Å | Aromatic |
| C6 | N6 | sing | 1.38Å | 1.34Å | |
| C6 | C5 | sing | 1.41Å | 1.41Å | Aromatic |
| N6 | H61 | sing | 0.97Å | 1.02Å | |
| N6 | H62 | sing | 0.97Å | 1.02Å | |
| C5 | N7 | sing | 1.36Å | 1.39Å | Aromatic |
| N7 | C8 | doub | 1.30Å | 1.31Å | Aromatic |
| C8 | H8 | sing | 1.08Å | 1.10Å | |
| C2' | C3' | sing | 1.55Å | 1.52Å | |
| C2' | H2'1 | sing | 1.09Å | 1.12Å | |
| C2' | H2'2 | sing | 1.09Å | 1.12Å | |
| C3' | O3' | sing | 1.43Å | 1.42Å | |
| C3' | H3' | sing | 1.09Å | 1.11Å | |
| O3' | HO'3 | sing | 0.97Å | 0.95Å | |
| N | CA | sing | 1.47Å | 1.47Å | |
| N | H | sing | 1.01Å | 1.02Å | |
| N | HN2 | sing | 1.01Å | 1.02Å | |
| CA | CB | sing | 1.53Å | 1.53Å | |
| CA | C | sing | 1.51Å | 1.52Å | |
| CA | HA | sing | 1.09Å | 1.12Å | |
| CB | CG | sing | 1.51Å | 1.51Å | |
| CB | HB1 | sing | 1.09Å | 1.11Å | |
| CB | HB2 | sing | 1.09Å | 1.11Å | |
| CG | OD1 | doub | 1.21Å | 1.25Å | |
| CG | OD2 | sing | 1.34Å | 1.25Å | |
| OD2 | HD2 | sing | 0.97Å | 0.95Å | |
| C | O | doub | 1.21Å | 1.23Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| O1P | P | O2P | 119.1° | 109.5° |
| O1P | P | O3P | 106.3° | 109.5° |
| O1P | P | O5' | 110.6° | 109.4° |
| O2P | P | O3P | 90.4° | 109.5° |
| O2P | P | O5' | 108.0° | 109.4° |
| P | O2P | HOP2 | 119.0° | 106.8° |
| O3P | P | O5' | 121.7° | 109.4° |
| P | O3P | C | 132.4° | 120.0° |
| P | O5' | C5' | 120.7° | 106.8° |
| O3P | C | CA | 107.5° | 120.0° |
| O3P | C | O | 130.4° | 120.0° |
| O5' | C5' | C4' | 111.0° | 109.5° |
| O5' | C5' | H5'1 | 111.6° | 109.5° |
| O5' | C5' | H5'2 | 111.6° | 109.4° |
| C4' | C5' | H5'1 | 111.6° | 109.5° |
| C4' | C5' | H5'2 | 111.6° | 109.5° |
| C5' | C4' | O4' | 109.5° | 110.6° |
| C5' | C4' | C3' | 115.9° | 110.6° |
| C5' | C4' | H4' | 103.4° | 110.6° |
| H5'1 | C5' | H5'2 | 98.8° | 109.4° |
| O4' | C4' | C3' | 103.8° | 103.6° |
| O4' | C4' | H4' | 115.5° | 110.6° |
| C4' | O4' | C1' | 109.8° | 107.0° |
| C3' | C4' | H4' | 109.2° | 110.6° |
| C4' | C3' | C2' | 102.6° | 102.1° |
| C4' | C3' | O3' | 113.2° | 111.2° |
| C4' | C3' | H3' | 112.0° | 110.8° |
| O4' | C1' | N9 | 108.1° | 109.9° |
| O4' | C1' | C2' | 107.8° | 107.3° |
| O4' | C1' | H1' | 113.6° | 109.9° |
| N9 | C1' | C2' | 115.0° | 110.0° |
| N9 | C1' | H1' | 106.1° | 109.8° |
| C1' | N9 | C4 | 127.0° | 126.3° |
| C1' | N9 | C8 | 127.2° | 126.3° |
| C2' | C1' | H1' | 106.5° | 109.9° |
| C1' | C2' | C3' | 101.7° | 104.2° |
| C1' | C2' | H2'1 | 115.1° | 110.4° |
| C1' | C2' | H2'2 | 115.1° | 110.5° |
| C4 | N9 | C8 | 105.8° | 107.4° |
| N9 | C4 | N3 | 127.7° | 134.9° |
| N9 | C4 | C5 | 105.7° | 106.0° |
| N9 | C8 | N7 | 113.8° | 110.0° |
| N9 | C8 | H8 | 125.2° | 125.0° |
| N3 | C4 | C5 | 126.6° | 119.1° |
| C4 | N3 | C2 | 110.8° | 120.7° |
| C4 | C5 | C6 | 117.1° | 118.2° |
| C4 | C5 | N7 | 110.7° | 107.2° |
| N3 | C2 | N1 | 129.4° | 122.4° |
| N3 | C2 | H2 | 115.6° | 118.8° |
| N1 | C2 | H2 | 115.1° | 118.8° |
| C2 | N1 | C6 | 118.3° | 121.2° |
| N1 | C6 | N6 | 118.9° | 120.8° |
| N1 | C6 | C5 | 117.8° | 118.4° |
| N6 | C6 | C5 | 123.3° | 120.8° |
| C6 | N6 | H61 | 118.9° | 120.0° |
| C6 | N6 | H62 | 108.8° | 120.0° |
| C6 | C5 | N7 | 132.2° | 134.7° |
| H61 | N6 | H62 | 108.8° | 120.0° |
| C5 | N7 | C8 | 104.0° | 109.4° |
| N7 | C8 | H8 | 121.0° | 125.0° |
| C3' | C2' | H2'1 | 115.2° | 110.4° |
| C3' | C2' | H2'2 | 115.2° | 110.7° |
| C2' | C3' | O3' | 110.5° | 110.9° |
| C2' | C3' | H3' | 114.5° | 110.9° |
| H2'1 | C2' | H2'2 | 95.3° | 110.5° |
| O3' | C3' | H3' | 104.3° | 110.7° |
| C3' | O3' | HO'3 | 113.1° | 106.8° |
| CA | N | H | 110.9° | 106.7° |
| CA | N | HN2 | 111.7° | 106.7° |
| N | CA | CB | 110.9° | 109.5° |
| N | CA | C | 110.2° | 109.5° |
| N | CA | HA | 108.1° | 109.5° |
| H | N | HN2 | 111.7° | 106.7° |
| CB | CA | C | 109.8° | 109.5° |
| CB | CA | HA | 108.6° | 109.5° |
| CA | CB | CG | 112.5° | 109.5° |
| CA | CB | HB1 | 111.1° | 109.5° |
| CA | CB | HB2 | 111.1° | 109.5° |
| C | CA | HA | 109.2° | 109.5° |
| CA | C | O | 121.9° | 120.0° |
| CG | CB | HB1 | 111.1° | 109.4° |
| CG | CB | HB2 | 111.1° | 109.5° |
| CB | CG | OD1 | 118.7° | 120.0° |
| CB | CG | OD2 | 118.2° | 120.0° |
| HB1 | CB | HB2 | 99.3° | 109.4° |
| OD1 | CG | OD2 | 123.1° | 120.0° |
| CG | OD2 | HD2 | 118.2° | 120.0° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O1P | P | O2P | O3P | 109.0° | 120.1° |
| O1P | P | O2P | O5' | 127.3° | 120.0° |
| O1P | P | O3P | O5' | 127.8° | 119.9° |
| O1P | P | O2P | HOP2 | 180.0° | 180.0° |
| O1P | P | O3P | C | 87.1° | 55.1° |
| O1P | P | O5' | C5' | 163.6° | 55.0° |
| O2P | P | O3P | O5' | 111.6° | 120.0° |
| O2P | P | O3P | C | 152.3° | 65.0° |
| O2P | P | O5' | C5' | 31.6° | 65.0° |
| O3P | P | O2P | HOP2 | 71.0° | 60.0° |
| O3P | P | O5' | C5' | 70.6° | 175.0° |
| P | O3P | C | CA | 169.5° | 180.0° |
| P | O3P | C | O | 15.6° | 0.0° |
| O5' | P | O2P | HOP2 | 52.7° | 60.0° |
| O5' | P | O3P | C | 40.7° | 175.0° |
| P | O5' | C5' | C4' | 127.1° | 180.0° |
| P | O5' | C5' | H5'1 | 1.8° | 60.0° |
| P | O5' | C5' | H5'2 | 107.6° | 60.0° |
| O3P | C | CA | N | 167.2° | 160.0° |
| O3P | C | CA | CB | 70.4° | 80.0° |
| O3P | C | CA | O | 175.4° | 180.0° |
| O3P | C | CA | HA | 48.6° | 40.0° |
| O5' | C5' | C4' | H5'1 | 125.3° | 120.0° |
| O5' | C5' | C4' | H5'2 | 125.2° | 120.0° |
| O5' | C5' | H5'1 | H5'2 | 117.5° | 120.0° |
| O5' | C5' | C4' | O4' | 66.5° | 68.6° |
| O5' | C5' | C4' | C3' | 50.5° | 177.2° |
| O5' | C5' | C4' | H4' | 169.9° | 54.3° |
| C4' | C5' | H5'1 | H5'2 | 117.6° | 120.0° |
| C5' | C4' | O4' | C3' | 124.3° | 118.6° |
| C5' | C4' | O4' | H4' | 116.2° | 122.8° |
| C5' | C4' | C3' | H4' | 116.2° | 122.9° |
| C5' | C4' | O4' | C1' | 148.2° | 158.5° |
| C5' | C4' | C3' | C2' | 156.8° | 155.4° |
| C5' | C4' | C3' | O3' | 84.1° | 86.3° |
| C5' | C4' | C3' | H3' | 33.5° | 37.3° |
| H5'1 | C5' | C4' | O4' | 168.3° | 51.4° |
| H5'1 | C5' | C4' | C3' | 74.8° | 62.8° |
| H5'1 | C5' | C4' | H4' | 44.6° | 174.3° |
| H5'2 | C5' | C4' | O4' | 58.7° | 171.4° |
| H5'2 | C5' | C4' | C3' | 175.7° | 57.2° |
| H5'2 | C5' | C4' | H4' | 64.9° | 65.7° |
| O4' | C4' | C3' | H4' | 123.7° | 118.5° |
| C4' | O4' | C1' | N9 | 126.2° | 146.1° |
| C4' | O4' | C1' | C2' | 1.3° | 26.5° |
| C4' | O4' | C1' | H1' | 116.4° | 93.0° |
| O4' | C4' | C3' | C2' | 36.7° | 36.8° |
| O4' | C4' | C3' | O3' | 155.8° | 155.1° |
| O4' | C4' | C3' | H3' | 86.6° | 81.3° |
| C3' | C4' | O4' | C1' | 23.9° | 40.0° |
| C4' | C3' | C2' | C1' | 35.0° | 20.6° |
| C4' | C3' | C2' | O3' | 121.0° | 118.5° |
| C4' | C3' | C2' | H3' | 121.6° | 118.0° |
| C4' | C3' | C2' | H2'1 | 90.2° | 97.9° |
| C4' | C3' | C2' | H2'2 | 160.3° | 139.4° |
| C4' | C3' | O3' | H3' | 122.0° | 123.6° |
| C4' | C3' | O3' | HO'3 | 180.0° | 174.2° |
| H4' | C4' | O4' | C1' | 95.6° | 78.6° |
| H4' | C4' | C3' | C2' | 87.0° | 81.7° |
| H4' | C4' | C3' | O3' | 32.1° | 36.6° |
| H4' | C4' | C3' | H3' | 149.7° | 160.1° |
| O4' | C1' | N9 | C2' | 120.4° | 117.9° |
| O4' | C1' | N9 | H1' | 122.2° | 121.0° |
| O4' | C1' | C2' | H1' | 122.2° | 119.5° |
| O4' | C1' | N9 | C4 | 125.6° | 156.8° |
| O4' | C1' | N9 | C8 | 53.7° | 23.6° |
| O4' | C1' | C2' | C3' | 21.6° | 2.2° |
| O4' | C1' | C2' | H2'1 | 103.6° | 120.7° |
| O4' | C1' | C2' | H2'2 | 146.9° | 116.7° |
| N9 | C1' | C2' | H1' | 117.1° | 121.1° |
| C1' | N9 | C4 | C8 | 179.4° | 179.7° |
| C1' | N9 | C4 | N3 | 0.4° | 0.8° |
| C1' | N9 | C4 | C5 | 178.8° | 179.9° |
| C1' | N9 | C8 | N7 | 179.0° | 180.0° |
| C1' | N9 | C8 | H8 | 1.0° | 0.1° |
| N9 | C1' | C2' | C3' | 99.0° | 121.7° |
| N9 | C1' | C2' | H2'1 | 135.8° | 119.8° |
| N9 | C1' | C2' | H2'2 | 26.3° | 2.8° |
| C2' | C1' | N9 | C4 | 113.9° | 85.3° |
| C2' | C1' | N9 | C8 | 66.8° | 94.3° |
| C1' | C2' | C3' | H2'1 | 125.2° | 118.6° |
| C1' | C2' | C3' | H2'2 | 125.3° | 118.7° |
| C1' | C2' | H2'1 | H2'2 | 121.0° | 122.6° |
| C1' | C2' | C3' | O3' | 156.0° | 139.1° |
| C1' | C2' | C3' | H3' | 86.5° | 97.4° |
| H1' | C1' | N9 | C4 | 3.4° | 35.8° |
| H1' | C1' | N9 | C8 | 175.9° | 144.6° |
| H1' | C1' | C2' | C3' | 143.9° | 117.3° |
| H1' | C1' | C2' | H2'1 | 18.6° | 1.3° |
| H1' | C1' | C2' | H2'2 | 90.8° | 123.9° |
| N9 | C4 | N3 | C5 | 179.1° | 178.9° |
| N9 | C4 | N3 | C2 | 179.3° | 179.6° |
| N9 | C4 | C5 | C6 | 178.6° | 179.9° |
| N9 | C4 | C5 | N7 | 0.5° | 0.4° |
| C4 | N9 | C8 | N7 | 0.5° | 0.3° |
| C4 | N9 | C8 | H8 | 179.5° | 179.8° |
| C8 | N9 | C4 | N3 | 179.8° | 179.5° |
| C8 | N9 | C4 | C5 | 0.6° | 0.4° |
| N9 | C8 | N7 | C5 | 0.1° | 0.0° |
| N9 | C8 | N7 | H8 | 180.0° | 180.0° |
| C4 | N3 | C2 | N1 | 0.5° | 0.3° |
| C4 | N3 | C2 | H2 | 179.5° | 179.7° |
| N3 | C4 | C5 | C6 | 0.7° | 0.6° |
| N3 | C4 | C5 | N7 | 179.8° | 179.6° |
| C5 | C4 | N3 | C2 | 0.2° | 0.6° |
| C4 | C5 | C6 | N1 | 1.4° | 0.4° |
| C4 | C5 | C6 | N6 | 177.7° | 179.7° |
| C4 | C5 | C6 | N7 | 178.9° | 179.6° |
| C4 | C5 | N7 | C8 | 0.2° | 0.3° |
| N3 | C2 | N1 | H2 | 180.0° | 179.9° |
| N3 | C2 | N1 | C6 | 0.2° | 0.1° |
| C2 | N1 | C6 | N6 | 177.9° | 180.0° |
| C2 | N1 | C6 | C5 | 1.2° | 0.1° |
| H2 | C2 | N1 | C6 | 179.8° | 180.0° |
| N1 | C6 | N6 | C5 | 179.0° | 180.0° |
| N1 | C6 | N6 | H61 | 180.0° | 180.0° |
| N1 | C6 | N6 | H62 | 54.7° | 0.0° |
| N1 | C6 | C5 | N7 | 179.7° | 180.0° |
| C6 | N6 | H61 | H62 | 125.3° | 180.0° |
| N6 | C6 | C5 | N7 | 1.2° | 0.1° |
| C5 | C6 | N6 | H61 | 0.9° | 0.0° |
| C5 | C6 | N6 | H62 | 124.3° | 179.9° |
| C6 | C5 | N7 | C8 | 178.7° | 179.9° |
| C5 | N7 | C8 | H8 | 179.9° | 180.0° |
| C3' | C2' | H2'1 | H2'2 | 121.0° | 122.7° |
| C2' | C3' | O3' | H3' | 123.6° | 123.6° |
| C2' | C3' | O3' | HO'3 | 65.6° | 61.3° |
| H2'1 | C2' | C3' | O3' | 30.8° | 20.6° |
| H2'1 | C2' | C3' | H3' | 148.2° | 144.0° |
| H2'2 | C2' | C3' | O3' | 78.7° | 102.1° |
| H2'2 | C2' | C3' | H3' | 38.7° | 21.4° |
| H3' | C3' | O3' | HO'3 | 58.0° | 62.3° |
| CA | N | H | HN2 | 125.3° | 113.7° |
| N | CA | CB | C | 122.1° | 120.0° |
| N | CA | CB | HA | 118.6° | 120.0° |
| N | CA | C | HA | 118.6° | 120.0° |
| N | CA | CB | CG | 69.4° | 65.0° |
| N | CA | CB | HB1 | 55.9° | 55.0° |
| N | CA | CB | HB2 | 165.3° | 175.0° |
| N | CA | C | O | 8.2° | 20.0° |
| H | N | CA | CB | 180.0° | 59.9° |
| H | N | CA | C | 58.2° | 60.0° |
| H | N | CA | HA | 61.1° | 180.0° |
| HN2 | N | CA | CB | 54.8° | 53.8° |
| HN2 | N | CA | C | 176.6° | 173.8° |
| HN2 | N | CA | HA | 64.2° | 66.2° |
| CB | CA | C | HA | 119.0° | 120.0° |
| CA | CB | CG | HB1 | 125.2° | 120.1° |
| CA | CB | CG | HB2 | 125.2° | 120.0° |
| CA | CB | HB1 | HB2 | 117.0° | 120.0° |
| CA | CB | CG | OD1 | 140.8° | 0.0° |
| CA | CB | CG | OD2 | 37.1° | 180.0° |
| CB | CA | C | O | 114.2° | 100.0° |
| C | CA | CB | CG | 168.6° | 175.0° |
| C | CA | CB | HB1 | 66.2° | 65.0° |
| C | CA | CB | HB2 | 43.3° | 55.0° |
| HA | CA | CB | CG | 49.2° | 55.0° |
| HA | CA | CB | HB1 | 174.5° | 175.0° |
| HA | CA | CB | HB2 | 76.0° | 65.0° |
| HA | CA | C | O | 126.8° | 140.0° |
| CG | CB | HB1 | HB2 | 117.0° | 119.9° |
| CB | CG | OD1 | OD2 | 177.9° | 179.9° |
| CB | CG | OD2 | HD2 | 180.0° | 180.0° |
| HB1 | CB | CG | OD1 | 15.6° | 120.1° |
| HB1 | CB | CG | OD2 | 162.3° | 60.0° |
| HB2 | CB | CG | OD1 | 93.9° | 120.0° |
| HB2 | CB | CG | OD2 | 88.1° | 59.9° |
| OD1 | CG | OD2 | HD2 | 2.1° | 0.1° |
