DPY
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| P | O1P | doub | 1.50Å | 1.50Å | |
| P | O2P | sing | 1.62Å | 1.48Å | |
| P | O5' | sing | 1.62Å | 1.59Å | |
| P | O3P | sing | 1.62Å | 37.06Å | |
| O2P | HOP2 | sing | 0.98Å | 0.95Å | |
| O5' | C5' | sing | 1.42Å | 1.43Å | |
| C1 | C2 | doub | 1.39Å | 1.40Å | Aromatic |
| C1 | C6 | sing | 1.39Å | 1.42Å | Aromatic |
| C1 | C1' | sing | 1.51Å | 1.52Å | |
| C2 | C7 | sing | 1.46Å | 1.42Å | |
| C2 | N3 | sing | 1.35Å | 1.34Å | Aromatic |
| C7 | O71 | doub | 1.23Å | 1.22Å | |
| C7 | O72 | sing | 1.36Å | 1.25Å | |
| O72 | H72 | sing | 0.98Å | 0.95Å | |
| N3 | C4 | doub | 1.35Å | 1.32Å | Aromatic |
| C4 | C8 | sing | 1.45Å | 1.44Å | |
| C4 | C5 | sing | 1.39Å | 1.41Å | Aromatic |
| C8 | O81 | doub | 1.24Å | 1.25Å | |
| C8 | O82 | sing | 1.36Å | 1.24Å | |
| O82 | H82 | sing | 0.98Å | 0.95Å | |
| C5 | C6 | doub | 1.39Å | 1.41Å | Aromatic |
| C5 | H5 | sing | 1.08Å | 1.08Å | |
| C6 | H6 | sing | 1.09Å | 1.08Å | |
| C2' | C1' | sing | 1.53Å | 1.51Å | |
| C2' | C3' | sing | 1.51Å | 1.52Å | |
| C2' | H2'1 | sing | 1.10Å | 1.10Å | |
| C2' | H2'2 | sing | 1.10Å | 1.10Å | |
| C5' | C4' | sing | 1.52Å | 1.51Å | |
| C5' | H5'1 | sing | 1.09Å | 1.10Å | |
| C5' | H5'2 | sing | 1.09Å | 1.10Å | |
| C4' | O4' | sing | 1.44Å | 1.44Å | |
| C4' | C3' | sing | 1.52Å | 1.54Å | |
| C4' | H4' | sing | 1.10Å | 1.10Å | |
| O4' | C1' | sing | 1.44Å | 1.41Å | |
| C1' | H1' | sing | 1.10Å | 1.10Å | |
| C3' | O3' | sing | 1.41Å | 1.44Å | |
| C3' | H3' | sing | 1.10Å | 1.10Å | |
| O3' | H3T | sing | 0.97Å | 0.95Å | |
| O3P | HOP3 | sing | 0.98Å | 0.95Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| O1P | P | O2P | 118.8° | 115.4° |
| O1P | P | O5' | 107.2° | 115.0° |
| O1P | P | O3P | 7.7° | 115.0° |
| O2P | P | O5' | 109.1° | 103.7° |
| O2P | P | O3P | 124.6° | 103.3° |
| P | O2P | HOP2 | 109.5° | 118.9° |
| O5' | P | O3P | 99.7° | 102.9° |
| P | O5' | C5' | 121.9° | 118.5° |
| P | O3P | HOP3 | 7.7° | 118.9° |
| O5' | C5' | C4' | 109.9° | 108.7° |
| O5' | C5' | H5'1 | 109.2° | 109.2° |
| O5' | C5' | H5'2 | 109.3° | 109.2° |
| C2 | C1 | C6 | 117.5° | 117.7° |
| C2 | C1 | C1' | 122.9° | 122.3° |
| C1 | C2 | C7 | 123.4° | 121.1° |
| C1 | C2 | N3 | 119.2° | 124.2° |
| C6 | C1 | C1' | 119.6° | 120.0° |
| C1 | C6 | C5 | 120.5° | 119.8° |
| C1 | C6 | H6 | 119.8° | 120.6° |
| C1 | C1' | C2' | 116.2° | 113.0° |
| C1 | C1' | O4' | 110.0° | 111.1° |
| C1 | C1' | H1' | 102.8° | 107.1° |
| C7 | C2 | N3 | 117.3° | 114.7° |
| C2 | C7 | O71 | 123.7° | 125.4° |
| C2 | C7 | O72 | 114.8° | 112.4° |
| C2 | N3 | C4 | 126.2° | 116.3° |
| O71 | C7 | O72 | 121.5° | 122.2° |
| C7 | O72 | H72 | 109.5° | 113.0° |
| N3 | C4 | C8 | 125.4° | 115.7° |
| N3 | C4 | C5 | 117.9° | 124.0° |
| C8 | C4 | C5 | 116.7° | 120.3° |
| C4 | C8 | O81 | 122.2° | 125.5° |
| C4 | C8 | O82 | 114.4° | 112.6° |
| C4 | C5 | C6 | 118.8° | 117.9° |
| C4 | C5 | H5 | 120.6° | 121.7° |
| O81 | C8 | O82 | 123.3° | 122.0° |
| C8 | O82 | H82 | 109.5° | 113.2° |
| C6 | C5 | H5 | 120.6° | 120.4° |
| C5 | C6 | H6 | 119.8° | 119.6° |
| C1' | C2' | C3' | 100.9° | 103.0° |
| C1' | C2' | H2'1 | 114.2° | 110.0° |
| C1' | C2' | H2'2 | 112.5° | 114.4° |
| C2' | C1' | O4' | 103.8° | 106.8° |
| C2' | C1' | H1' | 109.1° | 110.5° |
| C3' | C2' | H2'1 | 114.2° | 109.7° |
| C3' | C2' | H2'2 | 112.5° | 112.9° |
| C2' | C3' | C4' | 102.8° | 101.4° |
| C2' | C3' | O3' | 105.6° | 111.3° |
| C2' | C3' | H3' | 115.8° | 110.5° |
| H2'1 | C2' | H2'2 | 103.0° | 106.7° |
| C4' | C5' | H5'1 | 109.3° | 110.1° |
| C4' | C5' | H5'2 | 109.3° | 110.1° |
| C5' | C4' | O4' | 106.5° | 109.7° |
| C5' | C4' | C3' | 115.2° | 113.6° |
| C5' | C4' | H4' | 106.7° | 108.6° |
| H5'1 | C5' | H5'2 | 109.8° | 109.6° |
| O4' | C4' | C3' | 106.4° | 105.5° |
| O4' | C4' | H4' | 115.5° | 108.1° |
| C4' | O4' | C1' | 107.1° | 108.6° |
| C3' | C4' | H4' | 106.9° | 111.1° |
| C4' | C3' | O3' | 109.1° | 112.4° |
| C4' | C3' | H3' | 112.7° | 111.7° |
| O4' | C1' | H1' | 115.4° | 108.2° |
| O3' | C3' | H3' | 110.2° | 109.3° |
| C3' | O3' | H3T | 109.5° | 106.5° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O1P | P | O2P | O5' | 123.2° | 126.6° |
| O1P | P | O2P | O3P | 6.1° | 126.3° |
| O1P | P | O5' | O3P | 2.1° | 125.8° |
| O1P | P | O2P | HOP2 | 97.4° | 48.8° |
| O1P | P | O5' | C5' | 52.3° | 180.0° |
| O1P | P | O3P | HOP3 | 179.7° | 48.0° |
| O2P | P | O5' | O3P | 132.0° | 107.4° |
| O2P | P | O5' | C5' | 77.5° | 53.1° |
| O2P | P | O3P | HOP3 | 136.7° | 78.6° |
| O5' | P | O2P | HOP2 | 25.8° | 175.4° |
| P | O5' | C5' | C4' | 128.1° | 180.0° |
| P | O5' | C5' | H5'1 | 112.1° | 59.8° |
| P | O5' | C5' | H5'2 | 8.1° | 59.9° |
| O5' | P | O3P | HOP3 | 15.3° | 173.7° |
| O3P | P | O2P | HOP2 | 91.3° | 77.6° |
| O3P | P | O5' | C5' | 54.4° | 54.2° |
| O5' | C5' | C4' | H5'1 | 119.8° | 119.5° |
| O5' | C5' | C4' | H5'2 | 120.0° | 119.5° |
| O5' | C5' | H5'1 | H5'2 | 119.9° | 119.5° |
| O5' | C5' | C4' | O4' | 59.0° | 61.7° |
| O5' | C5' | C4' | C3' | 58.6° | 179.5° |
| O5' | C5' | C4' | H4' | 177.1° | 56.3° |
| C2 | C1 | C6 | C1' | 179.8° | 180.0° |
| C1 | C2 | C7 | N3 | 178.4° | 179.9° |
| C1 | C2 | C7 | O71 | 0.1° | 30.0° |
| C1 | C2 | C7 | O72 | 179.8° | 149.9° |
| C1 | C2 | N3 | C4 | 1.4° | 0.0° |
| C2 | C1 | C6 | C5 | 0.1° | 0.0° |
| C2 | C1 | C6 | H6 | 179.9° | 180.0° |
| C2 | C1 | C1' | C2' | 76.6° | 92.0° |
| C2 | C1 | C1' | O4' | 165.9° | 147.9° |
| C2 | C1 | C1' | H1' | 42.5° | 30.0° |
| C6 | C1 | C2 | C7 | 177.5° | 180.0° |
| C6 | C1 | C2 | N3 | 0.8° | 0.0° |
| C1 | C6 | C5 | C4 | 0.1° | 0.1° |
| C1 | C6 | C5 | H6 | 180.0° | 180.0° |
| C1 | C6 | C5 | H5 | 179.9° | 180.0° |
| C6 | C1 | C1' | C2' | 103.2° | 88.0° |
| C6 | C1 | C1' | O4' | 14.3° | 32.1° |
| C6 | C1 | C1' | H1' | 137.7° | 150.0° |
| C1' | C1 | C2 | C7 | 2.7° | 0.0° |
| C1' | C1 | C2 | N3 | 179.0° | 179.9° |
| C1' | C1 | C6 | C5 | 179.7° | 180.0° |
| C1' | C1 | C6 | H6 | 0.3° | 0.0° |
| C1 | C1' | C2' | O4' | 121.0° | 122.5° |
| C1 | C1' | C2' | H1' | 115.5° | 120.0° |
| C1 | C1' | C2' | C3' | 164.7° | 100.0° |
| C1 | C1' | C2' | H2'1 | 41.7° | 143.1° |
| C1 | C1' | C2' | H2'2 | 75.3° | 22.9° |
| C1 | C1' | O4' | C4' | 164.0° | 124.5° |
| C1 | C1' | O4' | H1' | 115.7° | 117.3° |
| C2 | C7 | O71 | O72 | 179.6° | 180.0° |
| C2 | C7 | O72 | H72 | 179.6° | 180.0° |
| C7 | C2 | N3 | C4 | 177.0° | 180.0° |
| N3 | C2 | C7 | O71 | 178.3° | 149.9° |
| N3 | C2 | C7 | O72 | 1.4° | 30.1° |
| C2 | N3 | C4 | C8 | 177.8° | 179.9° |
| C2 | N3 | C4 | C5 | 1.2° | 0.0° |
| O71 | C7 | O72 | H72 | 0.0° | 0.0° |
| N3 | C4 | C8 | C5 | 179.0° | 179.9° |
| N3 | C4 | C8 | O81 | 178.9° | 179.9° |
| N3 | C4 | C8 | O82 | 0.8° | 0.1° |
| N3 | C4 | C5 | C6 | 0.4° | 0.1° |
| N3 | C4 | C5 | H5 | 179.6° | 180.0° |
| C4 | C8 | O81 | O82 | 179.7° | 179.8° |
| C4 | C8 | O82 | H82 | 179.7° | 179.9° |
| C8 | C4 | C5 | C6 | 178.7° | 180.0° |
| C8 | C4 | C5 | H5 | 1.3° | 0.1° |
| C5 | C4 | C8 | O81 | 0.1° | 0.1° |
| C5 | C4 | C8 | O82 | 179.8° | 180.0° |
| C4 | C5 | C6 | H5 | 180.0° | 179.9° |
| C4 | C5 | C6 | H6 | 179.9° | 179.9° |
| O81 | C8 | O82 | H82 | 0.0° | 0.1° |
| H5 | C5 | C6 | H6 | 0.1° | 0.0° |
| C1' | C2' | C3' | H2'1 | 123.0° | 117.1° |
| C1' | C2' | C3' | H2'2 | 120.0° | 124.0° |
| C1' | C2' | H2'1 | H2'2 | 122.3° | 124.7° |
| C2' | C1' | O4' | C4' | 39.0° | 0.8° |
| C1' | C2' | C3' | C4' | 31.4° | 35.4° |
| C2' | C1' | O4' | H1' | 119.3° | 119.0° |
| C1' | C2' | C3' | O3' | 82.9° | 155.2° |
| C1' | C2' | C3' | H3' | 154.8° | 83.1° |
| C3' | C2' | H2'1 | H2'2 | 122.3° | 122.7° |
| C2' | C3' | C4' | C5' | 108.0° | 157.3° |
| C2' | C3' | C4' | O4' | 9.8° | 37.1° |
| C2' | C3' | C4' | O3' | 111.8° | 119.0° |
| C2' | C3' | C4' | H3' | 125.4° | 117.7° |
| C2' | C3' | C4' | H4' | 133.7° | 79.9° |
| C3' | C2' | C1' | O4' | 43.8° | 22.4° |
| C3' | C2' | C1' | H1' | 79.7° | 139.9° |
| C2' | C3' | O3' | H3' | 125.8° | 122.4° |
| C2' | C3' | O3' | H3T | 101.9° | 159.2° |
| H2'1 | C2' | C3' | C4' | 91.6° | 81.7° |
| H2'1 | C2' | C1' | O4' | 79.3° | 94.5° |
| H2'1 | C2' | C1' | H1' | 157.2° | 23.0° |
| H2'1 | C2' | C3' | O3' | 154.1° | 38.0° |
| H2'1 | C2' | C3' | H3' | 31.8° | 159.8° |
| H2'2 | C2' | C3' | C4' | 151.5° | 159.4° |
| H2'2 | C2' | C1' | O4' | 163.8° | 145.4° |
| H2'2 | C2' | C1' | H1' | 40.3° | 97.1° |
| H2'2 | C2' | C3' | O3' | 37.1° | 80.9° |
| H2'2 | C2' | C3' | H3' | 85.2° | 40.9° |
| C4' | C5' | H5'1 | H5'2 | 119.9° | 121.3° |
| C5' | C4' | O4' | C3' | 123.3° | 122.8° |
| C5' | C4' | O4' | H4' | 118.3° | 118.3° |
| C5' | C4' | C3' | H4' | 118.4° | 122.8° |
| C5' | C4' | O4' | C1' | 141.3° | 146.7° |
| C5' | C4' | C3' | O3' | 140.2° | 83.6° |
| C5' | C4' | C3' | H3' | 17.4° | 39.7° |
| H5'1 | C5' | C4' | O4' | 60.8° | 57.9° |
| H5'1 | C5' | C4' | C3' | 178.4° | 60.0° |
| H5'1 | C5' | C4' | H4' | 63.1° | 175.8° |
| H5'2 | C5' | C4' | O4' | 179.1° | 178.8° |
| H5'2 | C5' | C4' | C3' | 61.4° | 60.9° |
| H5'2 | C5' | C4' | H4' | 57.0° | 63.2° |
| O4' | C4' | C3' | H4' | 123.9° | 116.9° |
| C4' | O4' | C1' | H1' | 80.3° | 118.2° |
| O4' | C4' | C3' | O3' | 102.0° | 156.1° |
| O4' | C4' | C3' | H3' | 135.2° | 80.6° |
| C3' | C4' | O4' | C1' | 18.0° | 23.9° |
| C4' | C3' | O3' | H3' | 124.3° | 124.6° |
| C4' | C3' | O3' | H3T | 8.0° | 46.2° |
| H4' | C4' | O4' | C1' | 100.4° | 95.1° |
| H4' | C4' | C3' | O3' | 21.9° | 39.1° |
| H4' | C4' | C3' | H3' | 100.9° | 162.5° |
| H3' | C3' | O3' | H3T | 132.3° | 78.4° |
