D5X
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| O3 | C3 | sing | 1.43Å | 1.41Å | |
| C5 | O5 | sing | 1.43Å | 1.42Å | |
| C5 | C4 | sing | 1.53Å | 1.51Å | |
| C3 | C4 | sing | 1.53Å | 1.54Å | |
| C3 | O3' | sing | 1.43Å | 1.38Å | |
| C3 | C2 | sing | 1.51Å | 1.58Å | |
| O5 | P | sing | 1.61Å | 1.50Å | |
| O2 | C2 | doub | 1.21Å | 1.25Å | |
| C4 | O4 | sing | 1.43Å | 1.42Å | |
| O2P | P | doub | 1.48Å | 1.54Å | |
| C2 | C1 | sing | 1.51Å | 1.56Å | |
| O3P | P | sing | 1.61Å | 1.62Å | |
| P | O1P | sing | 1.61Å | 1.53Å | |
| O3P | H1 | sing | 0.97Å | 0.95Å | |
| O1P | H2 | sing | 0.97Å | 0.95Å | |
| C5 | H3 | sing | 1.09Å | 1.10Å | |
| C5 | H4 | sing | 1.09Å | 1.10Å | |
| C4 | H5 | sing | 1.09Å | 1.10Å | |
| O4 | H6 | sing | 0.97Å | 0.95Å | |
| O3 | H7 | sing | 0.97Å | 0.95Å | |
| O3' | H8 | sing | 0.97Å | 0.95Å | |
| C1 | H9 | sing | 1.09Å | 1.10Å | |
| C1 | H10 | sing | 1.09Å | 1.10Å | |
| C1 | H11 | sing | 1.09Å | 1.10Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| O3 | C3 | C4 | 118.8° | 109.5° |
| O3 | C3 | O3' | 117.3° | 109.5° |
| O3 | C3 | C2 | 93.8° | 109.4° |
| C3 | O3 | H7 | 109.5° | 114.0° |
| O5 | C5 | C4 | 108.7° | 109.5° |
| C5 | O5 | P | 119.6° | 123.0° |
| O5 | C5 | H3 | 109.7° | 109.5° |
| O5 | C5 | H4 | 109.7° | 109.5° |
| C5 | C4 | C3 | 107.1° | 109.5° |
| C5 | C4 | O4 | 102.2° | 109.5° |
| C4 | C5 | H3 | 109.7° | 109.5° |
| C4 | C5 | H4 | 109.7° | 109.5° |
| C5 | C4 | H5 | 110.3° | 109.5° |
| C4 | C3 | O3' | 122.3° | 109.5° |
| C4 | C3 | C2 | 98.2° | 109.5° |
| C3 | C4 | O4 | 115.3° | 109.4° |
| C3 | C4 | H5 | 110.0° | 109.5° |
| O3' | C3 | C2 | 90.3° | 109.5° |
| C3 | O3' | H8 | 109.5° | 114.0° |
| C3 | C2 | O2 | 124.4° | 120.0° |
| C3 | C2 | C1 | 117.6° | 120.0° |
| O5 | P | O2P | 105.5° | 109.4° |
| O5 | P | O3P | 116.9° | 109.5° |
| O5 | P | O1P | 103.2° | 109.5° |
| O2 | C2 | C1 | 117.8° | 119.9° |
| O4 | C4 | H5 | 111.6° | 109.5° |
| C4 | O4 | H6 | 109.5° | 114.0° |
| O2P | P | O3P | 108.0° | 109.5° |
| O2P | P | O1P | 111.3° | 109.5° |
| C2 | C1 | H9 | 109.5° | 109.5° |
| C2 | C1 | H10 | 109.4° | 109.5° |
| C2 | C1 | H11 | 109.5° | 109.4° |
| O3P | P | O1P | 111.8° | 109.5° |
| P | O3P | H1 | 109.5° | 114.0° |
| P | O1P | H2 | 109.5° | 114.1° |
| H3 | C5 | H4 | 109.5° | 109.5° |
| H9 | C1 | H10 | 109.5° | 109.5° |
| H9 | C1 | H11 | 109.4° | 109.4° |
| H10 | C1 | H11 | 109.5° | 109.4° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O3 | C3 | C4 | C5 | 82.1° | 65.0° |
| O3 | C3 | C4 | O3' | 165.4° | 120.0° |
| O3 | C3 | C4 | C2 | 99.0° | 120.0° |
| O3 | C3 | O3' | C2 | 94.4° | 119.9° |
| O3 | C3 | C2 | O2 | 34.0° | 5.0° |
| O3 | C3 | C4 | O4 | 165.0° | 175.0° |
| O3 | C3 | C2 | C1 | 141.8° | 175.0° |
| O3 | C3 | C4 | H5 | 37.7° | 55.0° |
| O3 | C3 | O3' | H8 | 180.0° | 179.9° |
| O5 | C5 | C4 | H3 | 119.9° | 120.0° |
| O5 | C5 | C4 | H4 | 119.9° | 120.0° |
| O5 | C5 | C4 | C3 | 167.5° | 175.0° |
| O5 | C5 | C4 | O4 | 71.0° | 65.0° |
| C5 | O5 | P | O2P | 161.3° | 55.1° |
| C5 | O5 | P | O3P | 41.3° | 175.0° |
| C5 | O5 | P | O1P | 81.7° | 65.0° |
| O5 | C5 | H3 | H4 | 120.4° | 120.0° |
| O5 | C5 | C4 | H5 | 47.8° | 55.0° |
| C5 | C4 | C3 | O4 | 112.9° | 120.0° |
| C5 | C4 | C3 | H5 | 119.8° | 120.0° |
| C5 | C4 | C3 | O3' | 83.3° | 55.0° |
| C5 | C4 | C3 | C2 | 178.9° | 175.0° |
| C4 | C5 | O5 | P | 115.9° | 180.0° |
| C5 | C4 | O4 | H5 | 117.8° | 120.0° |
| C4 | C5 | H3 | H4 | 120.3° | 120.0° |
| C5 | C4 | O4 | H6 | 180.0° | 60.0° |
| C4 | C3 | O3' | C2 | 100.0° | 120.0° |
| C4 | C3 | C2 | O2 | 85.9° | 125.0° |
| C3 | C4 | O4 | H5 | 126.4° | 120.0° |
| C4 | C3 | C2 | C1 | 98.3° | 55.0° |
| C3 | C4 | C5 | H3 | 47.6° | 55.0° |
| C3 | C4 | C5 | H4 | 72.6° | 65.0° |
| C3 | C4 | O4 | H6 | 64.2° | 60.0° |
| C4 | C3 | O3 | H7 | 87.8° | 59.9° |
| C4 | C3 | O3' | H8 | 14.4° | 60.1° |
| O3' | C3 | C2 | O2 | 151.4° | 115.0° |
| O3' | C3 | C4 | O4 | 29.6° | 65.0° |
| O3' | C3 | C2 | C1 | 24.4° | 65.0° |
| O3' | C3 | C4 | H5 | 156.8° | 175.0° |
| O3' | C3 | O3 | H7 | 106.1° | 179.9° |
| C3 | C2 | O2 | C1 | 175.8° | 180.0° |
| C2 | C3 | C4 | O4 | 66.0° | 55.0° |
| C2 | C3 | C4 | H5 | 61.2° | 65.0° |
| C2 | C3 | O3 | H7 | 13.8° | 60.1° |
| C2 | C3 | O3' | H8 | 85.6° | 60.0° |
| C3 | C2 | C1 | H9 | 176.1° | 90.0° |
| C3 | C2 | C1 | H10 | 56.0° | 150.0° |
| C3 | C2 | C1 | H11 | 64.0° | 30.0° |
| O5 | P | O2P | O3P | 125.7° | 120.0° |
| O5 | P | O2P | O1P | 111.2° | 120.0° |
| O5 | P | O3P | O1P | 118.5° | 120.0° |
| O5 | P | O3P | H1 | 118.7° | 180.0° |
| O5 | P | O1P | H2 | 112.7° | 60.0° |
| P | O5 | C5 | H3 | 124.2° | 60.1° |
| P | O5 | C5 | H4 | 4.0° | 60.0° |
| O2 | C2 | C1 | H9 | 0.0° | 90.0° |
| O2 | C2 | C1 | H10 | 120.0° | 30.1° |
| O2 | C2 | C1 | H11 | 120.0° | 150.0° |
| O4 | C4 | C5 | H3 | 169.1° | 175.0° |
| O4 | C4 | C5 | H4 | 48.9° | 55.0° |
| O2P | P | O3P | O1P | 122.8° | 120.0° |
| O2P | P | O3P | H1 | 0.0° | 60.0° |
| O2P | P | O1P | H2 | 0.0° | 180.0° |
| C2 | C1 | H9 | H10 | 120.0° | 120.1° |
| C2 | C1 | H9 | H11 | 120.0° | 120.0° |
| C2 | C1 | H10 | H11 | 120.0° | 120.0° |
| O3P | P | O1P | H2 | 120.9° | 60.0° |
| O1P | P | O3P | H1 | 122.8° | 60.0° |
| H3 | C5 | C4 | H5 | 72.1° | 65.0° |
| H4 | C5 | C4 | H5 | 167.7° | 175.0° |
| H5 | C4 | O4 | H6 | 62.2° | 180.0° |
| H9 | C1 | H10 | H11 | 120.0° | 119.9° |
