5PC
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| OP3 | P | sing | 1.62Å | 11.98Å | |
| OP3 | HOP3 | sing | 0.98Å | 0.95Å | |
| P | OP1 | doub | 1.50Å | 1.48Å | |
| P | OP2 | sing | 1.62Å | 1.48Å | |
| P | O5' | sing | 1.62Å | 1.63Å | |
| OP2 | HOP2 | sing | 0.98Å | 0.95Å | |
| C5' | O5' | sing | 1.42Å | 1.43Å | |
| C5' | C4' | sing | 1.52Å | 1.54Å | |
| C5' | H5' | sing | 1.09Å | 1.09Å | |
| C5' | H5'' | sing | 1.09Å | 1.09Å | |
| C4' | O4' | sing | 1.44Å | 1.42Å | |
| C4' | C3' | sing | 1.52Å | 1.53Å | |
| C4' | H4' | sing | 1.09Å | 1.09Å | |
| O4' | C1' | sing | 1.43Å | 1.40Å | |
| C3' | O3' | sing | 1.43Å | 1.41Å | |
| C3' | C2' | sing | 1.51Å | 1.53Å | |
| C3' | H3' | sing | 1.09Å | 1.09Å | |
| O3' | HO3' | sing | 0.97Å | 0.95Å | |
| C2' | C1' | sing | 1.52Å | 1.51Å | |
| C2' | H2' | sing | 1.10Å | 1.09Å | |
| C2' | H2'' | sing | 1.09Å | 1.09Å | |
| C1' | N1 | sing | 1.43Å | 1.44Å | |
| C1' | H1' | sing | 1.10Å | 1.09Å | |
| N1 | C2 | sing | 1.41Å | 1.31Å | |
| N1 | C6 | sing | 1.39Å | 1.30Å | |
| C2 | O2 | doub | 1.23Å | 1.22Å | |
| C2 | N3 | sing | 1.38Å | 1.30Å | |
| N3 | C4 | doub | 1.31Å | 1.27Å | |
| C4 | N4 | sing | 1.38Å | 1.27Å | |
| C4 | C5 | sing | 1.50Å | 1.36Å | |
| N4 | H41 | sing | 0.99Å | 1.01Å | |
| N4 | H42 | sing | 0.99Å | 1.01Å | |
| C5 | C6 | doub | 1.34Å | 1.33Å | |
| C5 | C7 | sing | 1.42Å | 1.46Å | |
| C6 | H6 | sing | 1.09Å | 1.08Å | |
| C7 | C8 | trip | 1.20Å | 1.20Å | |
| C8 | C9 | sing | 1.46Å | 1.46Å | |
| C9 | H91 | sing | 1.09Å | 1.09Å | |
| C9 | H92 | sing | 1.09Å | 1.09Å | |
| C9 | H93 | sing | 1.09Å | 1.09Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| P | OP3 | HOP3 | 90.6° | 118.9° |
| OP3 | P | OP1 | 90.6° | 115.3° |
| OP3 | P | OP2 | 149.7° | 103.3° |
| OP3 | P | O5' | 59.9° | 103.7° |
| OP1 | P | OP2 | 119.5° | 115.0° |
| OP1 | P | O5' | 109.2° | 115.0° |
| OP2 | P | O5' | 108.4° | 102.9° |
| P | OP2 | HOP2 | 149.7° | 118.9° |
| P | O5' | C5' | 122.6° | 118.5° |
| O5' | C5' | C4' | 112.5° | 108.9° |
| O5' | C5' | H5' | 108.5° | 109.0° |
| O5' | C5' | H5'' | 108.9° | 108.9° |
| C4' | C5' | H5' | 109.4° | 110.3° |
| C4' | C5' | H5'' | 108.7° | 110.3° |
| C5' | C4' | O4' | 114.4° | 107.9° |
| C5' | C4' | C3' | 116.0° | 112.9° |
| C5' | C4' | H4' | 105.9° | 109.5° |
| H5' | C5' | H5'' | 108.8° | 109.3° |
| O4' | C4' | C3' | 107.4° | 106.2° |
| O4' | C4' | H4' | 106.0° | 107.9° |
| C4' | O4' | C1' | 105.1° | 109.3° |
| C3' | C4' | H4' | 106.4° | 112.2° |
| C4' | C3' | O3' | 110.4° | 109.9° |
| C4' | C3' | C2' | 102.6° | 103.1° |
| C4' | C3' | H3' | 107.8° | 113.5° |
| O4' | C1' | C2' | 106.7° | 107.4° |
| O4' | C1' | N1 | 106.6° | 109.3° |
| O4' | C1' | H1' | 109.9° | 108.0° |
| O3' | C3' | C2' | 114.9° | 109.7° |
| O3' | C3' | H3' | 110.8° | 107.4° |
| C3' | O3' | HO3' | 110.4° | 107.3° |
| C2' | C3' | H3' | 109.8° | 113.2° |
| C3' | C2' | C1' | 104.2° | 102.5° |
| C3' | C2' | H2' | 112.3° | 109.7° |
| C3' | C2' | H2'' | 108.6° | 114.1° |
| C1' | C2' | H2' | 108.9° | 110.6° |
| C1' | C2' | H2'' | 112.3° | 111.7° |
| C2' | C1' | N1 | 110.6° | 112.8° |
| C2' | C1' | H1' | 110.4° | 111.5° |
| H2' | C2' | H2'' | 110.5° | 108.3° |
| N1 | C1' | H1' | 112.4° | 107.8° |
| C1' | N1 | C2 | 121.3° | 121.9° |
| C1' | N1 | C6 | 120.6° | 118.5° |
| C2 | N1 | C6 | 118.0° | 119.6° |
| N1 | C2 | O2 | 120.8° | 121.1° |
| N1 | C2 | N3 | 121.0° | 118.7° |
| N1 | C6 | C5 | 124.9° | 123.0° |
| N1 | C6 | H6 | 118.6° | 115.3° |
| O2 | C2 | N3 | 118.1° | 120.2° |
| C2 | N3 | C4 | 118.2° | 121.4° |
| N3 | C4 | N4 | 119.9° | 118.8° |
| N3 | C4 | C5 | 125.5° | 121.4° |
| N4 | C4 | C5 | 114.3° | 119.8° |
| C4 | N4 | H41 | 115.5° | 117.9° |
| C4 | N4 | H42 | 115.2° | 117.9° |
| C4 | C5 | C6 | 111.5° | 115.9° |
| C4 | C5 | C7 | 124.0° | 122.5° |
| H41 | N4 | H42 | 129.3° | 124.2° |
| C6 | C5 | C7 | 124.3° | 121.6° |
| C5 | C6 | H6 | 116.6° | 121.7° |
| C5 | C7 | C8 | 172.4° | 180.0° |
| C7 | C8 | C9 | 176.9° | 179.9° |
| C8 | C9 | H91 | 108.2° | 110.9° |
| C8 | C9 | H92 | 109.1° | 110.9° |
| C8 | C9 | H93 | 109.8° | 110.9° |
| H91 | C9 | H92 | 107.8° | 108.0° |
| H91 | C9 | H93 | 110.2° | 108.1° |
| H92 | C9 | H93 | 111.6° | 108.0° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| OP3 | P | OP1 | OP2 | 176.4° | 120.1° |
| OP3 | P | OP1 | O5' | 58.1° | 120.6° |
| OP3 | P | OP2 | O5' | 61.3° | 107.7° |
| OP3 | P | OP2 | HOP2 | 180.0° | 78.5° |
| OP3 | P | O5' | C5' | 106.9° | 53.2° |
| HOP3 | OP3 | P | OP1 | 180.0° | 48.8° |
| HOP3 | OP3 | P | OP2 | 6.2° | 77.5° |
| HOP3 | OP3 | P | O5' | 68.0° | 175.4° |
| OP1 | P | OP2 | O5' | 125.8° | 125.8° |
| OP1 | P | OP2 | HOP2 | 7.1° | 48.0° |
| OP1 | P | O5' | C5' | 174.0° | 179.9° |
| OP2 | P | O5' | C5' | 42.4° | 54.2° |
| O5' | P | OP2 | HOP2 | 118.7° | 173.8° |
| P | O5' | C5' | C4' | 170.4° | 180.0° |
| P | O5' | C5' | H5' | 68.5° | 59.6° |
| P | O5' | C5' | H5'' | 49.8° | 59.6° |
| O5' | C5' | C4' | H5' | 120.7° | 119.6° |
| O5' | C5' | C4' | H5'' | 120.7° | 119.5° |
| O5' | C5' | H5' | H5'' | 118.4° | 119.0° |
| O5' | C5' | C4' | O4' | 65.1° | 62.4° |
| O5' | C5' | C4' | C3' | 60.8° | 179.5° |
| O5' | C5' | C4' | H4' | 178.6° | 54.7° |
| C4' | C5' | H5' | H5'' | 118.6° | 121.5° |
| C5' | C4' | O4' | C3' | 130.3° | 121.4° |
| C5' | C4' | O4' | H4' | 116.3° | 118.2° |
| C5' | C4' | C3' | H4' | 117.5° | 124.3° |
| C5' | C4' | O4' | C1' | 166.2° | 108.6° |
| C5' | C4' | C3' | O3' | 88.3° | 154.2° |
| C5' | C4' | C3' | C2' | 148.7° | 88.8° |
| C5' | C4' | C3' | H3' | 32.8° | 34.0° |
| H5' | C5' | C4' | O4' | 174.3° | 57.1° |
| H5' | C5' | C4' | C3' | 59.9° | 60.0° |
| H5' | C5' | C4' | H4' | 58.0° | 174.3° |
| H5'' | C5' | C4' | O4' | 55.6° | 178.1° |
| H5'' | C5' | C4' | C3' | 178.5° | 61.0° |
| H5'' | C5' | C4' | H4' | 60.7° | 64.8° |
| O4' | C4' | C3' | H4' | 113.2° | 117.6° |
| O4' | C4' | C3' | O3' | 142.3° | 87.7° |
| O4' | C4' | C3' | C2' | 19.4° | 29.2° |
| O4' | C4' | C3' | H3' | 96.5° | 152.1° |
| C4' | O4' | C1' | C2' | 37.8° | 9.0° |
| C4' | O4' | C1' | N1 | 156.0° | 131.7° |
| C4' | O4' | C1' | H1' | 81.9° | 111.3° |
| C3' | C4' | O4' | C1' | 35.9° | 12.7° |
| C4' | C3' | O3' | C2' | 115.4° | 112.7° |
| C4' | C3' | O3' | H3' | 119.4° | 123.9° |
| C4' | C3' | C2' | H3' | 114.5° | 123.0° |
| C4' | C3' | O3' | HO3' | 180.0° | 128.0° |
| C4' | C3' | C2' | C1' | 3.0° | 33.4° |
| C4' | C3' | C2' | H2' | 120.7° | 84.1° |
| C4' | C3' | C2' | H2'' | 116.9° | 154.3° |
| H4' | C4' | O4' | C1' | 77.5° | 133.2° |
| H4' | C4' | C3' | O3' | 29.2° | 29.9° |
| H4' | C4' | C3' | C2' | 93.8° | 146.9° |
| H4' | C4' | C3' | H3' | 150.3° | 90.3° |
| O4' | C1' | C2' | C3' | 24.7° | 26.9° |
| O4' | C1' | C2' | N1 | 115.5° | 120.5° |
| O4' | C1' | C2' | H1' | 119.4° | 118.1° |
| O4' | C1' | C2' | H2' | 144.7° | 90.0° |
| O4' | C1' | C2' | H2'' | 92.6° | 149.4° |
| O4' | C1' | N1 | H1' | 120.5° | 117.1° |
| O4' | C1' | N1 | C2 | 149.7° | 147.2° |
| O4' | C1' | N1 | C6 | 35.0° | 32.9° |
| O3' | C3' | C2' | H3' | 125.7° | 119.9° |
| O3' | C3' | C2' | C1' | 116.8° | 83.6° |
| O3' | C3' | C2' | H2' | 0.8° | 158.9° |
| O3' | C3' | C2' | H2'' | 123.3° | 37.2° |
| C2' | C3' | O3' | HO3' | 64.6° | 119.3° |
| C3' | C2' | C1' | H2' | 120.0° | 116.9° |
| C3' | C2' | C1' | H2'' | 117.3° | 122.5° |
| C3' | C2' | H2' | H2'' | 121.4° | 125.1° |
| C3' | C2' | C1' | N1 | 140.2° | 147.4° |
| C3' | C2' | C1' | H1' | 94.7° | 91.2° |
| H3' | C3' | O3' | HO3' | 60.6° | 4.1° |
| H3' | C3' | C2' | C1' | 117.4° | 156.4° |
| H3' | C3' | C2' | H2' | 124.9° | 38.9° |
| H3' | C3' | C2' | H2'' | 2.4° | 82.7° |
| C1' | C2' | H2' | H2'' | 123.8° | 122.7° |
| C2' | C1' | N1 | H1' | 123.9° | 123.5° |
| C2' | C1' | N1 | C2 | 94.8° | 93.5° |
| C2' | C1' | N1 | C6 | 80.6° | 86.5° |
| H2' | C2' | C1' | N1 | 99.8° | 30.6° |
| H2' | C2' | C1' | H1' | 25.3° | 151.9° |
| H2'' | C2' | C1' | N1 | 22.9° | 90.1° |
| H2'' | C2' | C1' | H1' | 148.0° | 31.3° |
| C1' | N1 | C2 | C6 | 175.5° | 180.0° |
| C1' | N1 | C2 | O2 | 3.1° | 0.1° |
| C1' | N1 | C2 | N3 | 179.7° | 180.0° |
| C1' | N1 | C6 | C5 | 174.4° | 180.0° |
| C1' | N1 | C6 | H6 | 6.3° | 0.0° |
| H1' | C1' | N1 | C2 | 29.1° | 30.0° |
| H1' | C1' | N1 | C6 | 155.5° | 150.0° |
| N1 | C2 | O2 | N3 | 177.4° | 179.9° |
| N1 | C2 | N3 | C4 | 3.6° | 0.0° |
| C2 | N1 | C6 | C5 | 10.1° | 0.0° |
| C2 | N1 | C6 | H6 | 169.2° | 180.0° |
| C6 | N1 | C2 | O2 | 172.4° | 179.9° |
| C6 | N1 | C2 | N3 | 4.8° | 0.0° |
| N1 | C6 | C5 | C4 | 6.0° | 0.0° |
| N1 | C6 | C5 | H6 | 179.3° | 180.0° |
| N1 | C6 | C5 | C7 | 179.9° | 180.0° |
| O2 | C2 | N3 | C4 | 179.0° | 179.9° |
| C2 | N3 | C4 | N4 | 178.9° | 179.9° |
| C2 | N3 | C4 | C5 | 8.0° | 0.0° |
| N3 | C4 | N4 | C5 | 173.9° | 179.9° |
| N3 | C4 | N4 | H41 | 2.0° | 55.7° |
| N3 | C4 | N4 | H42 | 176.8° | 124.3° |
| N3 | C4 | C5 | C6 | 3.3° | 0.0° |
| N3 | C4 | C5 | C7 | 170.6° | 180.0° |
| C4 | N4 | H41 | H42 | 178.6° | 179.9° |
| N4 | C4 | C5 | C6 | 176.8° | 179.9° |
| N4 | C4 | C5 | C7 | 2.9° | 0.0° |
| C5 | C4 | N4 | H41 | 175.9° | 124.3° |
| C5 | C4 | N4 | H42 | 2.9° | 55.6° |
| C4 | C5 | C6 | C7 | 173.9° | 180.0° |
| C4 | C5 | C6 | H6 | 173.3° | 180.0° |
| C4 | C5 | C7 | C8 | 90.7° | 126.7° |
| C6 | C5 | C7 | C8 | 82.5° | 53.3° |
| C7 | C5 | C6 | H6 | 0.6° | 0.0° |
| C5 | C7 | C8 | C9 | 25.0° | 169.3° |
| C7 | C8 | C9 | H91 | 131.7° | 141.5° |
| C7 | C8 | C9 | H92 | 14.6° | 21.6° |
| C7 | C8 | C9 | H93 | 108.0° | 98.4° |
| C8 | C9 | H91 | H92 | 117.9° | 121.7° |
| C8 | C9 | H91 | H93 | 120.1° | 121.7° |
| C8 | C9 | H92 | H93 | 121.5° | 121.7° |
| H91 | C9 | H92 | H93 | 121.1° | 116.7° |
