UY1
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| OP1 | P | doub | 1.48Å | 1.49Å | |
| P | O5' | sing | 1.61Å | 1.58Å | |
| P | OP2 | sing | 1.61Å | 1.48Å | |
| O5' | C5' | sing | 1.43Å | 1.41Å | |
| C5' | C4' | sing | 1.53Å | 1.50Å | |
| N1 | C6 | sing | 1.37Å | 1.32Å | |
| N1 | C2 | sing | 1.35Å | 1.33Å | |
| C6 | C5 | doub | 1.35Å | 1.37Å | |
| C4' | C3' | sing | 1.55Å | 1.51Å | |
| C4' | O4' | sing | 1.44Å | 1.43Å | |
| O2 | C2 | doub | 1.22Å | 1.24Å | |
| C3' | O3' | sing | 1.43Å | 1.42Å | |
| C3' | C2' | sing | 1.55Å | 1.52Å | |
| O4' | C1' | sing | 1.44Å | 1.40Å | |
| C2 | N3 | sing | 1.35Å | 1.32Å | |
| C5 | C1' | sing | 1.51Å | 1.46Å | |
| C5 | C4 | sing | 1.42Å | 1.46Å | |
| C1' | C2' | sing | 1.54Å | 1.53Å | |
| C2' | O2' | sing | 1.43Å | 1.41Å | |
| N3 | C4 | sing | 1.35Å | 1.32Å | |
| C4 | O4 | doub | 1.22Å | 1.24Å | |
| O2' | CM2 | sing | 1.43Å | 1.42Å | |
| C1' | H1' | sing | 1.09Å | 1.10Å | |
| C2' | H2' | sing | 1.09Å | 1.10Å | |
| C3' | H3' | sing | 1.09Å | 1.10Å | |
| C4' | H4' | sing | 1.09Å | 1.10Å | |
| C5' | H5' | sing | 1.09Å | 1.10Å | |
| C5' | H5'' | sing | 1.09Å | 1.10Å | |
| C6 | H6 | sing | 1.08Å | 1.08Å | |
| CM2 | H21 | sing | 1.09Å | 1.10Å | |
| CM2 | H23 | sing | 1.09Å | 1.10Å | |
| CM2 | H22 | sing | 1.09Å | 1.10Å | |
| N3 | HN3 | sing | 0.97Å | 1.00Å | |
| O3' | HO3 | sing | 0.97Å | 0.95Å | |
| OP2 | HOP2 | sing | 0.97Å | 0.95Å | |
| P | OP3 | sing | 1.61Å | 1.60Å | |
| OP3 | HOP3 | sing | 0.97Å | 0.95Å | |
| N1 | HN1 | sing | 0.97Å | 1.00Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| OP1 | P | O5' | 106.6° | 109.5° |
| OP1 | P | OP2 | 118.5° | 109.5° |
| OP1 | P | OP3 | 111.8° | 109.5° |
| O5' | P | OP2 | 105.8° | 109.5° |
| P | O5' | C5' | 120.7° | 123.0° |
| O5' | P | OP3 | 102.5° | 109.4° |
| P | OP2 | HOP2 | 109.5° | 114.0° |
| OP2 | P | OP3 | 110.1° | 109.5° |
| O5' | C5' | C4' | 110.5° | 109.4° |
| O5' | C5' | H5' | 109.2° | 109.5° |
| O5' | C5' | H5'' | 109.2° | 109.4° |
| C5' | C4' | C3' | 116.1° | 110.6° |
| C5' | C4' | O4' | 108.5° | 110.6° |
| C5' | C4' | H4' | 109.2° | 110.7° |
| C4' | C5' | H5' | 109.2° | 109.5° |
| C4' | C5' | H5'' | 109.2° | 109.5° |
| C6 | N1 | C2 | 122.4° | 120.6° |
| N1 | C6 | C5 | 119.3° | 119.7° |
| N1 | C6 | H6 | 120.4° | 120.1° |
| C6 | N1 | HN1 | 118.8° | 119.7° |
| N1 | C2 | O2 | 120.0° | 119.5° |
| N1 | C2 | N3 | 121.6° | 120.9° |
| C2 | N1 | HN1 | 118.8° | 119.7° |
| C6 | C5 | C1' | 121.2° | 120.4° |
| C6 | C5 | C4 | 117.2° | 119.1° |
| C5 | C6 | H6 | 120.3° | 120.2° |
| C3' | C4' | O4' | 104.0° | 103.5° |
| C4' | C3' | O3' | 112.7° | 110.9° |
| C4' | C3' | C2' | 102.6° | 102.1° |
| C4' | C3' | H3' | 108.9° | 110.9° |
| C3' | C4' | H4' | 108.9° | 110.6° |
| C4' | O4' | C1' | 109.9° | 107.0° |
| O4' | C4' | H4' | 110.0° | 110.6° |
| O2 | C2 | N3 | 118.4° | 119.5° |
| O3' | C3' | C2' | 113.4° | 110.9° |
| O3' | C3' | H3' | 110.2° | 110.8° |
| C3' | O3' | HO3 | 109.5° | 114.0° |
| C3' | C2' | C1' | 102.5° | 104.2° |
| C3' | C2' | O2' | 110.3° | 110.5° |
| C3' | C2' | H2' | 111.4° | 110.6° |
| C2' | C3' | H3' | 108.8° | 110.9° |
| O4' | C1' | C5 | 107.9° | 110.0° |
| O4' | C1' | C2' | 108.0° | 107.3° |
| O4' | C1' | H1' | 110.5° | 109.9° |
| C2 | N3 | C4 | 120.4° | 120.3° |
| C2 | N3 | HN3 | 119.8° | 119.9° |
| C1' | C5 | C4 | 121.6° | 120.4° |
| C5 | C1' | C2' | 112.4° | 109.9° |
| C5 | C1' | H1' | 109.4° | 109.8° |
| C5 | C4 | N3 | 119.1° | 119.4° |
| C5 | C4 | O4 | 120.1° | 120.3° |
| C1' | C2' | O2' | 107.8° | 110.5° |
| C2' | C1' | H1' | 108.6° | 109.9° |
| C1' | C2' | H2' | 111.3° | 110.5° |
| C2' | O2' | CM2 | 109.8° | 114.0° |
| O2' | C2' | H2' | 113.1° | 110.4° |
| N3 | C4 | O4 | 120.8° | 120.3° |
| C4 | N3 | HN3 | 119.8° | 119.9° |
| O2' | CM2 | H21 | 109.5° | 109.5° |
| O2' | CM2 | H23 | 109.5° | 109.5° |
| O2' | CM2 | H22 | 109.4° | 109.5° |
| H5' | C5' | H5'' | 109.5° | 109.5° |
| H21 | CM2 | H23 | 109.5° | 109.4° |
| H21 | CM2 | H22 | 109.5° | 109.4° |
| H23 | CM2 | H22 | 109.5° | 109.5° |
| P | OP3 | HOP3 | 109.5° | 114.0° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| OP1 | P | O5' | OP2 | 127.0° | 120.0° |
| OP1 | P | O5' | OP3 | 117.6° | 120.0° |
| OP1 | P | OP2 | OP3 | 130.5° | 120.0° |
| OP1 | P | O5' | C5' | 8.0° | 55.0° |
| OP1 | P | OP2 | HOP2 | 0.0° | 180.0° |
| OP1 | P | OP3 | HOP3 | 0.0° | 60.0° |
| O5' | P | OP2 | OP3 | 110.1° | 120.0° |
| P | O5' | C5' | C4' | 110.4° | 180.0° |
| P | O5' | C5' | H5' | 9.8° | 60.0° |
| P | O5' | C5' | H5'' | 129.5° | 60.0° |
| O5' | P | OP2 | HOP2 | 119.3° | 60.0° |
| O5' | P | OP3 | HOP3 | 113.8° | 180.0° |
| OP2 | P | O5' | C5' | 119.0° | 65.0° |
| OP2 | P | OP3 | HOP3 | 134.0° | 60.0° |
| O5' | C5' | C4' | H5' | 120.2° | 120.0° |
| O5' | C5' | C4' | H5'' | 120.2° | 120.0° |
| O5' | C5' | C4' | C3' | 90.2° | 175.1° |
| O5' | C5' | C4' | O4' | 153.2° | 70.9° |
| O5' | C5' | C4' | H4' | 33.3° | 52.0° |
| O5' | C5' | H5' | H5'' | 119.5° | 120.0° |
| C5' | O5' | P | OP3 | 125.6° | 175.0° |
| C5' | C4' | C3' | O4' | 119.1° | 118.5° |
| C5' | C4' | C3' | H4' | 123.6° | 123.1° |
| C5' | C4' | O4' | H4' | 119.3° | 123.0° |
| C5' | C4' | C3' | O3' | 82.4° | 86.3° |
| C5' | C4' | C3' | C2' | 155.3° | 155.5° |
| C5' | C4' | O4' | C1' | 152.7° | 158.6° |
| C5' | C4' | C3' | H3' | 40.2° | 37.3° |
| C4' | C5' | H5' | H5'' | 119.5° | 120.0° |
| C6 | N1 | C2 | HN1 | 180.0° | 180.0° |
| N1 | C6 | C5 | H6 | 180.0° | 180.0° |
| C6 | N1 | C2 | O2 | 179.7° | 179.8° |
| C6 | N1 | C2 | N3 | 0.2° | 0.0° |
| N1 | C6 | C5 | C1' | 179.9° | 180.0° |
| N1 | C6 | C5 | C4 | 0.9° | 0.0° |
| C2 | N1 | C6 | C5 | 0.5° | 0.0° |
| N1 | C2 | O2 | N3 | 179.5° | 179.8° |
| N1 | C2 | N3 | C4 | 0.4° | 0.0° |
| C2 | N1 | C6 | H6 | 179.5° | 180.0° |
| N1 | C2 | N3 | HN3 | 179.6° | 180.0° |
| C6 | C5 | C1' | O4' | 35.5° | 127.1° |
| C6 | C5 | C1' | C4 | 179.1° | 180.0° |
| C6 | C5 | C1' | C2' | 83.5° | 115.0° |
| C6 | C5 | C4 | N3 | 0.8° | 0.0° |
| C6 | C5 | C4 | O4 | 179.3° | 180.0° |
| C6 | C5 | C1' | H1' | 155.7° | 6.0° |
| C5 | C6 | N1 | HN1 | 179.5° | 180.0° |
| C3' | C4' | O4' | H4' | 116.5° | 118.5° |
| C4' | C3' | O3' | C2' | 116.0° | 112.7° |
| C4' | C3' | O3' | H3' | 121.8° | 123.6° |
| C4' | C3' | C2' | H3' | 115.2° | 118.3° |
| C3' | C4' | O4' | C1' | 28.5° | 40.0° |
| C4' | C3' | C2' | C1' | 30.2° | 20.9° |
| C4' | C3' | C2' | O2' | 84.3° | 97.8° |
| C4' | C3' | C2' | H2' | 149.3° | 139.6° |
| C3' | C4' | C5' | H5' | 149.6° | 55.0° |
| C3' | C4' | C5' | H5'' | 30.0° | 65.0° |
| C4' | C3' | O3' | HO3 | 180.0° | 67.2° |
| O4' | C4' | C3' | O3' | 158.5° | 155.2° |
| O4' | C4' | C3' | C2' | 36.2° | 37.0° |
| C4' | O4' | C1' | C5 | 130.6° | 146.0° |
| C4' | O4' | C1' | C2' | 8.8° | 26.5° |
| C4' | O4' | C1' | H1' | 109.8° | 92.9° |
| O4' | C4' | C3' | H3' | 79.0° | 81.2° |
| O4' | C4' | C5' | H5' | 33.0° | 169.1° |
| O4' | C4' | C5' | H5'' | 86.7° | 49.1° |
| O2 | C2 | N3 | C4 | 179.9° | 179.8° |
| O2 | C2 | N3 | HN3 | 0.1° | 0.3° |
| O2 | C2 | N1 | HN1 | 0.3° | 0.2° |
| O3' | C3' | C2' | H3' | 122.9° | 123.6° |
| O3' | C3' | C2' | C1' | 152.1° | 139.1° |
| O3' | C3' | C2' | O2' | 37.6° | 20.4° |
| O3' | C3' | C2' | H2' | 88.8° | 102.2° |
| O3' | C3' | C4' | H4' | 41.3° | 36.8° |
| C3' | C2' | C1' | O4' | 14.3° | 2.0° |
| C3' | C2' | C1' | C5 | 104.7° | 121.6° |
| C3' | C2' | C1' | O2' | 116.3° | 118.7° |
| C3' | C2' | C1' | H2' | 119.1° | 118.8° |
| C3' | C2' | O2' | H2' | 125.4° | 122.7° |
| C3' | C2' | O2' | CM2 | 124.9° | 95.2° |
| C3' | C2' | C1' | H1' | 134.1° | 117.4° |
| C2' | C3' | C4' | H4' | 81.1° | 81.4° |
| C2' | C3' | O3' | HO3 | 64.0° | 180.0° |
| O4' | C1' | C5 | C2' | 119.0° | 117.9° |
| O4' | C1' | C5 | H1' | 120.2° | 121.0° |
| O4' | C1' | C5 | C4 | 143.6° | 53.0° |
| O4' | C1' | C2' | H1' | 119.8° | 119.4° |
| O4' | C1' | C2' | O2' | 102.1° | 120.7° |
| O4' | C1' | C2' | H2' | 133.4° | 116.8° |
| C1' | O4' | C4' | H4' | 88.0° | 78.4° |
| C2 | N3 | C4 | C5 | 0.1° | 0.0° |
| C2 | N3 | C4 | HN3 | 180.0° | 180.0° |
| C2 | N3 | C4 | O4 | 179.9° | 179.9° |
| N3 | C2 | N1 | HN1 | 179.8° | 180.0° |
| C5 | C1' | C2' | H1' | 121.2° | 121.0° |
| C5 | C1' | C2' | O2' | 139.0° | 119.7° |
| C1' | C5 | C4 | N3 | 179.9° | 180.0° |
| C1' | C5 | C4 | O4 | 0.1° | 0.1° |
| C5 | C1' | C2' | H2' | 14.4° | 2.8° |
| C1' | C5 | C6 | H6 | 0.1° | 0.0° |
| C4 | C5 | C1' | C2' | 97.4° | 65.0° |
| C5 | C4 | N3 | O4 | 180.0° | 179.9° |
| C4 | C5 | C1' | H1' | 23.4° | 174.0° |
| C4 | C5 | C6 | H6 | 179.1° | 179.9° |
| C5 | C4 | N3 | HN3 | 179.9° | 179.9° |
| C1' | C2' | O2' | H2' | 123.4° | 122.5° |
| C1' | C2' | O2' | CM2 | 124.0° | 150.0° |
| C1' | C2' | C3' | H3' | 85.0° | 97.4° |
| O2' | C2' | C1' | H1' | 17.7° | 1.3° |
| O2' | C2' | C3' | H3' | 160.5° | 143.9° |
| C2' | O2' | CM2 | H21 | 180.0° | 60.0° |
| C2' | O2' | CM2 | H23 | 60.0° | 179.9° |
| C2' | O2' | CM2 | H22 | 60.0° | 60.0° |
| O4 | C4 | N3 | HN3 | 0.1° | 0.0° |
| CM2 | O2' | C2' | H2' | 0.5° | 27.4° |
| O2' | CM2 | H21 | H23 | 120.0° | 120.0° |
| O2' | CM2 | H21 | H22 | 120.0° | 120.0° |
| O2' | CM2 | H23 | H22 | 120.0° | 120.1° |
| H1' | C1' | C2' | H2' | 106.8° | 123.8° |
| H2' | C2' | C3' | H3' | 34.1° | 21.4° |
| H3' | C3' | C4' | H4' | 163.8° | 160.3° |
| H3' | C3' | O3' | HO3 | 58.2° | 56.4° |
| H4' | C4' | C5' | H5' | 86.9° | 68.0° |
| H4' | C4' | C5' | H5'' | 153.5° | 172.0° |
| H6 | C6 | N1 | HN1 | 0.5° | 0.0° |
| H21 | CM2 | H23 | H22 | 120.0° | 119.9° |
| HOP2 | OP2 | P | OP3 | 130.6° | 60.0° |
