8YN
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| O3' | C3' | sing | 1.43Å | 1.42Å | |
| C3' | C4' | sing | 1.54Å | 1.54Å | |
| C3' | C2' | sing | 1.55Å | 1.52Å | |
| C4' | C5' | sing | 1.53Å | 1.53Å | |
| C4' | O4' | sing | 1.44Å | 1.43Å | |
| C2' | C1' | sing | 1.55Å | 1.53Å | |
| C5' | O5' | sing | 1.43Å | 1.43Å | |
| C1' | O4' | sing | 1.44Å | 1.41Å | |
| C1' | C1 | sing | 1.51Å | 1.52Å | |
| O5' | P | sing | 1.61Å | 1.62Å | |
| O2 | C2 | doub | 1.22Å | 1.23Å | |
| C1 | C2 | sing | 1.41Å | 1.42Å | |
| C1 | C6 | doub | 1.37Å | 1.42Å | |
| C2 | N3 | sing | 1.35Å | 1.37Å | |
| O1P | P | sing | 1.61Å | 1.48Å | |
| P | O2P | doub | 1.48Å | 1.48Å | |
| C6 | N5 | sing | 1.33Å | 1.40Å | |
| N3 | C4 | sing | 1.36Å | 1.36Å | |
| N5 | C4 | doub | 1.32Å | 1.37Å | |
| C4 | N4 | sing | 1.37Å | 1.30Å | |
| C6 | H6 | sing | 1.08Å | 1.08Å | |
| O1P | H1 | sing | 0.97Å | 0.95Å | |
| C5' | H52' | sing | 1.09Å | 1.10Å | |
| C5' | H51' | sing | 1.09Å | 1.10Å | |
| C4' | H4' | sing | 1.09Å | 1.10Å | |
| C1' | H1' | sing | 1.09Å | 1.10Å | |
| N3 | H3 | sing | 0.97Å | 1.00Å | |
| N4 | H41 | sing | 0.97Å | 1.00Å | |
| N4 | H42 | sing | 0.97Å | 1.00Å | |
| C2' | H22' | sing | 1.09Å | 1.10Å | |
| C2' | H21' | sing | 1.09Å | 1.10Å | |
| C3' | H3' | sing | 1.09Å | 1.10Å | |
| O3' | H4 | sing | 0.97Å | 0.95Å | |
| P | O3P | sing | 1.61Å | 1.60Å | |
| O3P | H2 | sing | 0.97Å | 0.95Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| O3' | C3' | C4' | 108.8° | 110.5° |
| O3' | C3' | C2' | 111.5° | 110.5° |
| O3' | C3' | H3' | 112.6° | 110.5° |
| C3' | O3' | H4 | 109.5° | 114.0° |
| C4' | C3' | C2' | 101.5° | 104.2° |
| C3' | C4' | C5' | 113.2° | 109.9° |
| C3' | C4' | O4' | 106.7° | 107.3° |
| C3' | C4' | H4' | 108.6° | 110.0° |
| C4' | C3' | H3' | 110.8° | 110.5° |
| C3' | C2' | C1' | 101.2° | 102.1° |
| C3' | C2' | H22' | 111.5° | 110.9° |
| C3' | C2' | H21' | 111.5° | 110.9° |
| C2' | C3' | H3' | 111.0° | 110.5° |
| C5' | C4' | O4' | 109.5° | 109.9° |
| C4' | C5' | O5' | 111.8° | 109.5° |
| C4' | C5' | H52' | 108.9° | 109.5° |
| C4' | C5' | H51' | 108.9° | 109.5° |
| C5' | C4' | H4' | 108.6° | 109.9° |
| C4' | O4' | C1' | 107.7° | 106.9° |
| O4' | C4' | H4' | 110.1° | 109.9° |
| C2' | C1' | O4' | 100.9° | 103.5° |
| C2' | C1' | C1 | 114.2° | 110.6° |
| C2' | C1' | H1' | 109.7° | 110.8° |
| C1' | C2' | H22' | 111.5° | 110.9° |
| C1' | C2' | H21' | 111.5° | 110.9° |
| C5' | O5' | P | 121.5° | 123.0° |
| O5' | C5' | H52' | 108.9° | 109.5° |
| O5' | C5' | H51' | 108.9° | 109.4° |
| O4' | C1' | C1 | 110.4° | 110.6° |
| O4' | C1' | H1' | 111.5° | 110.6° |
| C1' | C1 | C2 | 121.7° | 120.6° |
| C1' | C1 | C6 | 121.3° | 120.5° |
| C1 | C1' | H1' | 109.9° | 110.6° |
| O5' | P | O1P | 105.4° | 109.5° |
| O5' | P | O2P | 109.0° | 109.5° |
| O5' | P | O3P | 104.6° | 109.5° |
| O2 | C2 | C1 | 118.5° | 120.6° |
| O2 | C2 | N3 | 120.1° | 120.6° |
| C2 | C1 | C6 | 117.0° | 118.9° |
| C1 | C2 | N3 | 121.4° | 118.8° |
| C1 | C6 | N5 | 119.5° | 120.1° |
| C1 | C6 | H6 | 120.3° | 119.9° |
| C2 | N3 | C4 | 120.1° | 119.8° |
| C2 | N3 | H3 | 119.9° | 120.2° |
| O1P | P | O2P | 119.8° | 109.5° |
| P | O1P | H1 | 109.5° | 114.0° |
| O1P | P | O3P | 107.7° | 109.4° |
| O2P | P | O3P | 109.2° | 109.5° |
| C6 | N5 | C4 | 120.3° | 121.4° |
| N5 | C6 | H6 | 120.3° | 120.0° |
| N3 | C4 | N5 | 121.5° | 121.1° |
| N3 | C4 | N4 | 116.6° | 119.4° |
| C4 | N3 | H3 | 120.0° | 120.1° |
| N5 | C4 | N4 | 121.8° | 119.5° |
| C4 | N4 | H41 | 120.0° | 120.0° |
| C4 | N4 | H42 | 120.0° | 120.0° |
| H52' | C5' | H51' | 109.5° | 109.4° |
| H41 | N4 | H42 | 120.0° | 120.0° |
| H22' | C2' | H21' | 109.5° | 110.8° |
| P | O3P | H2 | 109.5° | 114.0° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O3' | C3' | C4' | C2' | 117.7° | 118.6° |
| O3' | C3' | C4' | H3' | 124.3° | 122.7° |
| O3' | C3' | C2' | H3' | 126.5° | 122.6° |
| O3' | C3' | C4' | C5' | 131.3° | 119.9° |
| O3' | C3' | C4' | O4' | 108.2° | 120.7° |
| O3' | C3' | C2' | C1' | 82.4° | 97.8° |
| O3' | C3' | C4' | H4' | 10.6° | 1.1° |
| O3' | C3' | C2' | H22' | 159.0° | 20.4° |
| O3' | C3' | C2' | H21' | 36.2° | 144.0° |
| C4' | C3' | C2' | H3' | 117.9° | 118.7° |
| C3' | C4' | C5' | O4' | 118.9° | 117.9° |
| C3' | C4' | C5' | H4' | 120.7° | 121.1° |
| C3' | C4' | O4' | H4' | 117.7° | 119.6° |
| C4' | C3' | C2' | C1' | 33.2° | 20.9° |
| C3' | C4' | C5' | O5' | 168.3° | 175.7° |
| C3' | C4' | O4' | C1' | 20.7° | 26.5° |
| C3' | C4' | C5' | H52' | 48.0° | 64.3° |
| C3' | C4' | C5' | H51' | 71.4° | 55.7° |
| C4' | C3' | C2' | H22' | 85.4° | 139.1° |
| C4' | C3' | C2' | H21' | 151.9° | 97.3° |
| C4' | C3' | O3' | H4 | 180.0° | 180.0° |
| C2' | C3' | C4' | C5' | 111.0° | 121.5° |
| C2' | C3' | C4' | O4' | 9.5° | 2.1° |
| C3' | C2' | C1' | H22' | 118.6° | 118.2° |
| C3' | C2' | C1' | H21' | 118.6° | 118.2° |
| C3' | C2' | C1' | O4' | 46.4° | 37.1° |
| C3' | C2' | C1' | C1 | 164.9° | 155.5° |
| C2' | C3' | C4' | H4' | 128.3° | 117.5° |
| C3' | C2' | C1' | H1' | 71.2° | 81.6° |
| C3' | C2' | H22' | H21' | 123.9° | 123.7° |
| C2' | C3' | O3' | H4 | 68.9° | 65.3° |
| C5' | C4' | O4' | H4' | 119.4° | 121.0° |
| C4' | C5' | O5' | H52' | 120.4° | 120.0° |
| C4' | C5' | O5' | H51' | 120.3° | 120.1° |
| C5' | C4' | O4' | C1' | 143.5° | 146.0° |
| C4' | C5' | O5' | P | 134.4° | 180.0° |
| C4' | C5' | H52' | H51' | 118.9° | 120.0° |
| C5' | C4' | C3' | H3' | 7.0° | 2.8° |
| C4' | O4' | C1' | C2' | 41.9° | 40.1° |
| O4' | C4' | C5' | O5' | 72.8° | 66.5° |
| C4' | O4' | C1' | C1 | 163.0° | 158.6° |
| O4' | C4' | C5' | H52' | 166.9° | 53.6° |
| O4' | C4' | C5' | H51' | 47.6° | 173.5° |
| C4' | O4' | C1' | H1' | 74.5° | 78.6° |
| O4' | C4' | C3' | H3' | 127.5° | 116.6° |
| C2' | C1' | O4' | C1 | 121.2° | 118.5° |
| C2' | C1' | O4' | H1' | 116.4° | 118.7° |
| C2' | C1' | C1 | H1' | 123.8° | 123.1° |
| C2' | C1' | C1 | C2 | 136.1° | 60.5° |
| C2' | C1' | C1 | C6 | 44.3° | 119.2° |
| C1' | C2' | H22' | H21' | 123.9° | 123.6° |
| C1' | C2' | C3' | H3' | 151.1° | 139.6° |
| C5' | O5' | P | O1P | 150.2° | 175.0° |
| C5' | O5' | P | O2P | 20.4° | 55.0° |
| O5' | C5' | H52' | H51' | 118.9° | 119.9° |
| O5' | C5' | C4' | H4' | 47.6° | 54.6° |
| C5' | O5' | P | O3P | 96.4° | 65.0° |
| O4' | C1' | C1 | H1' | 123.3° | 122.9° |
| O4' | C1' | C1 | C2 | 111.0° | 53.5° |
| O4' | C1' | C1 | C6 | 68.6° | 126.8° |
| C1' | O4' | C4' | H4' | 97.1° | 93.0° |
| O4' | C1' | C2' | H22' | 72.2° | 155.3° |
| O4' | C1' | C2' | H21' | 165.1° | 81.2° |
| C1' | C1 | C2 | O2 | 1.2° | 0.3° |
| C1' | C1 | C2 | C6 | 179.6° | 179.7° |
| C1' | C1 | C2 | N3 | 177.8° | 179.7° |
| C1' | C1 | C6 | N5 | 178.7° | 179.7° |
| C1' | C1 | C6 | H6 | 1.3° | 0.3° |
| C1 | C1' | C2' | H22' | 46.3° | 86.3° |
| C1 | C1' | C2' | H21' | 76.5° | 37.3° |
| O5' | P | O1P | O2P | 123.1° | 120.0° |
| O5' | P | O1P | O3P | 111.3° | 120.0° |
| O5' | P | O2P | O3P | 113.8° | 120.0° |
| O5' | P | O1P | H1 | 123.1° | 180.0° |
| P | O5' | C5' | H52' | 105.2° | 59.9° |
| P | O5' | C5' | H51' | 14.1° | 60.0° |
| O5' | P | O3P | H2 | 116.5° | 59.9° |
| O2 | C2 | C1 | N3 | 179.1° | 179.9° |
| O2 | C2 | C1 | C6 | 179.1° | 179.9° |
| O2 | C2 | N3 | C4 | 176.7° | 180.0° |
| O2 | C2 | N3 | H3 | 3.4° | 0.0° |
| C2 | C1 | C6 | N5 | 1.7° | 0.0° |
| C1 | C2 | N3 | C4 | 4.3° | 0.0° |
| C2 | C1 | C6 | H6 | 178.3° | 180.0° |
| C2 | C1 | C1' | H1' | 12.3° | 176.4° |
| C1 | C2 | N3 | H3 | 175.7° | 180.0° |
| C6 | C1 | C2 | N3 | 1.8° | 0.0° |
| C1 | C6 | N5 | H6 | 180.0° | 180.0° |
| C1 | C6 | N5 | C4 | 2.8° | 0.0° |
| C6 | C1 | C1' | H1' | 168.1° | 3.9° |
| C2 | N3 | C4 | H3 | 180.0° | 180.0° |
| C2 | N3 | C4 | N5 | 3.2° | 0.0° |
| C2 | N3 | C4 | N4 | 173.4° | 180.0° |
| O1P | P | O2P | O3P | 124.8° | 120.0° |
| O1P | P | O3P | H2 | 131.6° | 60.1° |
| O2P | P | O1P | H1 | 0.0° | 60.0° |
| O2P | P | O3P | H2 | 0.0° | 180.0° |
| C6 | N5 | C4 | N3 | 0.4° | 0.0° |
| C6 | N5 | C4 | N4 | 176.8° | 180.0° |
| N3 | C4 | N5 | N4 | 176.5° | 180.0° |
| N3 | C4 | N4 | H41 | 176.6° | 0.0° |
| N3 | C4 | N4 | H42 | 3.3° | 180.0° |
| C4 | N5 | C6 | H6 | 177.2° | 179.9° |
| N5 | C4 | N3 | H3 | 176.8° | 180.0° |
| N5 | C4 | N4 | H41 | 0.0° | 180.0° |
| N5 | C4 | N4 | H42 | 180.0° | 0.0° |
| N4 | C4 | N3 | H3 | 6.6° | 0.0° |
| C4 | N4 | H41 | H42 | 179.9° | 180.0° |
| H1 | O1P | P | O3P | 125.6° | 60.0° |
| H52' | C5' | C4' | H4' | 72.8° | 174.6° |
| H51' | C5' | C4' | H4' | 167.9° | 65.4° |
| H4' | C4' | C3' | H3' | 113.8° | 123.8° |
| H1' | C1' | C2' | H22' | 170.1° | 36.6° |
| H1' | C1' | C2' | H21' | 47.4° | 160.2° |
| H22' | C2' | C3' | H3' | 32.5° | 102.2° |
| H21' | C2' | C3' | H3' | 90.2° | 21.4° |
| H3' | C3' | O3' | H4 | 56.7° | 57.3° |
