5HT
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| O5' | C5' | sing | 1.43Å | 1.42Å | |
| O5' | HO5' | sing | 0.97Å | 0.95Å | |
| C5' | C4' | sing | 1.53Å | 1.51Å | |
| C5' | H5' | sing | 1.09Å | 1.12Å | |
| C5' | H5'' | sing | 1.09Å | 1.12Å | |
| C4' | O4' | sing | 1.45Å | 1.47Å | |
| C4' | C3' | sing | 1.55Å | 1.51Å | |
| C4' | H4' | sing | 1.09Å | 1.11Å | |
| O4' | C1' | sing | 1.44Å | 1.43Å | |
| C3' | O3' | sing | 1.43Å | 1.43Å | |
| C3' | C2' | sing | 1.55Å | 1.51Å | |
| C3' | H3' | sing | 1.09Å | 1.12Å | |
| O3' | HO3' | sing | 0.97Å | 0.95Å | |
| C2' | C1' | sing | 1.54Å | 1.53Å | |
| C2' | H2' | sing | 1.09Å | 1.12Å | |
| C2' | H2'' | sing | 1.09Å | 1.11Å | |
| C1' | N1 | sing | 1.46Å | 1.53Å | |
| C1' | H1' | sing | 1.09Å | 1.11Å | |
| N1 | C2 | sing | 1.34Å | 1.27Å | |
| N1 | C6 | sing | 1.46Å | 1.54Å | |
| C2 | O2 | doub | 1.21Å | 1.21Å | |
| C2 | N3 | sing | 1.34Å | 1.40Å | |
| N3 | C4 | sing | 1.35Å | 1.41Å | |
| N3 | H3 | sing | 0.97Å | 1.02Å | |
| C4 | O4 | doub | 1.21Å | 1.21Å | |
| C4 | C5 | sing | 1.51Å | 1.51Å | |
| C5 | C5M | sing | 1.53Å | 1.53Å | |
| C5 | O5 | sing | 1.43Å | 1.40Å | |
| C5 | C6 | sing | 1.53Å | 1.60Å | |
| C5M | H71 | sing | 1.09Å | 1.11Å | |
| C5M | H72 | sing | 1.09Å | 1.11Å | |
| C5M | H73 | sing | 1.09Å | 1.11Å | |
| O5 | HO5 | sing | 0.97Å | 0.95Å | |
| C6 | H61 | sing | 1.09Å | 1.11Å | |
| C6 | H62 | sing | 1.09Å | 1.12Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| C5' | O5' | HO5' | 111.4° | 106.8° |
| O5' | C5' | C4' | 111.4° | 109.5° |
| O5' | C5' | H5' | 111.5° | 109.4° |
| O5' | C5' | H5'' | 111.5° | 109.5° |
| C4' | C5' | H5' | 111.5° | 109.4° |
| C4' | C5' | H5'' | 111.5° | 109.5° |
| C5' | C4' | O4' | 107.6° | 110.7° |
| C5' | C4' | C3' | 115.9° | 110.6° |
| C5' | C4' | H4' | 104.6° | 110.6° |
| H5' | C5' | H5'' | 98.9° | 109.5° |
| O4' | C4' | C3' | 103.3° | 103.6° |
| O4' | C4' | H4' | 117.0° | 110.5° |
| C4' | O4' | C1' | 109.8° | 106.9° |
| C3' | C4' | H4' | 108.9° | 110.7° |
| C4' | C3' | O3' | 114.2° | 110.9° |
| C4' | C3' | C2' | 104.2° | 102.1° |
| C4' | C3' | H3' | 111.3° | 111.0° |
| O4' | C1' | C2' | 106.3° | 107.4° |
| O4' | C1' | N1 | 113.1° | 109.9° |
| O4' | C1' | H1' | 108.4° | 109.8° |
| O3' | C3' | C2' | 113.2° | 110.9° |
| O3' | C3' | H3' | 101.9° | 110.8° |
| C3' | O3' | HO3' | 114.2° | 106.8° |
| C2' | C3' | H3' | 112.3° | 110.9° |
| C3' | C2' | C1' | 105.2° | 104.2° |
| C3' | C2' | H2' | 113.8° | 110.5° |
| C3' | C2' | H2'' | 113.8° | 110.5° |
| C1' | C2' | H2' | 113.8° | 110.5° |
| C1' | C2' | H2'' | 113.9° | 110.4° |
| C2' | C1' | N1 | 106.8° | 109.9° |
| C2' | C1' | H1' | 114.5° | 109.9° |
| H2' | C2' | H2'' | 96.6° | 110.5° |
| N1 | C1' | H1' | 108.0° | 109.9° |
| C1' | N1 | C2 | 120.4° | 119.6° |
| C1' | N1 | C6 | 115.7° | 119.5° |
| C2 | N1 | C6 | 123.6° | 120.9° |
| N1 | C2 | O2 | 121.2° | 119.2° |
| N1 | C2 | N3 | 120.6° | 121.6° |
| N1 | C6 | C5 | 108.5° | 109.5° |
| N1 | C6 | H61 | 112.6° | 109.5° |
| N1 | C6 | H62 | 112.5° | 109.4° |
| O2 | C2 | N3 | 118.1° | 119.2° |
| C2 | N3 | C4 | 123.8° | 121.0° |
| C2 | N3 | H3 | 117.7° | 119.5° |
| C4 | N3 | H3 | 118.4° | 119.5° |
| N3 | C4 | O4 | 120.9° | 120.0° |
| N3 | C4 | C5 | 116.1° | 120.0° |
| O4 | C4 | C5 | 123.0° | 120.0° |
| C4 | C5 | C5M | 109.5° | 109.5° |
| C4 | C5 | O5 | 108.7° | 109.5° |
| C4 | C5 | C6 | 110.3° | 109.2° |
| C5M | C5 | O5 | 109.7° | 109.6° |
| C5M | C5 | C6 | 109.3° | 109.5° |
| C5 | C5M | H71 | 109.4° | 109.4° |
| C5 | C5M | H72 | 112.2° | 109.5° |
| C5 | C5M | H73 | 112.2° | 109.4° |
| O5 | C5 | C6 | 109.4° | 109.5° |
| C5 | O5 | HO5 | 108.7° | 106.7° |
| C5 | C6 | H61 | 112.6° | 109.5° |
| C5 | C6 | H62 | 112.6° | 109.4° |
| H71 | C5M | H72 | 112.3° | 109.5° |
| H71 | C5M | H73 | 112.2° | 109.5° |
| H72 | C5M | H73 | 98.3° | 109.5° |
| H61 | C6 | H62 | 97.9° | 109.5° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O5' | C5' | C4' | H5' | 125.3° | 119.9° |
| O5' | C5' | C4' | H5'' | 125.3° | 120.1° |
| O5' | C5' | H5' | H5'' | 117.4° | 120.0° |
| O5' | C5' | C4' | O4' | 11.6° | 65.7° |
| O5' | C5' | C4' | C3' | 103.4° | 180.0° |
| O5' | C5' | C4' | H4' | 136.7° | 57.0° |
| HO5' | O5' | C5' | C4' | 179.9° | 180.0° |
| HO5' | O5' | C5' | H5' | 54.7° | 60.0° |
| HO5' | O5' | C5' | H5'' | 54.8° | 60.0° |
| C4' | C5' | H5' | H5'' | 117.4° | 120.0° |
| C5' | C4' | O4' | C3' | 123.1° | 118.6° |
| C5' | C4' | O4' | H4' | 117.3° | 122.8° |
| C5' | C4' | C3' | H4' | 117.5° | 122.9° |
| C5' | C4' | O4' | C1' | 153.2° | 158.5° |
| C5' | C4' | C3' | O3' | 85.1° | 86.2° |
| C5' | C4' | C3' | C2' | 150.8° | 155.6° |
| C5' | C4' | C3' | H3' | 29.6° | 37.5° |
| H5' | C5' | C4' | O4' | 136.8° | 174.3° |
| H5' | C5' | C4' | C3' | 21.8° | 60.1° |
| H5' | C5' | C4' | H4' | 98.1° | 62.9° |
| H5'' | C5' | C4' | O4' | 113.7° | 54.4° |
| H5'' | C5' | C4' | C3' | 131.2° | 59.9° |
| H5'' | C5' | C4' | H4' | 11.3° | 177.1° |
| O4' | C4' | C3' | H4' | 125.0° | 118.4° |
| O4' | C4' | C3' | O3' | 157.4° | 155.2° |
| O4' | C4' | C3' | C2' | 33.4° | 37.0° |
| O4' | C4' | C3' | H3' | 87.9° | 81.2° |
| C4' | O4' | C1' | C2' | 14.1° | 26.3° |
| C4' | O4' | C1' | N1 | 131.0° | 145.8° |
| C4' | O4' | C1' | H1' | 109.4° | 93.1° |
| C3' | C4' | O4' | C1' | 30.0° | 39.9° |
| C4' | C3' | O3' | C2' | 119.1° | 112.7° |
| C4' | C3' | O3' | H3' | 120.1° | 123.7° |
| C4' | C3' | C2' | H3' | 120.6° | 118.3° |
| C4' | C3' | O3' | HO3' | 180.0° | 174.1° |
| C4' | C3' | C2' | C1' | 25.3° | 20.9° |
| C4' | C3' | C2' | H2' | 150.5° | 97.8° |
| C4' | C3' | C2' | H2'' | 100.0° | 139.6° |
| H4' | C4' | O4' | C1' | 89.6° | 78.7° |
| H4' | C4' | C3' | O3' | 32.4° | 36.7° |
| H4' | C4' | C3' | C2' | 91.6° | 81.5° |
| H4' | C4' | C3' | H3' | 147.1° | 160.3° |
| O4' | C1' | C2' | C3' | 7.5° | 1.9° |
| O4' | C1' | C2' | N1 | 121.0° | 119.5° |
| O4' | C1' | C2' | H1' | 119.6° | 119.4° |
| O4' | C1' | C2' | H2' | 132.7° | 120.6° |
| O4' | C1' | C2' | H2'' | 117.8° | 116.8° |
| O4' | C1' | N1 | H1' | 119.9° | 121.0° |
| O4' | C1' | N1 | C2 | 135.2° | 58.4° |
| O4' | C1' | N1 | C6 | 50.8° | 121.7° |
| O3' | C3' | C2' | H3' | 114.7° | 123.5° |
| O3' | C3' | C2' | C1' | 149.9° | 139.2° |
| O3' | C3' | C2' | H2' | 84.8° | 20.5° |
| O3' | C3' | C2' | H2'' | 24.6° | 102.2° |
| C2' | C3' | O3' | HO3' | 61.0° | 61.4° |
| C3' | C2' | C1' | H2' | 125.2° | 118.7° |
| C3' | C2' | C1' | H2'' | 125.3° | 118.7° |
| C3' | C2' | H2' | H2'' | 119.7° | 122.7° |
| C3' | C2' | C1' | N1 | 113.5° | 121.4° |
| C3' | C2' | C1' | H1' | 127.1° | 117.5° |
| H3' | C3' | O3' | HO3' | 59.8° | 62.1° |
| H3' | C3' | C2' | C1' | 95.3° | 97.3° |
| H3' | C3' | C2' | H2' | 29.9° | 144.0° |
| H3' | C3' | C2' | H2'' | 139.4° | 21.3° |
| C1' | C2' | H2' | H2'' | 119.8° | 122.5° |
| C2' | C1' | N1 | H1' | 123.6° | 121.0° |
| C2' | C1' | N1 | C2 | 108.2° | 59.6° |
| C2' | C1' | N1 | C6 | 65.7° | 120.3° |
| H2' | C2' | C1' | N1 | 11.7° | 119.9° |
| H2' | C2' | C1' | H1' | 107.7° | 1.2° |
| H2'' | C2' | C1' | N1 | 121.3° | 2.7° |
| H2'' | C2' | C1' | H1' | 1.9° | 123.8° |
| C1' | N1 | C2 | C6 | 173.4° | 179.9° |
| C1' | N1 | C2 | O2 | 4.8° | 5.6° |
| C1' | N1 | C2 | N3 | 176.7° | 174.3° |
| C1' | N1 | C6 | C5 | 152.5° | 144.2° |
| C1' | N1 | C6 | H61 | 27.2° | 24.1° |
| C1' | N1 | C6 | H62 | 82.2° | 95.8° |
| H1' | C1' | N1 | C2 | 15.4° | 179.4° |
| H1' | C1' | N1 | C6 | 170.7° | 0.7° |
| N1 | C2 | O2 | N3 | 178.5° | 180.0° |
| N1 | C2 | N3 | C4 | 1.4° | 12.1° |
| N1 | C2 | N3 | H3 | 178.6° | 168.0° |
| C2 | N1 | C6 | C5 | 33.8° | 35.9° |
| C2 | N1 | C6 | H61 | 159.0° | 155.9° |
| C2 | N1 | C6 | H62 | 91.5° | 84.1° |
| C6 | N1 | C2 | O2 | 168.6° | 174.3° |
| C6 | N1 | C2 | N3 | 9.9° | 5.7° |
| N1 | C6 | C5 | C4 | 45.4° | 46.6° |
| N1 | C6 | C5 | C5M | 74.9° | 166.6° |
| N1 | C6 | C5 | O5 | 164.9° | 73.3° |
| N1 | C6 | C5 | H61 | 125.3° | 120.1° |
| N1 | C6 | C5 | H62 | 125.2° | 119.9° |
| N1 | C6 | H61 | H62 | 118.5° | 120.0° |
| O2 | C2 | N3 | C4 | 179.9° | 167.9° |
| O2 | C2 | N3 | H3 | 0.0° | 12.0° |
| C2 | N3 | C4 | H3 | 179.9° | 179.9° |
| C2 | N3 | C4 | O4 | 164.2° | 175.5° |
| C2 | N3 | C4 | C5 | 15.3° | 4.3° |
| N3 | C4 | O4 | C5 | 179.4° | 179.8° |
| N3 | C4 | C5 | C5M | 81.5° | 154.0° |
| N3 | C4 | C5 | O5 | 158.7° | 85.8° |
| N3 | C4 | C5 | C6 | 38.7° | 34.1° |
| H3 | N3 | C4 | O4 | 15.7° | 4.5° |
| H3 | N3 | C4 | C5 | 164.8° | 175.6° |
| O4 | C4 | C5 | C5M | 99.0° | 25.8° |
| O4 | C4 | C5 | O5 | 20.8° | 94.4° |
| O4 | C4 | C5 | C6 | 140.7° | 145.7° |
| C4 | C5 | C5M | O5 | 119.2° | 120.2° |
| C4 | C5 | C5M | C6 | 120.9° | 119.8° |
| C4 | C5 | O5 | C6 | 120.5° | 119.7° |
| C4 | C5 | C5M | H71 | 180.0° | 60.1° |
| C4 | C5 | C5M | H72 | 54.7° | 59.9° |
| C4 | C5 | C5M | H73 | 54.8° | 179.9° |
| C4 | C5 | O5 | HO5 | 180.0° | 60.2° |
| C4 | C5 | C6 | H61 | 170.7° | 166.7° |
| C4 | C5 | C6 | H62 | 79.8° | 73.3° |
| C5M | C5 | O5 | C6 | 119.9° | 120.1° |
| C5 | C5M | H71 | H72 | 125.2° | 120.0° |
| C5 | C5M | H71 | H73 | 125.2° | 119.9° |
| C5 | C5M | H72 | H73 | 118.1° | 120.0° |
| C5M | C5 | O5 | HO5 | 60.4° | 59.9° |
| C5M | C5 | C6 | H61 | 50.4° | 73.3° |
| C5M | C5 | C6 | H62 | 159.8° | 46.7° |
| O5 | C5 | C5M | H71 | 60.8° | 60.0° |
| O5 | C5 | C5M | H72 | 64.4° | 180.0° |
| O5 | C5 | C5M | H73 | 173.9° | 59.9° |
| O5 | C5 | C6 | H61 | 69.8° | 46.8° |
| O5 | C5 | C6 | H62 | 39.7° | 166.8° |
| C6 | C5 | C5M | H71 | 59.1° | 179.9° |
| C6 | C5 | C5M | H72 | 175.6° | 59.9° |
| C6 | C5 | C5M | H73 | 66.1° | 60.1° |
| C6 | C5 | O5 | HO5 | 59.5° | 180.0° |
| C5 | C6 | H61 | H62 | 118.5° | 120.0° |
| H71 | C5M | H72 | H73 | 118.2° | 120.0° |
