5GS
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| O2B | PB | sing | 1.61Å | 1.53Å | |
| O1B | PB | doub | 1.48Å | 1.53Å | |
| PB | O3B | sing | 1.61Å | 1.52Å | |
| PB | O3A | sing | 1.61Å | 1.62Å | |
| O2A | PA | sing | 1.61Å | 1.52Å | |
| O3' | C3' | sing | 1.43Å | 1.44Å | |
| C5' | C4' | sing | 1.53Å | 1.53Å | |
| C5' | O5' | sing | 1.43Å | 1.44Å | |
| O3A | PA | sing | 1.61Å | 1.62Å | |
| PA | O5' | sing | 1.61Å | 1.60Å | |
| PA | O1A | doub | 1.48Å | 1.49Å | |
| C4' | C3' | sing | 1.55Å | 1.52Å | |
| C4' | O4' | sing | 1.44Å | 1.45Å | |
| C3' | C2' | sing | 1.55Å | 1.53Å | |
| O2' | C2' | sing | 1.43Å | 1.47Å | |
| O4' | C1' | sing | 1.45Å | 1.43Å | |
| C2' | C1' | sing | 1.54Å | 1.54Å | |
| C2' | C2M | sing | 1.53Å | 1.52Å | |
| C1' | N1 | sing | 1.47Å | 1.47Å | |
| N1 | C6 | sing | 1.37Å | 1.36Å | |
| N1 | C2 | sing | 1.35Å | 1.44Å | |
| C6 | C5 | doub | 1.35Å | 1.40Å | |
| O2 | C2 | doub | 1.22Å | 1.35Å | |
| C2 | N3 | sing | 1.35Å | 1.34Å | |
| C5 | C4 | sing | 1.42Å | 1.41Å | |
| N3 | C4 | sing | 1.35Å | 1.36Å | |
| C4 | O4 | doub | 1.22Å | 1.36Å | |
| C5 | H1 | sing | 1.08Å | 1.08Å | |
| N3 | H2 | sing | 0.97Å | 1.00Å | |
| C6 | H3 | sing | 1.08Å | 1.08Å | |
| O2B | H4 | sing | 0.97Å | 0.95Å | |
| O3B | H5 | sing | 0.97Å | 0.95Å | |
| O2A | H8 | sing | 0.97Å | 0.95Å | |
| C5' | H9 | sing | 1.09Å | 1.10Å | |
| C5' | H10 | sing | 1.09Å | 1.10Å | |
| C4' | H11 | sing | 1.09Å | 1.10Å | |
| C3' | H12 | sing | 1.09Å | 1.10Å | |
| O3' | H13 | sing | 0.97Å | 0.95Å | |
| C2M | H14 | sing | 1.09Å | 1.10Å | |
| C2M | H15 | sing | 1.09Å | 1.10Å | |
| C2M | H16 | sing | 1.09Å | 1.10Å | |
| O2' | H17 | sing | 0.97Å | 0.95Å | |
| C1' | H18 | sing | 1.09Å | 1.10Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| O2B | PB | O1B | 118.3° | 109.4° |
| O2B | PB | O3B | 113.7° | 109.5° |
| O2B | PB | O3A | 106.1° | 109.5° |
| PB | O2B | H4 | 109.5° | 114.0° |
| O1B | PB | O3B | 109.6° | 109.5° |
| O1B | PB | O3A | 102.3° | 109.4° |
| O3B | PB | O3A | 105.2° | 109.5° |
| PB | O3B | H5 | 109.5° | 114.0° |
| PB | O3A | PA | 127.3° | 134.0° |
| O2A | PA | O3A | 113.3° | 109.4° |
| O2A | PA | O5' | 111.8° | 109.5° |
| O2A | PA | O1A | 119.2° | 109.5° |
| PA | O2A | H8 | 109.5° | 114.0° |
| O3' | C3' | C4' | 116.1° | 110.5° |
| O3' | C3' | C2' | 114.5° | 110.5° |
| O3' | C3' | H12 | 109.1° | 110.6° |
| C3' | O3' | H13 | 109.5° | 113.9° |
| C4' | C5' | O5' | 110.6° | 109.5° |
| C5' | C4' | C3' | 112.5° | 110.3° |
| C5' | C4' | O4' | 113.5° | 110.4° |
| C4' | C5' | H9 | 109.2° | 109.5° |
| C4' | C5' | H10 | 109.2° | 109.5° |
| C5' | C4' | H11 | 108.5° | 110.3° |
| C5' | O5' | PA | 124.6° | 123.0° |
| O5' | C5' | H9 | 109.2° | 109.5° |
| O5' | C5' | H10 | 109.2° | 109.4° |
| O3A | PA | O5' | 99.7° | 109.5° |
| O3A | PA | O1A | 107.5° | 109.5° |
| O5' | PA | O1A | 103.2° | 109.5° |
| C3' | C4' | O4' | 104.3° | 104.8° |
| C4' | C3' | C2' | 100.7° | 104.0° |
| C3' | C4' | H11 | 108.6° | 110.4° |
| C4' | C3' | H12 | 108.0° | 110.5° |
| C4' | O4' | C1' | 111.4° | 105.2° |
| O4' | C4' | H11 | 109.4° | 110.5° |
| C3' | C2' | O2' | 114.2° | 110.5° |
| C3' | C2' | C1' | 103.6° | 104.1° |
| C3' | C2' | C2M | 105.1° | 110.5° |
| C2' | C3' | H12 | 107.8° | 110.5° |
| O2' | C2' | C1' | 108.6° | 110.5° |
| O2' | C2' | C2M | 110.4° | 110.6° |
| C2' | O2' | H17 | 109.5° | 114.0° |
| O4' | C1' | C2' | 104.4° | 104.8° |
| O4' | C1' | N1 | 115.2° | 110.3° |
| O4' | C1' | H18 | 110.1° | 110.4° |
| C1' | C2' | C2M | 114.9° | 110.6° |
| C2' | C1' | N1 | 108.9° | 110.4° |
| C2' | C1' | H18 | 108.5° | 110.4° |
| C2' | C2M | H14 | 109.5° | 109.5° |
| C2' | C2M | H15 | 109.5° | 109.5° |
| C2' | C2M | H16 | 109.5° | 109.4° |
| C1' | N1 | C6 | 122.2° | 119.7° |
| C1' | N1 | C2 | 118.4° | 119.7° |
| N1 | C1' | H18 | 109.5° | 110.5° |
| C6 | N1 | C2 | 119.4° | 120.6° |
| N1 | C6 | C5 | 119.1° | 119.7° |
| N1 | C6 | H3 | 120.5° | 120.2° |
| N1 | C2 | O2 | 121.2° | 119.5° |
| N1 | C2 | N3 | 122.0° | 120.9° |
| C6 | C5 | C4 | 119.3° | 119.1° |
| C6 | C5 | H1 | 120.3° | 120.4° |
| C5 | C6 | H3 | 120.4° | 120.2° |
| O2 | C2 | N3 | 116.8° | 119.5° |
| C2 | N3 | C4 | 118.2° | 120.3° |
| C2 | N3 | H2 | 120.9° | 119.8° |
| C5 | C4 | N3 | 122.0° | 119.4° |
| C5 | C4 | O4 | 120.9° | 120.3° |
| C4 | C5 | H1 | 120.4° | 120.4° |
| N3 | C4 | O4 | 117.1° | 120.3° |
| C4 | N3 | H2 | 120.9° | 119.9° |
| H9 | C5' | H10 | 109.5° | 109.5° |
| H14 | C2M | H15 | 109.4° | 109.5° |
| H14 | C2M | H16 | 109.5° | 109.5° |
| H15 | C2M | H16 | 109.5° | 109.5° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| O2B | PB | O1B | O3B | 132.5° | 120.0° |
| O2B | PB | O1B | O3A | 116.2° | 120.0° |
| O2B | PB | O3B | O3A | 115.7° | 120.1° |
| O2B | PB | O3A | PA | 4.2° | 74.9° |
| O2B | PB | O3B | H5 | 134.9° | 60.0° |
| O1B | PB | O3B | O3A | 109.4° | 120.0° |
| O1B | PB | O3A | PA | 128.9° | 45.0° |
| O1B | PB | O2B | H4 | 0.0° | 180.0° |
| O1B | PB | O3B | H5 | 0.0° | 60.0° |
| O3B | PB | O3A | PA | 116.6° | 165.0° |
| O3B | PB | O2B | H4 | 130.7° | 60.0° |
| PB | O3A | PA | O2A | 34.1° | 75.1° |
| PB | O3A | PA | O5' | 84.8° | 164.9° |
| PB | O3A | PA | O1A | 167.9° | 45.0° |
| O3A | PB | O2B | H4 | 114.1° | 60.0° |
| O3A | PB | O3B | H5 | 109.4° | 180.0° |
| O2A | PA | O5' | C5' | 27.6° | 65.0° |
| O2A | PA | O3A | O5' | 118.9° | 120.0° |
| O2A | PA | O3A | O1A | 133.8° | 120.0° |
| O2A | PA | O5' | O1A | 129.3° | 120.1° |
| O3' | C3' | C4' | C5' | 75.8° | 98.6° |
| O3' | C3' | C4' | C2' | 124.3° | 118.6° |
| O3' | C3' | C4' | H12 | 122.8° | 122.8° |
| O3' | C3' | C4' | O4' | 160.9° | 142.6° |
| O3' | C3' | C2' | H12 | 121.6° | 122.7° |
| O3' | C3' | C2' | O2' | 45.4° | 0.0° |
| O3' | C3' | C2' | C1' | 163.3° | 118.6° |
| O3' | C3' | C2' | C2M | 75.8° | 122.7° |
| O3' | C3' | C4' | H11 | 44.3° | 23.6° |
| C4' | C5' | O5' | H9 | 120.2° | 120.0° |
| C4' | C5' | O5' | H10 | 120.1° | 120.0° |
| C4' | C5' | O5' | PA | 153.0° | 180.0° |
| C5' | C4' | C3' | O4' | 123.4° | 118.8° |
| C5' | C4' | C3' | H11 | 120.0° | 122.2° |
| C5' | C4' | O4' | H11 | 121.3° | 122.3° |
| C5' | C4' | C3' | C2' | 159.9° | 142.8° |
| C5' | C4' | O4' | C1' | 144.8° | 159.3° |
| C4' | C5' | H9 | H10 | 119.4° | 120.1° |
| C5' | C4' | C3' | H12 | 47.0° | 24.2° |
| C5' | O5' | PA | O3A | 92.4° | 175.0° |
| C5' | O5' | PA | O1A | 156.9° | 55.1° |
| O5' | C5' | C4' | C3' | 57.4° | 175.0° |
| O5' | C5' | C4' | O4' | 60.7° | 69.6° |
| O5' | C5' | H9 | H10 | 119.5° | 120.0° |
| O5' | C5' | C4' | H11 | 177.5° | 52.8° |
| O3A | PA | O5' | O1A | 110.7° | 120.0° |
| O3A | PA | O2A | H8 | 127.9° | 60.0° |
| O5' | PA | O2A | H8 | 120.4° | 59.9° |
| PA | O5' | C5' | H9 | 86.8° | 60.0° |
| PA | O5' | C5' | H10 | 32.8° | 60.0° |
| O1A | PA | O2A | H8 | 0.0° | 180.0° |
| C3' | C4' | O4' | H11 | 116.0° | 118.9° |
| C4' | C3' | C2' | H12 | 113.0° | 118.6° |
| C4' | C3' | C2' | O2' | 80.0° | 118.6° |
| C3' | C4' | O4' | C1' | 22.0° | 40.5° |
| C4' | C3' | C2' | C1' | 37.9° | 0.1° |
| C4' | C3' | C2' | C2M | 158.9° | 118.7° |
| C3' | C4' | C5' | H9 | 177.6° | 65.0° |
| C3' | C4' | C5' | H10 | 62.8° | 55.0° |
| C4' | C3' | O3' | H13 | 180.0° | 61.5° |
| O4' | C4' | C3' | C2' | 36.6° | 24.0° |
| C4' | O4' | C1' | C2' | 2.4° | 40.5° |
| C4' | O4' | C1' | N1 | 117.0° | 159.3° |
| O4' | C4' | C5' | H9 | 59.5° | 50.4° |
| O4' | C4' | C5' | H10 | 179.1° | 170.4° |
| O4' | C4' | C3' | H12 | 76.3° | 94.6° |
| C4' | O4' | C1' | H18 | 118.7° | 78.3° |
| C3' | C2' | O2' | C1' | 115.0° | 114.6° |
| C3' | C2' | O2' | C2M | 118.1° | 122.7° |
| C3' | C2' | C1' | O4' | 25.7° | 24.0° |
| C3' | C2' | C1' | C2M | 114.0° | 118.7° |
| C3' | C2' | C1' | N1 | 97.8° | 142.8° |
| C2' | C3' | C4' | H11 | 80.0° | 95.0° |
| C2' | C3' | O3' | H13 | 63.1° | 176.1° |
| C3' | C2' | C2M | H14 | 180.0° | 61.3° |
| C3' | C2' | C2M | H15 | 60.0° | 178.7° |
| C3' | C2' | C2M | H16 | 60.0° | 58.7° |
| C3' | C2' | O2' | H17 | 180.0° | 61.5° |
| C3' | C2' | C1' | H18 | 143.0° | 94.8° |
| O2' | C2' | C1' | O4' | 96.1° | 142.6° |
| O2' | C2' | C1' | C2M | 124.2° | 122.7° |
| O2' | C2' | C1' | N1 | 140.4° | 98.6° |
| O2' | C2' | C3' | H12 | 166.9° | 122.8° |
| O2' | C2' | C2M | H14 | 56.4° | 61.4° |
| O2' | C2' | C2M | H15 | 176.4° | 58.7° |
| O2' | C2' | C2M | H16 | 63.6° | 178.6° |
| O2' | C2' | C1' | H18 | 21.2° | 23.8° |
| O4' | C1' | C2' | N1 | 123.5° | 118.8° |
| O4' | C1' | C2' | H18 | 117.4° | 118.8° |
| O4' | C1' | C2' | C2M | 139.7° | 94.7° |
| O4' | C1' | N1 | H18 | 124.7° | 122.3° |
| O4' | C1' | N1 | C6 | 30.7° | 20.5° |
| O4' | C1' | N1 | C2 | 152.1° | 159.5° |
| C1' | O4' | C4' | H11 | 94.0° | 78.4° |
| C2' | C1' | N1 | H18 | 118.5° | 122.4° |
| C2' | C1' | N1 | C6 | 86.1° | 94.8° |
| C2' | C1' | N1 | C2 | 91.1° | 85.1° |
| C1' | C2' | C3' | H12 | 75.1° | 118.7° |
| C1' | C2' | C2M | H14 | 66.8° | 175.9° |
| C1' | C2' | C2M | H15 | 53.2° | 64.0° |
| C1' | C2' | C2M | H16 | 173.2° | 56.0° |
| C1' | C2' | O2' | H17 | 64.9° | 176.1° |
| C2M | C2' | C1' | N1 | 16.2° | 24.1° |
| C2M | C2' | C3' | H12 | 45.8° | 0.0° |
| C2' | C2M | H14 | H15 | 120.0° | 120.0° |
| C2' | C2M | H14 | H16 | 120.0° | 120.0° |
| C2' | C2M | H15 | H16 | 120.0° | 120.0° |
| C2M | C2' | O2' | H17 | 61.9° | 61.2° |
| C2M | C2' | C1' | H18 | 102.9° | 146.5° |
| C1' | N1 | C6 | C2 | 177.1° | 180.0° |
| C1' | N1 | C6 | C5 | 177.7° | 180.0° |
| C1' | N1 | C2 | O2 | 2.4° | 0.3° |
| C1' | N1 | C2 | N3 | 178.1° | 180.0° |
| C1' | N1 | C6 | H3 | 2.3° | 0.0° |
| N1 | C6 | C5 | H3 | 180.0° | 179.9° |
| C6 | N1 | C2 | O2 | 179.6° | 179.7° |
| C6 | N1 | C2 | N3 | 0.8° | 0.0° |
| N1 | C6 | C5 | C4 | 0.1° | 0.1° |
| N1 | C6 | C5 | H1 | 179.8° | 180.0° |
| C6 | N1 | C1' | H18 | 155.4° | 142.8° |
| C2 | N1 | C6 | C5 | 0.6° | 0.0° |
| N1 | C2 | O2 | N3 | 179.6° | 179.7° |
| N1 | C2 | N3 | C4 | 0.3° | 0.0° |
| N1 | C2 | N3 | H2 | 179.7° | 180.0° |
| C2 | N1 | C6 | H3 | 179.5° | 180.0° |
| C2 | N1 | C1' | H18 | 27.5° | 37.2° |
| C6 | C5 | C4 | H1 | 180.0° | 180.0° |
| C6 | C5 | C4 | N3 | 0.7° | 0.1° |
| C6 | C5 | C4 | O4 | 179.8° | 180.0° |
| O2 | C2 | N3 | C4 | 179.9° | 179.7° |
| O2 | C2 | N3 | H2 | 0.1° | 0.3° |
| C2 | N3 | C4 | C5 | 0.4° | 0.0° |
| C2 | N3 | C4 | H2 | 180.0° | 179.9° |
| C2 | N3 | C4 | O4 | 179.6° | 180.0° |
| C5 | C4 | N3 | O4 | 179.2° | 180.0° |
| C5 | C4 | N3 | H2 | 179.6° | 179.9° |
| C4 | C5 | C6 | H3 | 179.8° | 180.0° |
| N3 | C4 | C5 | H1 | 179.3° | 180.0° |
| O4 | C4 | C5 | H1 | 0.2° | 0.0° |
| O4 | C4 | N3 | H2 | 0.4° | 0.1° |
| H1 | C5 | C6 | H3 | 0.2° | 0.1° |
| H9 | C5' | C4' | H11 | 62.3° | 172.8° |
| H10 | C5' | C4' | H11 | 57.3° | 67.2° |
| H11 | C4' | C3' | H12 | 167.1° | 146.4° |
| H12 | C3' | O3' | H13 | 57.8° | 61.2° |
| H14 | C2M | H15 | H16 | 120.0° | 120.0° |
