RFJ
Bonds
| First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
| S | P | doub | 1.86Å | 0.00Å | |
| OP2 | P | sing | 1.61Å | 0.00Å | |
| P | O5' | sing | 1.61Å | 0.00Å | |
| O3' | C3' | sing | 1.43Å | 0.00Å | |
| C5' | O5' | sing | 1.43Å | 0.00Å | |
| C5' | C4' | sing | 1.53Å | 0.00Å | |
| C3' | C4' | sing | 1.54Å | 0.00Å | |
| C3' | C2' | sing | 1.55Å | 0.00Å | |
| C4' | O4' | sing | 1.44Å | 0.00Å | |
| C2' | O2' | sing | 1.43Å | 0.00Å | |
| C2' | C1' | sing | 1.55Å | 0.00Å | |
| O4' | C1' | sing | 1.44Å | 0.00Å | |
| C8 | N7 | doub | 1.30Å | 0.00Å | Aromatic |
| C8 | N9 | sing | 1.37Å | 0.00Å | Aromatic |
| O2' | C | sing | 1.43Å | 0.00Å | |
| N7 | C5 | sing | 1.36Å | 0.00Å | Aromatic |
| C1' | N9 | sing | 1.47Å | 0.00Å | |
| N9 | C4 | sing | 1.37Å | 0.00Å | Aromatic |
| C5 | C4 | doub | 1.40Å | 0.00Å | Aromatic |
| C5 | C6 | sing | 1.41Å | 0.00Å | |
| C4 | N3 | sing | 1.34Å | 0.00Å | |
| O6 | C6 | doub | 1.22Å | 0.00Å | |
| C6 | N1 | sing | 1.35Å | 0.00Å | |
| N3 | C2 | doub | 1.31Å | 0.00Å | |
| N1 | C2 | sing | 1.36Å | 0.00Å | |
| C2 | N2 | sing | 1.37Å | 0.00Å | |
| C | H1 | sing | 1.09Å | 0.00Å | |
| C | H2 | sing | 1.09Å | 0.00Å | |
| C | H3 | sing | 1.09Å | 0.00Å | |
| C1' | H4 | sing | 1.09Å | 0.00Å | |
| C2' | H5 | sing | 1.09Å | 0.00Å | |
| C3' | H6 | sing | 1.09Å | 0.00Å | |
| C4' | H7 | sing | 1.09Å | 0.00Å | |
| C5' | H8 | sing | 1.09Å | 0.00Å | |
| C5' | H9 | sing | 1.09Å | 0.00Å | |
| C8 | H10 | sing | 1.08Å | 0.00Å | |
| N1 | H11 | sing | 0.97Å | 0.00Å | |
| N2 | H12 | sing | 0.97Å | 0.00Å | |
| N2 | H13 | sing | 0.97Å | 0.00Å | |
| O3' | HO3' | sing | 0.97Å | 0.00Å | |
| OP2 | HOP2 | sing | 0.97Å | 0.00Å | |
| P | OP3 | sing | 1.61Å | 0.00Å | |
| OP3 | HOP3 | sing | 0.97Å | 0.00Å |
Angles
| First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
| S | P | OP2 | 90.0° | 109.5° |
| S | P | O5' | 90.0° | 109.5° |
| S | P | OP3 | 90.0° | 109.5° |
| OP2 | P | O5' | 90.0° | 109.4° |
| P | OP2 | HOP2 | 90.0° | 113.9° |
| OP2 | P | OP3 | 90.0° | 109.5° |
| P | O5' | C5' | 90.0° | 123.0° |
| O5' | P | OP3 | 90.0° | 109.5° |
| O3' | C3' | C4' | 90.0° | 110.5° |
| O3' | C3' | C2' | 90.0° | 110.6° |
| O3' | C3' | H6 | 90.0° | 110.5° |
| C3' | O3' | HO3' | 90.0° | 114.0° |
| O5' | C5' | C4' | 90.0° | 109.5° |
| O5' | C5' | H8 | 90.0° | 109.5° |
| O5' | C5' | H9 | 90.0° | 109.5° |
| C5' | C4' | C3' | 90.0° | 109.9° |
| C5' | C4' | O4' | 90.0° | 109.9° |
| C5' | C4' | H7 | 90.0° | 110.0° |
| C4' | C5' | H8 | 90.0° | 109.5° |
| C4' | C5' | H9 | 90.0° | 109.5° |
| C4' | C3' | C2' | 90.0° | 104.2° |
| C3' | C4' | O4' | 90.0° | 107.4° |
| C4' | C3' | H6 | 90.0° | 110.5° |
| C3' | C4' | H7 | 90.0° | 109.9° |
| C3' | C2' | O2' | 90.0° | 110.9° |
| C3' | C2' | C1' | 90.0° | 102.1° |
| C3' | C2' | H5 | 90.0° | 110.9° |
| C2' | C3' | H6 | 90.0° | 110.3° |
| C4' | O4' | C1' | 90.0° | 106.9° |
| O4' | C4' | H7 | 90.0° | 109.7° |
| O2' | C2' | C1' | 90.0° | 110.9° |
| C2' | O2' | C | 90.0° | 114.0° |
| O2' | C2' | H5 | 90.0° | 110.8° |
| C2' | C1' | O4' | 90.0° | 103.7° |
| C2' | C1' | N9 | 90.0° | 110.6° |
| C2' | C1' | H4 | 90.0° | 110.6° |
| C1' | C2' | H5 | 90.0° | 110.9° |
| O4' | C1' | N9 | 90.0° | 110.7° |
| O4' | C1' | H4 | 90.0° | 110.6° |
| N7 | C8 | N9 | 90.0° | 109.8° |
| C8 | N7 | C5 | 90.0° | 109.3° |
| N7 | C8 | H10 | 90.0° | 125.1° |
| C8 | N9 | C1' | 90.0° | 126.2° |
| C8 | N9 | C4 | 90.0° | 107.5° |
| N9 | C8 | H10 | 90.0° | 125.1° |
| O2' | C | H1 | 90.0° | 109.5° |
| O2' | C | H2 | 90.0° | 109.5° |
| O2' | C | H3 | 90.0° | 109.5° |
| N7 | C5 | C4 | 90.0° | 107.2° |
| N7 | C5 | C6 | 90.0° | 134.1° |
| C1' | N9 | C4 | 90.0° | 126.3° |
| N9 | C1' | H4 | 90.0° | 110.5° |
| N9 | C4 | C5 | 90.0° | 106.1° |
| N9 | C4 | N3 | 90.0° | 134.2° |
| C4 | C5 | C6 | 90.0° | 118.6° |
| C5 | C4 | N3 | 90.0° | 119.7° |
| C5 | C6 | O6 | 90.0° | 120.9° |
| C5 | C6 | N1 | 90.0° | 118.4° |
| C4 | N3 | C2 | 90.0° | 121.1° |
| O6 | C6 | N1 | 90.0° | 120.8° |
| C6 | N1 | C2 | 90.0° | 120.3° |
| C6 | N1 | H11 | 90.0° | 119.9° |
| N3 | C2 | N1 | 90.0° | 121.9° |
| N3 | C2 | N2 | 90.0° | 119.0° |
| N1 | C2 | N2 | 90.0° | 119.1° |
| C2 | N1 | H11 | 90.0° | 119.8° |
| C2 | N2 | H12 | 90.0° | 120.0° |
| C2 | N2 | H13 | 90.0° | 120.0° |
| H1 | C | H2 | 90.0° | 109.5° |
| H1 | C | H3 | 90.0° | 109.5° |
| H2 | C | H3 | 90.0° | 109.4° |
| H8 | C5' | H9 | 90.0° | 109.4° |
| H12 | N2 | H13 | 90.0° | 120.0° |
| P | OP3 | HOP3 | 90.0° | 114.0° |
Dihedrals
| First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
| S | P | OP2 | O5' | 90.0° | 120.0° |
| S | P | OP2 | OP3 | 90.0° | 120.0° |
| S | P | O5' | OP3 | 90.0° | 120.0° |
| S | P | O5' | C5' | 90.0° | 45.0° |
| S | P | OP2 | HOP2 | 90.0° | 60.0° |
| S | P | OP3 | HOP3 | 90.0° | 180.0° |
| OP2 | P | O5' | OP3 | 90.0° | 120.0° |
| OP2 | P | O5' | C5' | 90.0° | 165.0° |
| OP2 | P | OP3 | HOP3 | 90.0° | 59.9° |
| P | O5' | C5' | C4' | 90.0° | 180.0° |
| P | O5' | C5' | H8 | 90.0° | 60.0° |
| P | O5' | C5' | H9 | 90.0° | 60.0° |
| O5' | P | OP2 | HOP2 | 90.0° | 180.0° |
| O5' | P | OP3 | HOP3 | 90.0° | 60.0° |
| O3' | C3' | C4' | C5' | 90.0° | 119.7° |
| O3' | C3' | C4' | C2' | 90.0° | 118.8° |
| O3' | C3' | C4' | H6 | 90.0° | 122.7° |
| O3' | C3' | C2' | H6 | 90.0° | 122.6° |
| O3' | C3' | C4' | O4' | 90.0° | 120.7° |
| O3' | C3' | C2' | O2' | 90.0° | 20.3° |
| O3' | C3' | C2' | C1' | 90.0° | 97.9° |
| O3' | C3' | C2' | H5 | 90.0° | 143.9° |
| O3' | C3' | C4' | H7 | 90.0° | 1.4° |
| O5' | C5' | C4' | H8 | 90.0° | 120.0° |
| O5' | C5' | C4' | H9 | 90.0° | 120.0° |
| O5' | C5' | C4' | C3' | 90.0° | 175.0° |
| O5' | C5' | C4' | O4' | 90.0° | 67.0° |
| O5' | C5' | C4' | H7 | 90.0° | 53.9° |
| O5' | C5' | H8 | H9 | 90.0° | 120.0° |
| C5' | O5' | P | OP3 | 90.0° | 75.0° |
| C5' | C4' | C3' | O4' | 90.0° | 119.6° |
| C5' | C4' | C3' | H7 | 90.0° | 121.1° |
| C5' | C4' | C3' | C2' | 90.0° | 121.4° |
| C5' | C4' | O4' | H7 | 90.0° | 121.1° |
| C5' | C4' | O4' | C1' | 90.0° | 145.8° |
| C5' | C4' | C3' | H6 | 90.0° | 3.0° |
| C4' | C5' | H8 | H9 | 90.0° | 120.0° |
| C4' | C3' | C2' | H6 | 90.0° | 118.6° |
| C3' | C4' | O4' | H7 | 90.0° | 119.4° |
| C4' | C3' | C2' | O2' | 90.0° | 139.0° |
| C4' | C3' | C2' | C1' | 90.0° | 20.9° |
| C3' | C4' | O4' | C1' | 90.0° | 26.2° |
| C4' | C3' | C2' | H5 | 90.0° | 97.3° |
| C3' | C4' | C5' | H8 | 90.0° | 55.0° |
| C3' | C4' | C5' | H9 | 90.0° | 65.0° |
| C4' | C3' | O3' | HO3' | 90.0° | 61.4° |
| C2' | C3' | C4' | O4' | 90.0° | 1.9° |
| C3' | C2' | O2' | C1' | 90.0° | 112.7° |
| C3' | C2' | O2' | H5 | 90.0° | 123.7° |
| C3' | C2' | C1' | H5 | 90.0° | 118.2° |
| C3' | C2' | C1' | O4' | 90.0° | 36.9° |
| C3' | C2' | O2' | C | 90.0° | 97.3° |
| C3' | C2' | C1' | N9 | 90.0° | 155.6° |
| C3' | C2' | C1' | H4 | 90.0° | 81.6° |
| C2' | C3' | C4' | H7 | 90.0° | 117.5° |
| C2' | C3' | O3' | HO3' | 90.0° | 176.3° |
| C4' | O4' | C1' | C2' | 90.0° | 39.8° |
| C4' | O4' | C1' | N9 | 90.0° | 158.4° |
| C4' | O4' | C1' | H4 | 90.0° | 78.7° |
| O4' | C4' | C3' | H6 | 90.0° | 116.6° |
| O4' | C4' | C5' | H8 | 90.0° | 173.0° |
| O4' | C4' | C5' | H9 | 90.0° | 53.0° |
| O2' | C2' | C1' | H5 | 90.0° | 123.6° |
| O2' | C2' | C1' | O4' | 90.0° | 155.1° |
| O2' | C2' | C1' | N9 | 90.0° | 86.3° |
| C2' | O2' | C | H1 | 90.0° | 60.0° |
| C2' | O2' | C | H2 | 90.0° | 180.0° |
| C2' | O2' | C | H3 | 90.0° | 60.0° |
| O2' | C2' | C1' | H4 | 90.0° | 36.5° |
| O2' | C2' | C3' | H6 | 90.0° | 102.3° |
| C2' | C1' | O4' | N9 | 90.0° | 118.6° |
| C2' | C1' | O4' | H4 | 90.0° | 118.6° |
| C2' | C1' | N9 | C8 | 90.0° | 92.9° |
| C1' | C2' | O2' | C | 90.0° | 150.0° |
| C2' | C1' | N9 | H4 | 90.0° | 122.8° |
| C2' | C1' | N9 | C4 | 90.0° | 87.2° |
| C1' | C2' | C3' | H6 | 90.0° | 139.5° |
| O4' | C1' | N9 | C8 | 90.0° | 21.4° |
| O4' | C1' | N9 | H4 | 90.0° | 122.9° |
| O4' | C1' | N9 | C4 | 90.0° | 158.5° |
| O4' | C1' | C2' | H5 | 90.0° | 81.3° |
| C1' | O4' | C4' | H7 | 90.0° | 93.2° |
| N7 | C8 | N9 | H10 | 90.0° | 179.9° |
| N7 | C8 | N9 | C1' | 90.0° | 180.0° |
| N7 | C8 | N9 | C4 | 90.0° | 0.0° |
| C8 | N7 | C5 | C4 | 90.0° | 0.1° |
| C8 | N7 | C5 | C6 | 90.0° | 179.7° |
| N9 | C8 | N7 | C5 | 90.0° | 0.1° |
| C8 | N9 | C1' | C4 | 90.0° | 179.9° |
| C8 | N9 | C4 | C5 | 90.0° | 0.0° |
| C8 | N9 | C4 | N3 | 90.0° | 180.0° |
| C8 | N9 | C1' | H4 | 90.0° | 144.3° |
| O2' | C | H1 | H2 | 90.0° | 120.0° |
| O2' | C | H1 | H3 | 90.0° | 120.0° |
| O2' | C | H2 | H3 | 90.0° | 120.0° |
| C | O2' | C2' | H5 | 90.0° | 26.4° |
| N7 | C5 | C4 | N9 | 90.0° | 0.0° |
| N7 | C5 | C4 | C6 | 90.0° | 179.7° |
| N7 | C5 | C4 | N3 | 90.0° | 180.0° |
| N7 | C5 | C6 | O6 | 90.0° | 0.4° |
| N7 | C5 | C6 | N1 | 90.0° | 179.8° |
| C5 | N7 | C8 | H10 | 90.0° | 180.0° |
| C1' | N9 | C4 | C5 | 90.0° | 179.9° |
| C1' | N9 | C4 | N3 | 90.0° | 0.1° |
| N9 | C1' | C2' | H5 | 90.0° | 37.4° |
| C1' | N9 | C8 | H10 | 90.0° | 0.1° |
| N9 | C4 | C5 | N3 | 90.0° | 180.0° |
| N9 | C4 | C5 | C6 | 90.0° | 179.7° |
| N9 | C4 | N3 | C2 | 90.0° | 179.9° |
| C4 | N9 | C1' | H4 | 90.0° | 35.6° |
| C4 | N9 | C8 | H10 | 90.0° | 180.0° |
| C4 | C5 | C6 | O6 | 90.0° | 180.0° |
| C4 | C5 | C6 | N1 | 90.0° | 0.2° |
| C5 | C4 | N3 | C2 | 90.0° | 0.1° |
| C6 | C5 | C4 | N3 | 90.0° | 0.3° |
| C5 | C6 | O6 | N1 | 90.0° | 179.8° |
| C5 | C6 | N1 | C2 | 90.0° | 0.0° |
| C5 | C6 | N1 | H11 | 90.0° | 180.0° |
| C4 | N3 | C2 | N1 | 90.0° | 0.2° |
| C4 | N3 | C2 | N2 | 90.0° | 180.0° |
| O6 | C6 | N1 | C2 | 90.0° | 179.8° |
| O6 | C6 | N1 | H11 | 90.0° | 0.2° |
| C6 | N1 | C2 | N3 | 90.0° | 0.2° |
| C6 | N1 | C2 | H11 | 90.0° | 180.0° |
| C6 | N1 | C2 | N2 | 90.0° | 180.0° |
| N3 | C2 | N1 | N2 | 90.0° | 179.8° |
| N3 | C2 | N1 | H11 | 90.0° | 179.7° |
| N3 | C2 | N2 | H12 | 90.0° | 179.8° |
| N3 | C2 | N2 | H13 | 90.0° | 0.2° |
| N1 | C2 | N2 | H12 | 90.0° | 0.0° |
| N1 | C2 | N2 | H13 | 90.0° | 180.0° |
| N2 | C2 | N1 | H11 | 90.0° | 0.0° |
| C2 | N2 | H12 | H13 | 90.0° | 179.9° |
| H1 | C | H2 | H3 | 90.0° | 120.0° |
| H4 | C1' | C2' | H5 | 90.0° | 160.2° |
| H5 | C2' | C3' | H6 | 90.0° | 21.3° |
| H6 | C3' | C4' | H7 | 90.0° | 124.1° |
| H6 | C3' | O3' | HO3' | 90.0° | 61.3° |
| H7 | C4' | C5' | H8 | 90.0° | 66.1° |
| H7 | C4' | C5' | H9 | 90.0° | 173.9° |
| HOP2 | OP2 | P | OP3 | 90.0° | 60.0° |
