Bonds
First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
P | O5' | sing | 1.61Å | 1.52Å | |
P | OP1 | doub | 1.48Å | 1.48Å | |
P | OP2 | sing | 1.61Å | 1.51Å | |
N1 | C2 | sing | 1.35Å | 1.38Å | |
N1 | C6 | sing | 1.37Å | 1.37Å | |
N1 | C1' | sing | 1.46Å | 1.46Å | |
C2 | O2 | doub | 1.22Å | 1.26Å | |
C2 | N3 | sing | 1.35Å | 1.38Å | |
N3 | C4 | sing | 1.35Å | 1.37Å | |
N3 | C10 | sing | 1.47Å | 1.45Å | |
C4 | O4 | doub | 1.22Å | 1.26Å | |
C4 | C5 | sing | 1.42Å | 1.40Å | |
C5 | C6 | doub | 1.35Å | 1.40Å | |
C5 | H5 | sing | 1.08Å | 1.08Å | |
C6 | H6 | sing | 1.08Å | 1.08Å | |
C1' | C2' | sing | 1.55Å | 1.54Å | |
C1' | O4' | sing | 1.44Å | 1.44Å | |
C1' | H1' | sing | 1.09Å | 1.10Å | |
C10 | H10 | sing | 1.09Å | 1.10Å | |
C10 | H10A | sing | 1.09Å | 1.10Å | |
C10 | H10B | sing | 1.09Å | 1.10Å | |
C2' | O2' | sing | 1.43Å | 1.43Å | |
C2' | C3' | sing | 1.55Å | 1.54Å | |
C2' | H2' | sing | 1.09Å | 1.10Å | |
O2' | HO2' | sing | 0.97Å | 0.95Å | |
C3' | O3' | sing | 1.43Å | 1.43Å | |
C3' | C4' | sing | 1.54Å | 1.55Å | |
C3' | H3' | sing | 1.09Å | 1.10Å | |
O3' | HO3' | sing | 0.97Å | 0.95Å | |
C4' | O4' | sing | 1.44Å | 1.44Å | |
C4' | C5' | sing | 1.53Å | 1.55Å | |
C4' | H4' | sing | 1.09Å | 1.10Å | |
C5' | O5' | sing | 1.43Å | 1.34Å | |
C5' | H5' | sing | 1.09Å | 1.10Å | |
C5' | H5'A | sing | 1.09Å | 1.10Å | |
P | O9 | sing | 1.61Å | 1.51Å | |
OP2 | H14 | sing | 0.97Å | 0.95Å | |
O9 | H15 | sing | 0.97Å | 0.95Å |
Angles
First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
O5' | P | OP1 | 110.1° | 109.5° |
O5' | P | OP2 | 109.1° | 109.5° |
P | O5' | C5' | 125.1° | 123.0° |
O5' | P | O9 | 109.2° | 109.4° |
OP1 | P | OP2 | 109.6° | 109.5° |
OP1 | P | O9 | 109.7° | 109.5° |
OP2 | P | O9 | 109.2° | 109.4° |
P | OP2 | H14 | 109.5° | 114.0° |
C2 | N1 | C6 | 118.7° | 120.6° |
C2 | N1 | C1' | 121.9° | 119.7° |
N1 | C2 | O2 | 119.0° | 119.5° |
N1 | C2 | N3 | 121.7° | 120.9° |
C6 | N1 | C1' | 119.4° | 119.7° |
N1 | C6 | C5 | 121.3° | 119.7° |
N1 | C6 | H6 | 119.3° | 120.1° |
N1 | C1' | C2' | 112.0° | 110.6° |
N1 | C1' | O4' | 114.4° | 110.7° |
N1 | C1' | H1' | 109.1° | 110.6° |
O2 | C2 | N3 | 119.3° | 119.6° |
C2 | N3 | C4 | 119.3° | 120.3° |
C2 | N3 | C10 | 121.0° | 119.9° |
C4 | N3 | C10 | 119.7° | 119.8° |
N3 | C4 | O4 | 122.8° | 120.3° |
N3 | C4 | C5 | 120.5° | 119.4° |
N3 | C10 | H10 | 109.5° | 109.5° |
N3 | C10 | H10A | 109.5° | 109.5° |
N3 | C10 | H10B | 109.5° | 109.4° |
O4 | C4 | C5 | 116.7° | 120.3° |
C4 | C5 | C6 | 118.4° | 119.1° |
C4 | C5 | H5 | 120.8° | 120.5° |
C6 | C5 | H5 | 120.8° | 120.4° |
C5 | C6 | H6 | 119.3° | 120.2° |
C2' | C1' | O4' | 103.7° | 103.5° |
C2' | C1' | H1' | 108.0° | 110.6° |
C1' | C2' | O2' | 112.4° | 110.9° |
C1' | C2' | C3' | 103.4° | 102.1° |
C1' | C2' | H2' | 108.5° | 110.9° |
O4' | C1' | H1' | 109.4° | 110.8° |
C1' | O4' | C4' | 107.7° | 107.0° |
H10 | C10 | H10A | 109.5° | 109.5° |
H10 | C10 | H10B | 109.4° | 109.5° |
H10A | C10 | H10B | 109.5° | 109.5° |
O2' | C2' | C3' | 113.5° | 110.9° |
O2' | C2' | H2' | 110.1° | 110.8° |
C2' | O2' | HO2' | 109.5° | 114.0° |
C3' | C2' | H2' | 108.6° | 110.9° |
C2' | C3' | O3' | 112.3° | 110.5° |
C2' | C3' | C4' | 103.9° | 104.2° |
C2' | C3' | H3' | 109.3° | 110.5° |
O3' | C3' | C4' | 111.1° | 110.5° |
O3' | C3' | H3' | 110.9° | 110.4° |
C3' | O3' | HO3' | 109.5° | 114.1° |
C4' | C3' | H3' | 109.1° | 110.6° |
C3' | C4' | O4' | 107.0° | 107.3° |
C3' | C4' | C5' | 112.8° | 109.9° |
C3' | C4' | H4' | 108.3° | 109.9° |
O4' | C4' | C5' | 110.5° | 109.9° |
O4' | C4' | H4' | 109.8° | 109.9° |
C5' | C4' | H4' | 108.4° | 110.0° |
C4' | C5' | O5' | 111.7° | 109.4° |
C4' | C5' | H5' | 108.9° | 109.4° |
C4' | C5' | H5'A | 108.9° | 109.4° |
O5' | C5' | H5' | 108.9° | 109.5° |
O5' | C5' | H5'A | 108.9° | 109.5° |
H5' | C5' | H5'A | 109.4° | 109.5° |
P | O9 | H15 | 109.5° | 114.0° |
Dihedrals
First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
O5' | P | OP1 | OP2 | 120.0° | 120.0° |
O5' | P | OP1 | O9 | 120.2° | 120.0° |
O5' | P | OP2 | O9 | 119.2° | 119.9° |
P | O5' | C5' | C4' | 178.2° | 180.0° |
P | O5' | C5' | H5' | 61.4° | 60.1° |
P | O5' | C5' | H5'A | 57.9° | 60.0° |
O5' | P | OP2 | H14 | 120.6° | 179.9° |
O5' | P | O9 | H15 | 120.7° | 59.9° |
OP1 | P | OP2 | O9 | 120.1° | 120.0° |
OP1 | P | O5' | C5' | 61.8° | 55.0° |
OP1 | P | OP2 | H14 | 0.0° | 60.0° |
OP1 | P | O9 | H15 | 0.0° | 180.0° |
OP2 | P | O5' | C5' | 58.6° | 175.0° |
OP2 | P | O9 | H15 | 120.1° | 60.0° |
C2 | N1 | C6 | C1' | 178.1° | 179.7° |
N1 | C2 | O2 | N3 | 179.7° | 179.9° |
N1 | C2 | N3 | C4 | 1.3° | 0.0° |
N1 | C2 | N3 | C10 | 180.0° | 180.0° |
C2 | N1 | C6 | C5 | 1.5° | 0.0° |
C2 | N1 | C6 | H6 | 178.5° | 180.0° |
C2 | N1 | C1' | C2' | 89.9° | 115.0° |
C2 | N1 | C1' | O4' | 152.5° | 130.9° |
C2 | N1 | C1' | H1' | 29.6° | 7.8° |
C6 | N1 | C2 | O2 | 179.3° | 179.9° |
C6 | N1 | C2 | N3 | 0.4° | 0.0° |
N1 | C6 | C5 | C4 | 0.9° | 0.0° |
N1 | C6 | C5 | H6 | 180.0° | 180.0° |
N1 | C6 | C5 | H5 | 179.1° | 180.0° |
C6 | N1 | C1' | C2' | 88.1° | 65.3° |
C6 | N1 | C1' | O4' | 29.5° | 48.8° |
C6 | N1 | C1' | H1' | 152.3° | 171.9° |
C1' | N1 | C2 | O2 | 1.2° | 0.3° |
C1' | N1 | C2 | N3 | 178.5° | 179.7° |
C1' | N1 | C6 | C5 | 179.6° | 179.7° |
C1' | N1 | C6 | H6 | 0.3° | 0.3° |
N1 | C1' | C2' | O4' | 123.8° | 118.5° |
N1 | C1' | C2' | H1' | 120.2° | 122.9° |
N1 | C1' | O4' | H1' | 122.7° | 123.0° |
N1 | C1' | C2' | O2' | 78.5° | 86.3° |
N1 | C1' | C2' | C3' | 158.7° | 155.5° |
N1 | C1' | C2' | H2' | 43.5° | 37.3° |
N1 | C1' | O4' | C4' | 160.5° | 158.5° |
O2 | C2 | N3 | C4 | 179.0° | 180.0° |
O2 | C2 | N3 | C10 | 0.3° | 0.1° |
C2 | N3 | C4 | C10 | 178.7° | 180.0° |
C2 | N3 | C4 | O4 | 178.0° | 180.0° |
C2 | N3 | C4 | C5 | 1.9° | 0.0° |
C2 | N3 | C10 | H10 | 180.0° | 90.0° |
C2 | N3 | C10 | H10A | 60.0° | 150.0° |
C2 | N3 | C10 | H10B | 60.0° | 30.0° |
N3 | C4 | O4 | C5 | 179.9° | 180.0° |
N3 | C4 | C5 | C6 | 0.9° | 0.0° |
N3 | C4 | C5 | H5 | 179.2° | 180.0° |
C4 | N3 | C10 | H10 | 1.3° | 90.0° |
C4 | N3 | C10 | H10A | 121.3° | 30.0° |
C4 | N3 | C10 | H10B | 118.7° | 150.0° |
C10 | N3 | C4 | O4 | 0.7° | 0.0° |
C10 | N3 | C4 | C5 | 179.4° | 180.0° |
N3 | C10 | H10 | H10A | 120.0° | 120.0° |
N3 | C10 | H10 | H10B | 120.0° | 120.0° |
N3 | C10 | H10A | H10B | 120.0° | 120.0° |
O4 | C4 | C5 | C6 | 179.1° | 180.0° |
O4 | C4 | C5 | H5 | 0.9° | 0.0° |
C4 | C5 | C6 | H5 | 180.0° | 180.0° |
C4 | C5 | C6 | H6 | 179.1° | 180.0° |
H5 | C5 | C6 | H6 | 0.9° | 0.0° |
C2' | C1' | O4' | H1' | 115.1° | 118.5° |
C1' | C2' | O2' | C3' | 116.9° | 112.7° |
C1' | C2' | O2' | H2' | 121.1° | 123.6° |
C1' | C2' | C3' | H2' | 115.1° | 118.2° |
C1' | C2' | O2' | HO2' | 180.0° | 179.9° |
C1' | C2' | C3' | O3' | 101.1° | 97.8° |
C1' | C2' | C3' | C4' | 19.0° | 20.9° |
C1' | C2' | C3' | H3' | 135.4° | 139.7° |
C2' | C1' | O4' | C4' | 38.3° | 40.0° |
O4' | C1' | C2' | O2' | 157.6° | 155.2° |
O4' | C1' | C2' | C3' | 34.8° | 37.0° |
O4' | C1' | C2' | H2' | 80.3° | 81.2° |
C1' | O4' | C4' | C3' | 26.1° | 26.5° |
C1' | O4' | C4' | C5' | 149.2° | 145.9° |
C1' | O4' | C4' | H4' | 91.2° | 92.9° |
H1' | C1' | C2' | O2' | 41.6° | 36.6° |
H1' | C1' | C2' | C3' | 81.2° | 81.6° |
H1' | C1' | C2' | H2' | 163.6° | 160.2° |
H1' | C1' | O4' | C4' | 76.8° | 78.4° |
H10 | C10 | H10A | H10B | 120.0° | 120.0° |
O2' | C2' | C3' | H2' | 122.8° | 123.6° |
O2' | C2' | C3' | O3' | 21.0° | 20.4° |
O2' | C2' | C3' | C4' | 141.1° | 139.1° |
O2' | C2' | C3' | H3' | 102.6° | 102.1° |
C3' | C2' | O2' | HO2' | 63.1° | 67.3° |
C2' | C3' | O3' | C4' | 115.8° | 114.8° |
C2' | C3' | O3' | H3' | 122.6° | 122.6° |
C2' | C3' | C4' | H3' | 116.5° | 118.8° |
C2' | C3' | O3' | HO3' | 180.0° | 61.5° |
C2' | C3' | C4' | O4' | 3.0° | 2.1° |
C2' | C3' | C4' | C5' | 124.7° | 121.4° |
C2' | C3' | C4' | H4' | 115.3° | 117.4° |
H2' | C2' | O2' | HO2' | 58.9° | 56.3° |
H2' | C2' | C3' | O3' | 143.7° | 144.0° |
H2' | C2' | C3' | C4' | 96.1° | 97.3° |
H2' | C2' | C3' | H3' | 20.2° | 21.5° |
O3' | C3' | C4' | H3' | 122.6° | 122.5° |
O3' | C3' | C4' | O4' | 124.0° | 120.7° |
O3' | C3' | C4' | C5' | 114.3° | 119.9° |
O3' | C3' | C4' | H4' | 5.7° | 1.3° |
C4' | C3' | O3' | HO3' | 64.2° | 176.2° |
C3' | C4' | O4' | C5' | 123.2° | 119.4° |
C3' | C4' | O4' | H4' | 117.3° | 119.4° |
C3' | C4' | C5' | H4' | 119.9° | 121.1° |
C3' | C4' | C5' | O5' | 179.3° | 175.0° |
C3' | C4' | C5' | H5' | 59.0° | 55.0° |
C3' | C4' | C5' | H5'A | 60.3° | 65.0° |
H3' | C3' | O3' | HO3' | 57.3° | 61.1° |
H3' | C3' | C4' | O4' | 113.5° | 116.7° |
H3' | C3' | C4' | C5' | 8.3° | 2.7° |
H3' | C3' | C4' | H4' | 128.2° | 123.9° |
O4' | C4' | C5' | H4' | 120.4° | 121.1° |
O4' | C4' | C5' | O5' | 61.0° | 67.2° |
O4' | C4' | C5' | H5' | 178.7° | 172.8° |
O4' | C4' | C5' | H5'A | 59.4° | 52.8° |
C4' | C5' | O5' | H5' | 120.3° | 119.9° |
C4' | C5' | O5' | H5'A | 120.4° | 120.0° |
C4' | C5' | H5' | H5'A | 119.0° | 120.0° |
H4' | C4' | C5' | O5' | 59.4° | 53.9° |
H4' | C4' | C5' | H5' | 60.9° | 66.1° |
H4' | C4' | C5' | H5'A | 179.8° | 173.9° |
O5' | C5' | H5' | H5'A | 119.0° | 120.1° |
C5' | O5' | P | O9 | 177.8° | 65.1° |
O9 | P | OP2 | H14 | 120.1° | 60.0° |