Bonds
First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
OP2 | P | sing | 1.61Å | 1.48Å | |
OP1 | P | doub | 1.48Å | 1.48Å | |
P | O5' | sing | 1.61Å | 1.61Å | |
O5' | C5' | sing | 1.43Å | 1.43Å | |
N7 | C8 | doub | 1.30Å | 1.29Å | |
N7 | C5 | sing | 1.36Å | 1.40Å | |
C8 | N9 | sing | 1.37Å | 1.36Å | |
C5' | C4' | sing | 1.53Å | 1.52Å | |
C3' | C2' | sing | 1.55Å | 1.53Å | |
C3' | C4' | sing | 1.55Å | 1.53Å | |
C3' | O3' | sing | 1.43Å | 1.43Å | |
C2' | C1' | sing | 1.54Å | 1.53Å | |
N6 | C6 | sing | 1.37Å | 1.32Å | |
C4' | O4' | sing | 1.44Å | 1.42Å | |
C5 | C6 | doub | 1.40Å | 1.39Å | |
C5 | C4 | sing | 1.41Å | 1.38Å | |
N9 | C1' | sing | 1.47Å | 1.48Å | |
N9 | C4 | sing | 1.37Å | 1.38Å | |
C6 | N1 | sing | 1.36Å | 1.37Å | |
C1' | O4' | sing | 1.44Å | 1.42Å | |
C4 | N3 | doub | 1.33Å | 1.36Å | |
N1 | C2 | sing | 1.34Å | 1.39Å | |
N3 | C2 | sing | 1.33Å | 1.37Å | |
C2 | O2 | doub | 1.22Å | 1.23Å | |
OP2 | H2 | sing | 0.97Å | 0.95Å | |
C5' | H5' | sing | 1.09Å | 1.10Å | |
C5' | H5'' | sing | 1.09Å | 1.10Å | |
C4' | H4' | sing | 1.09Å | 1.10Å | |
C3' | H3' | sing | 1.09Å | 1.10Å | |
O3' | H3 | sing | 0.97Å | 0.95Å | |
C2' | H2' | sing | 1.09Å | 1.10Å | |
C2' | H2'' | sing | 1.09Å | 1.10Å | |
C1' | H1' | sing | 1.09Å | 1.10Å | |
C8 | H8 | sing | 1.08Å | 1.08Å | |
N6 | HN61 | sing | 0.97Å | 1.00Å | |
N6 | HN62 | sing | 0.97Å | 1.00Å | |
N1 | HN1 | sing | 0.97Å | 1.00Å | |
P | OP3 | sing | 1.61Å | 14.87Å | |
OP3 | H1 | sing | 0.97Å | 0.00Å |
Angles
First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
OP2 | P | OP1 | 119.9° | 109.4° |
OP2 | P | O5' | 108.2° | 109.5° |
P | OP2 | H2 | 109.5° | 114.0° |
OP2 | P | OP3 | 157.2° | 109.4° |
OP1 | P | O5' | 108.2° | 109.5° |
OP1 | P | OP3 | 71.3° | 109.5° |
P | O5' | C5' | 121.6° | 123.0° |
O5' | P | OP3 | 49.4° | 109.5° |
O5' | C5' | C4' | 110.7° | 109.5° |
O5' | C5' | H5' | 109.2° | 109.4° |
O5' | C5' | H5'' | 109.2° | 109.5° |
C8 | N7 | C5 | 101.7° | 109.3° |
N7 | C8 | N9 | 117.4° | 110.1° |
N7 | C8 | H8 | 121.3° | 124.9° |
N7 | C5 | C6 | 133.2° | 134.3° |
N7 | C5 | C4 | 111.0° | 107.1° |
C8 | N9 | C1' | 131.0° | 126.2° |
C8 | N9 | C4 | 103.4° | 107.6° |
N9 | C8 | H8 | 121.3° | 125.0° |
C5' | C4' | C3' | 110.2° | 110.6° |
C5' | C4' | O4' | 110.0° | 110.6° |
C4' | C5' | H5' | 109.2° | 109.5° |
C4' | C5' | H5'' | 109.2° | 109.5° |
C5' | C4' | H4' | 108.6° | 110.6° |
C2' | C3' | C4' | 103.5° | 102.1° |
C2' | C3' | O3' | 111.4° | 110.9° |
C3' | C2' | C1' | 104.6° | 104.2° |
C2' | C3' | H3' | 109.6° | 110.9° |
C3' | C2' | H2' | 110.7° | 110.4° |
C3' | C2' | H2'' | 110.7° | 110.5° |
C4' | C3' | O3' | 111.6° | 110.9° |
C3' | C4' | O4' | 109.4° | 103.5° |
C3' | C4' | H4' | 108.6° | 110.8° |
C4' | C3' | H3' | 109.6° | 111.0° |
O3' | C3' | H3' | 110.9° | 110.8° |
C3' | O3' | H3 | 109.5° | 114.0° |
C2' | C1' | N9 | 112.3° | 109.9° |
C2' | C1' | O4' | 109.8° | 107.3° |
C1' | C2' | H2' | 110.7° | 110.5° |
C1' | C2' | H2'' | 110.7° | 110.5° |
C2' | C1' | H1' | 107.6° | 109.9° |
N6 | C6 | C5 | 125.3° | 120.8° |
N6 | C6 | N1 | 116.4° | 120.8° |
C6 | N6 | HN61 | 109.5° | 120.0° |
C6 | N6 | HN62 | 109.4° | 120.0° |
C4' | O4' | C1' | 108.1° | 107.0° |
O4' | C4' | H4' | 110.0° | 110.6° |
C6 | C5 | C4 | 115.7° | 118.6° |
C5 | C6 | N1 | 118.3° | 118.5° |
C5 | C4 | N9 | 106.4° | 106.0° |
C5 | C4 | N3 | 127.2° | 119.6° |
C1' | N9 | C4 | 125.5° | 126.2° |
N9 | C1' | O4' | 109.7° | 109.9° |
N9 | C1' | H1' | 108.3° | 110.0° |
N9 | C4 | N3 | 126.4° | 134.4° |
C6 | N1 | C2 | 123.9° | 120.4° |
C6 | N1 | HN1 | 118.1° | 119.8° |
O4' | C1' | H1' | 109.1° | 109.9° |
C4 | N3 | C2 | 116.3° | 120.9° |
N1 | C2 | N3 | 118.6° | 121.9° |
N1 | C2 | O2 | 119.9° | 119.1° |
C2 | N1 | HN1 | 118.0° | 119.8° |
N3 | C2 | O2 | 121.5° | 119.0° |
H5' | C5' | H5'' | 109.4° | 109.5° |
H2' | C2' | H2'' | 109.5° | 110.5° |
HN61 | N6 | HN62 | 109.5° | 120.0° |
P | OP3 | H1 | 90.0° | 114.0° |
Dihedrals
First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
OP2 | P | OP1 | O5' | 124.7° | 120.0° |
OP2 | P | OP1 | OP3 | 158.1° | 120.0° |
OP2 | P | O5' | OP3 | 174.7° | 120.0° |
OP2 | P | O5' | C5' | 23.6° | 65.0° |
OP2 | P | OP3 | H1 | 90.0° | 60.0° |
OP1 | P | O5' | OP3 | 43.4° | 120.1° |
OP1 | P | O5' | C5' | 155.0° | 55.0° |
OP1 | P | OP2 | H2 | 0.0° | 179.9° |
OP1 | P | OP3 | H1 | 90.0° | 59.9° |
P | O5' | C5' | C4' | 174.6° | 180.0° |
O5' | P | OP2 | H2 | 124.7° | 60.0° |
P | O5' | C5' | H5' | 54.4° | 60.0° |
P | O5' | C5' | H5'' | 65.2° | 60.0° |
O5' | P | OP3 | H1 | 90.0° | 180.0° |
O5' | C5' | C4' | H5' | 120.2° | 120.0° |
O5' | C5' | C4' | H5'' | 120.2° | 120.0° |
O5' | C5' | C4' | C3' | 74.4° | 179.5° |
O5' | C5' | C4' | O4' | 46.3° | 66.5° |
O5' | C5' | H5' | H5'' | 119.4° | 120.0° |
O5' | C5' | C4' | H4' | 166.8° | 56.4° |
C5' | O5' | P | OP3 | 161.6° | 175.0° |
N7 | C8 | N9 | H8 | 180.0° | 180.0° |
C8 | N7 | C5 | C6 | 179.9° | 180.0° |
C8 | N7 | C5 | C4 | 0.1° | 0.3° |
N7 | C8 | N9 | C1' | 177.2° | 180.0° |
N7 | C8 | N9 | C4 | 0.0° | 0.2° |
C5 | N7 | C8 | N9 | 0.0° | 0.0° |
N7 | C5 | C6 | N6 | 0.2° | 0.1° |
N7 | C5 | C6 | C4 | 180.0° | 179.7° |
N7 | C5 | C4 | N9 | 0.1° | 0.4° |
N7 | C5 | C6 | N1 | 180.0° | 180.0° |
N7 | C5 | C4 | N3 | 179.9° | 179.8° |
C5 | N7 | C8 | H8 | 180.0° | 179.9° |
C8 | N9 | C1' | C2' | 29.2° | 64.7° |
C8 | N9 | C4 | C5 | 0.1° | 0.4° |
C8 | N9 | C1' | C4 | 176.7° | 179.7° |
C8 | N9 | C1' | O4' | 93.2° | 53.1° |
C8 | N9 | C4 | N3 | 179.9° | 179.8° |
C8 | N9 | C1' | H1' | 147.9° | 174.2° |
C5' | C4' | C3' | C2' | 98.9° | 155.5° |
C5' | C4' | C3' | O4' | 121.1° | 118.5° |
C5' | C4' | C3' | H4' | 118.8° | 123.0° |
C5' | C4' | C3' | O3' | 141.2° | 86.3° |
C5' | C4' | O4' | H4' | 119.6° | 122.8° |
C5' | C4' | O4' | C1' | 100.7° | 158.5° |
C4' | C5' | H5' | H5'' | 119.4° | 120.0° |
C5' | C4' | C3' | H3' | 17.9° | 37.3° |
C2' | C3' | C4' | O3' | 119.9° | 118.2° |
C2' | C3' | C4' | H3' | 116.8° | 118.2° |
C2' | C3' | O3' | H3' | 122.4° | 123.6° |
C3' | C2' | C1' | H2' | 119.2° | 118.6° |
C3' | C2' | C1' | H2'' | 119.2° | 118.7° |
C2' | C3' | C4' | O4' | 22.2° | 37.0° |
C3' | C2' | C1' | N9 | 126.0° | 121.5° |
C3' | C2' | C1' | O4' | 3.7° | 2.0° |
C2' | C3' | C4' | H4' | 142.2° | 81.5° |
C2' | C3' | O3' | H3 | 180.0° | 61.5° |
C3' | C2' | H2' | H2'' | 122.3° | 122.6° |
C3' | C2' | C1' | H1' | 114.9° | 117.4° |
C4' | C3' | O3' | H3' | 122.5° | 123.7° |
C4' | C3' | C2' | C1' | 14.9° | 20.9° |
C3' | C4' | O4' | H4' | 119.2° | 118.7° |
C3' | C4' | O4' | C1' | 20.5° | 40.1° |
C3' | C4' | C5' | H5' | 45.8° | 60.5° |
C3' | C4' | C5' | H5'' | 165.4° | 59.5° |
C4' | C3' | O3' | H3 | 64.9° | 174.2° |
C4' | C3' | C2' | H2' | 104.3° | 139.6° |
C4' | C3' | C2' | H2'' | 134.1° | 97.8° |
O3' | C3' | C2' | C1' | 105.1° | 139.1° |
O3' | C3' | C4' | O4' | 97.7° | 155.2° |
O3' | C3' | C4' | H4' | 22.4° | 36.7° |
O3' | C3' | C2' | H2' | 135.7° | 102.2° |
O3' | C3' | C2' | H2'' | 14.1° | 20.4° |
C2' | C1' | O4' | C4' | 10.3° | 26.5° |
C2' | C1' | N9 | O4' | 122.4° | 117.9° |
C2' | C1' | N9 | H1' | 118.7° | 121.0° |
C2' | C1' | N9 | C4 | 154.1° | 115.0° |
C2' | C1' | O4' | H1' | 117.7° | 119.4° |
C1' | C2' | C3' | H3' | 131.7° | 97.3° |
C1' | C2' | H2' | H2'' | 122.2° | 122.7° |
N6 | C6 | C5 | N1 | 179.8° | 179.9° |
N6 | C6 | C5 | C4 | 179.8° | 179.8° |
N6 | C6 | N1 | C2 | 180.0° | 179.9° |
C6 | N6 | HN61 | HN62 | 120.0° | 179.9° |
N6 | C6 | N1 | HN1 | 0.0° | 0.1° |
C4' | O4' | C1' | N9 | 113.6° | 145.9° |
O4' | C4' | C5' | H5' | 166.5° | 53.5° |
O4' | C4' | C5' | H5'' | 73.9° | 173.6° |
O4' | C4' | C3' | H3' | 139.0° | 81.2° |
C4' | O4' | C1' | H1' | 128.0° | 92.9° |
C6 | C5 | C4 | N9 | 179.9° | 179.8° |
C6 | C5 | C4 | N3 | 0.1° | 0.0° |
C5 | C6 | N1 | C2 | 0.1° | 0.0° |
C5 | C6 | N6 | HN61 | 180.0° | 180.0° |
C5 | C6 | N6 | HN62 | 60.0° | 0.1° |
C5 | C6 | N1 | HN1 | 179.9° | 180.0° |
C5 | C4 | N9 | C1' | 177.4° | 179.9° |
C5 | C4 | N9 | N3 | 180.0° | 179.8° |
C4 | C5 | C6 | N1 | 0.0° | 0.3° |
C5 | C4 | N3 | C2 | 0.1° | 0.6° |
N9 | C1' | O4' | H1' | 118.5° | 121.2° |
C1' | N9 | C4 | N3 | 2.6° | 0.1° |
N9 | C1' | C2' | H2' | 6.7° | 2.8° |
N9 | C1' | C2' | H2'' | 114.8° | 119.8° |
C1' | N9 | C8 | H8 | 2.8° | 0.1° |
C4 | N9 | C1' | O4' | 83.5° | 127.2° |
N9 | C4 | N3 | C2 | 179.9° | 179.1° |
C4 | N9 | C1' | H1' | 35.4° | 6.1° |
C4 | N9 | C8 | H8 | 180.0° | 179.8° |
C6 | N1 | C2 | HN1 | 180.0° | 180.0° |
C6 | N1 | C2 | N3 | 0.1° | 0.6° |
C6 | N1 | C2 | O2 | 179.9° | 179.9° |
N1 | C6 | N6 | HN61 | 0.2° | 0.1° |
N1 | C6 | N6 | HN62 | 119.9° | 180.0° |
C1' | O4' | C4' | H4' | 139.7° | 78.7° |
O4' | C1' | C2' | H2' | 115.6° | 116.7° |
O4' | C1' | C2' | H2'' | 122.9° | 120.7° |
C4 | N3 | C2 | N1 | 0.0° | 0.9° |
C4 | N3 | C2 | O2 | 180.0° | 179.7° |
N1 | C2 | N3 | O2 | 180.0° | 179.3° |
N3 | C2 | N1 | HN1 | 179.9° | 179.4° |
O2 | C2 | N1 | HN1 | 0.1° | 0.0° |
H2 | OP2 | P | OP3 | 114.3° | 60.0° |
H5' | C5' | C4' | H4' | 73.0° | 176.4° |
H5'' | C5' | C4' | H4' | 46.6° | 63.6° |
H4' | C4' | C3' | H3' | 100.9° | 160.3° |
H3' | C3' | O3' | H3 | 57.6° | 62.1° |
H3' | C3' | C2' | H2' | 12.5° | 21.3° |
H3' | C3' | C2' | H2'' | 109.1° | 144.0° |
H2' | C2' | C1' | H1' | 125.9° | 124.0° |
H2'' | C2' | C1' | H1' | 4.3° | 1.3° |