NMT
Bonds
First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
P | OP3 | sing | 1.62Å | 1.46Å | |
P | OP2 | sing | 1.62Å | 1.48Å | |
P | O5' | sing | 1.62Å | 1.61Å | |
P | OP1 | doub | 1.50Å | 24.86Å | |
OP3 | HOP3 | sing | 0.98Å | 0.95Å | |
OP2 | HOP2 | sing | 0.98Å | 0.95Å | |
O5' | C5' | sing | 1.42Å | 1.42Å | |
N1 | C6 | sing | 1.39Å | 1.37Å | |
N1 | C2 | sing | 1.41Å | 1.37Å | |
N1 | C1' | sing | 1.43Å | 1.53Å | |
C6 | C5 | doub | 1.34Å | 1.33Å | |
C6 | H6 | sing | 1.09Å | 1.10Å | |
C2 | O2 | doub | 1.23Å | 1.23Å | |
C2 | N3 | sing | 1.40Å | 1.38Å | |
N3 | C4 | sing | 1.39Å | 1.39Å | |
N3 | HN3 | sing | 1.02Å | 1.02Å | |
C4 | O4 | doub | 1.23Å | 1.21Å | |
C4 | C5 | sing | 1.49Å | 1.45Å | |
C5 | C5M | sing | 1.50Å | 1.51Å | |
C5M | H71 | sing | 1.09Å | 1.12Å | |
C5M | H72 | sing | 1.09Å | 1.11Å | |
C5M | H73 | sing | 1.09Å | 1.11Å | |
C2' | C1' | sing | 1.52Å | 1.45Å | |
C2' | C3' | sing | 1.51Å | 1.51Å | |
C2' | O6' | sing | 1.41Å | 1.39Å | |
C2' | H2' | sing | 1.10Å | 1.11Å | |
C5' | C4' | sing | 1.52Å | 1.46Å | |
C5' | H5' | sing | 1.09Å | 1.12Å | |
C5' | H5'' | sing | 1.09Å | 1.11Å | |
C4' | O4' | sing | 1.44Å | 1.47Å | |
C4' | C3' | sing | 1.52Å | 1.52Å | |
C4' | H4' | sing | 1.09Å | 1.12Å | |
O4' | C1' | sing | 1.44Å | 1.44Å | |
C1' | H1' | sing | 1.09Å | 1.11Å | |
C3' | O3' | sing | 1.43Å | 1.42Å | |
C3' | H3' | sing | 1.09Å | 1.12Å | |
O3' | HO3' | sing | 0.97Å | 0.95Å | |
O6' | C7' | sing | 1.44Å | 1.33Å | |
C7' | N8' | sing | 1.46Å | 1.38Å | |
C7' | O7' | sing | 1.43Å | 1.20Å | |
C7' | H7' | sing | 1.10Å | 1.11Å | |
N8' | C9' | sing | 1.46Å | 1.47Å | |
N8' | H8' | sing | 1.02Å | 1.02Å | |
C9' | H9'1 | sing | 1.09Å | 1.12Å | |
C9' | H9'2 | sing | 1.09Å | 1.12Å | |
C9' | H9'3 | sing | 1.09Å | 1.11Å | |
O7' | H1 | sing | 0.97Å | 0.95Å |
Angles
First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
OP3 | P | OP2 | 121.8° | 103.3° |
OP3 | P | O5' | 112.2° | 103.8° |
OP3 | P | OP1 | 98.2° | 115.3° |
P | OP3 | HOP3 | 121.7° | 119.0° |
OP2 | P | O5' | 103.2° | 102.9° |
OP2 | P | OP1 | 140.1° | 114.9° |
P | OP2 | HOP2 | 121.8° | 119.0° |
O5' | P | OP1 | 55.7° | 115.0° |
P | O5' | C5' | 118.5° | 118.5° |
O5' | C5' | C4' | 110.4° | 108.6° |
O5' | C5' | H5' | 111.9° | 109.2° |
O5' | C5' | H5'' | 111.8° | 109.3° |
C6 | N1 | C2 | 120.7° | 120.2° |
C6 | N1 | C1' | 125.0° | 118.5° |
N1 | C6 | C5 | 125.7° | 124.5° |
N1 | C6 | H6 | 118.7° | 114.7° |
C2 | N1 | C1' | 114.4° | 121.3° |
N1 | C2 | O2 | 123.0° | 123.8° |
N1 | C2 | N3 | 114.4° | 115.1° |
N1 | C1' | C2' | 111.7° | 112.5° |
N1 | C1' | O4' | 106.5° | 109.0° |
N1 | C1' | H1' | 110.5° | 107.3° |
C5 | C6 | H6 | 115.5° | 120.7° |
C6 | C5 | C4 | 117.5° | 118.4° |
C6 | C5 | C5M | 125.7° | 123.6° |
O2 | C2 | N3 | 122.6° | 121.1° |
C2 | N3 | C4 | 127.4° | 127.0° |
C2 | N3 | HN3 | 115.8° | 116.4° |
C4 | N3 | HN3 | 116.8° | 116.6° |
N3 | C4 | O4 | 118.2° | 123.6° |
N3 | C4 | C5 | 114.3° | 114.8° |
O4 | C4 | C5 | 127.5° | 121.6° |
C4 | C5 | C5M | 116.8° | 118.0° |
C5 | C5M | H71 | 106.5° | 109.7° |
C5 | C5M | H72 | 125.7° | 109.8° |
C5 | C5M | H73 | 106.5° | 109.7° |
H71 | C5M | H72 | 106.5° | 109.4° |
H71 | C5M | H73 | 103.1° | 109.4° |
H72 | C5M | H73 | 106.4° | 108.9° |
C1' | C2' | C3' | 99.0° | 102.0° |
C1' | C2' | O6' | 111.6° | 112.6° |
C1' | C2' | H2' | 113.5° | 111.1° |
C2' | C1' | O4' | 111.0° | 106.5° |
C2' | C1' | H1' | 106.0° | 112.6° |
C3' | C2' | O6' | 105.6° | 112.3° |
C3' | C2' | H2' | 118.9° | 110.1° |
C2' | C3' | C4' | 102.5° | 102.1° |
C2' | C3' | O3' | 115.0° | 110.3° |
C2' | C3' | H3' | 110.4° | 114.0° |
O6' | C2' | H2' | 107.8° | 108.6° |
C2' | O6' | C7' | 122.2° | 113.0° |
C4' | C5' | H5' | 111.8° | 110.1° |
C4' | C5' | H5'' | 111.9° | 110.1° |
C5' | C4' | O4' | 109.2° | 108.2° |
C5' | C4' | C3' | 116.1° | 113.3° |
C5' | C4' | H4' | 103.1° | 109.3° |
H5' | C5' | H5'' | 98.5° | 109.6° |
O4' | C4' | C3' | 102.2° | 105.9° |
O4' | C4' | H4' | 116.8° | 107.7° |
C4' | O4' | C1' | 105.7° | 109.2° |
C3' | C4' | H4' | 110.0° | 112.2° |
C4' | C3' | O3' | 109.1° | 107.9° |
C4' | C3' | H3' | 116.2° | 114.5° |
O4' | C1' | H1' | 111.2° | 108.9° |
O3' | C3' | H3' | 104.0° | 107.8° |
C3' | O3' | HO3' | 115.0° | 106.4° |
O6' | C7' | N8' | 118.5° | 110.2° |
O6' | C7' | O7' | 121.8° | 110.5° |
O6' | C7' | H7' | 86.4° | 107.7° |
N8' | C7' | O7' | 119.5° | 112.1° |
N8' | C7' | H7' | 114.9° | 108.6° |
C7' | N8' | C9' | 117.2° | 112.3° |
C7' | N8' | H8' | 109.4° | 109.2° |
O7' | C7' | H7' | 73.3° | 107.7° |
C7' | O7' | H1 | 121.8° | 106.8° |
C9' | N8' | H8' | 109.4° | 109.7° |
N8' | C9' | H9'1 | 109.4° | 110.1° |
N8' | C9' | H9'2 | 117.2° | 110.2° |
N8' | C9' | H9'3 | 109.4° | 110.2° |
H9'1 | C9' | H9'2 | 109.4° | 108.8° |
H9'1 | C9' | H9'3 | 100.8° | 108.8° |
H9'2 | C9' | H9'3 | 109.4° | 108.8° |
Dihedrals
First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
OP3 | P | OP2 | O5' | 127.0° | 107.7° |
OP3 | P | OP2 | OP1 | 178.4° | 126.5° |
OP3 | P | O5' | OP1 | 84.6° | 126.9° |
OP3 | P | OP2 | HOP2 | 180.0° | 78.5° |
OP3 | P | O5' | C5' | 41.4° | 53.2° |
OP2 | P | O5' | OP1 | 142.6° | 125.8° |
OP2 | P | OP3 | HOP3 | 180.0° | 77.5° |
OP2 | P | O5' | C5' | 174.2° | 54.2° |
O5' | P | OP3 | HOP3 | 57.2° | 175.4° |
O5' | P | OP2 | HOP2 | 53.0° | 173.8° |
P | O5' | C5' | C4' | 173.3° | 180.0° |
P | O5' | C5' | H5' | 48.0° | 59.9° |
P | O5' | C5' | H5'' | 61.5° | 59.9° |
OP1 | P | OP3 | HOP3 | 1.0° | 48.7° |
OP1 | P | OP2 | HOP2 | 1.6° | 48.0° |
OP1 | P | O5' | C5' | 43.2° | 179.9° |
O5' | C5' | C4' | H5' | 125.3° | 119.5° |
O5' | C5' | C4' | H5'' | 125.3° | 119.6° |
O5' | C5' | H5' | H5'' | 117.7° | 119.6° |
O5' | C5' | C4' | O4' | 64.1° | 62.4° |
O5' | C5' | C4' | C3' | 50.7° | 179.5° |
O5' | C5' | C4' | H4' | 171.0° | 54.6° |
C6 | N1 | C2 | C1' | 179.8° | 179.9° |
N1 | C6 | C5 | H6 | 180.0° | 180.0° |
C6 | N1 | C2 | O2 | 179.9° | 180.0° |
C6 | N1 | C2 | N3 | 0.6° | 0.0° |
N1 | C6 | C5 | C4 | 0.3° | 0.0° |
N1 | C6 | C5 | C5M | 179.7° | 180.0° |
C6 | N1 | C1' | C2' | 95.1° | 85.6° |
C6 | N1 | C1' | O4' | 26.3° | 32.3° |
C6 | N1 | C1' | H1' | 147.2° | 150.0° |
C2 | N1 | C6 | C5 | 0.6° | 0.0° |
C2 | N1 | C6 | H6 | 179.4° | 180.0° |
N1 | C2 | O2 | N3 | 179.5° | 179.9° |
N1 | C2 | N3 | C4 | 0.4° | 0.0° |
N1 | C2 | N3 | HN3 | 179.6° | 179.9° |
C2 | N1 | C1' | C2' | 84.7° | 94.3° |
C2 | N1 | C1' | O4' | 153.9° | 147.8° |
C2 | N1 | C1' | H1' | 33.0° | 30.1° |
C1' | N1 | C6 | C5 | 179.7° | 180.0° |
C1' | N1 | C6 | H6 | 0.3° | 0.0° |
C1' | N1 | C2 | O2 | 0.1° | 0.1° |
C1' | N1 | C2 | N3 | 179.7° | 180.0° |
N1 | C1' | C2' | O4' | 118.8° | 119.3° |
N1 | C1' | C2' | H1' | 120.4° | 121.4° |
N1 | C1' | C2' | C3' | 89.8° | 150.0° |
N1 | C1' | C2' | O6' | 159.4° | 89.4° |
N1 | C1' | C2' | H2' | 37.3° | 32.7° |
N1 | C1' | O4' | C4' | 118.0° | 132.9° |
N1 | C1' | O4' | H1' | 120.4° | 116.8° |
C6 | C5 | C4 | N3 | 0.1° | 0.0° |
C6 | C5 | C4 | O4 | 179.5° | 180.0° |
C6 | C5 | C4 | C5M | 180.0° | 180.0° |
C6 | C5 | C5M | H71 | 54.7° | 64.2° |
C6 | C5 | C5M | H72 | 180.0° | 56.0° |
C6 | C5 | C5M | H73 | 54.8° | 175.6° |
H6 | C6 | C5 | C4 | 179.7° | 180.0° |
H6 | C6 | C5 | C5M | 0.3° | 0.0° |
O2 | C2 | N3 | C4 | 179.9° | 179.9° |
O2 | C2 | N3 | HN3 | 0.1° | 0.0° |
C2 | N3 | C4 | HN3 | 180.0° | 179.9° |
C2 | N3 | C4 | O4 | 179.5° | 179.9° |
C2 | N3 | C4 | C5 | 0.2° | 0.1° |
N3 | C4 | O4 | C5 | 179.6° | 180.0° |
N3 | C4 | C5 | C5M | 179.9° | 180.0° |
HN3 | N3 | C4 | O4 | 0.5° | 0.0° |
HN3 | N3 | C4 | C5 | 179.9° | 180.0° |
O4 | C4 | C5 | C5M | 0.5° | 0.0° |
C4 | C5 | C5M | H71 | 125.3° | 115.8° |
C4 | C5 | C5M | H72 | 0.0° | 124.0° |
C4 | C5 | C5M | H73 | 125.2° | 4.4° |
C5 | C5M | H71 | H72 | 136.3° | 120.5° |
C5 | C5M | H71 | H73 | 111.9° | 120.4° |
C5 | C5M | H72 | H73 | 125.2° | 120.1° |
H71 | C5M | H72 | H73 | 109.5° | 119.5° |
C1' | C2' | C3' | O6' | 115.6° | 120.8° |
C1' | C2' | C3' | H2' | 123.3° | 118.0° |
C1' | C2' | O6' | H2' | 125.3° | 123.5° |
C2' | C1' | O4' | C4' | 3.8° | 11.3° |
C1' | C2' | C3' | C4' | 42.1° | 37.1° |
C2' | C1' | O4' | H1' | 117.7° | 121.6° |
C1' | C2' | C3' | O3' | 160.4° | 77.4° |
C1' | C2' | C3' | H3' | 82.3° | 161.1° |
C1' | C2' | O6' | C7' | 70.6° | 153.5° |
C3' | C2' | O6' | H2' | 128.1° | 122.0° |
C2' | C3' | C4' | C5' | 160.0° | 86.9° |
C2' | C3' | C4' | O4' | 41.2° | 31.5° |
C2' | C3' | C4' | O3' | 122.4° | 116.3° |
C2' | C3' | C4' | H3' | 120.5° | 123.7° |
C2' | C3' | C4' | H4' | 83.5° | 148.7° |
C3' | C2' | C1' | O4' | 28.9° | 30.7° |
C3' | C2' | C1' | H1' | 149.8° | 88.5° |
C2' | C3' | O3' | H3' | 120.8° | 125.1° |
C2' | C3' | O3' | HO3' | 180.0° | 95.6° |
C3' | C2' | O6' | C7' | 177.2° | 92.0° |
O6' | C2' | C3' | C4' | 73.5° | 158.0° |
O6' | C2' | C1' | O4' | 81.9° | 151.3° |
O6' | C2' | C1' | H1' | 39.0° | 32.1° |
O6' | C2' | C3' | O3' | 44.8° | 43.5° |
O6' | C2' | C3' | H3' | 162.1° | 78.0° |
C2' | O6' | C7' | N8' | 177.4° | 178.3° |
C2' | O6' | C7' | O7' | 6.8° | 57.4° |
C2' | O6' | C7' | H7' | 61.0° | 60.0° |
H2' | C2' | C3' | C4' | 165.4° | 80.9° |
H2' | C2' | C1' | O4' | 156.1° | 86.6° |
H2' | C2' | C1' | H1' | 83.1° | 154.2° |
H2' | C2' | C3' | O3' | 76.3° | 164.6° |
H2' | C2' | C3' | H3' | 41.0° | 43.1° |
H2' | C2' | O6' | C7' | 54.7° | 30.0° |
C4' | C5' | H5' | H5'' | 117.8° | 121.2° |
C5' | C4' | O4' | C3' | 123.5° | 121.7° |
C5' | C4' | O4' | H4' | 116.4° | 118.1° |
C5' | C4' | C3' | H4' | 116.5° | 124.4° |
C5' | C4' | O4' | C1' | 146.7° | 109.0° |
C5' | C4' | C3' | O3' | 77.6° | 156.8° |
C5' | C4' | C3' | H3' | 39.6° | 36.8° |
H5' | C5' | C4' | O4' | 61.1° | 57.1° |
H5' | C5' | C4' | C3' | 176.0° | 60.0° |
H5' | C5' | C4' | H4' | 63.7° | 174.1° |
H5'' | C5' | C4' | O4' | 170.6° | 178.0° |
H5'' | C5' | C4' | C3' | 74.5° | 60.9° |
H5'' | C5' | C4' | H4' | 45.8° | 65.0° |
O4' | C4' | C3' | H4' | 124.7° | 117.2° |
C4' | O4' | C1' | H1' | 121.6° | 110.3° |
O4' | C4' | C3' | O3' | 163.6° | 84.7° |
O4' | C4' | C3' | H3' | 79.2° | 155.2° |
C3' | C4' | O4' | C1' | 23.2° | 12.8° |
C4' | C3' | O3' | H3' | 124.7° | 124.2° |
C4' | C3' | O3' | HO3' | 65.5° | 15.2° |
H4' | C4' | O4' | C1' | 96.9° | 133.0° |
H4' | C4' | C3' | O3' | 38.9° | 32.5° |
H4' | C4' | C3' | H3' | 156.1° | 87.6° |
H3' | C3' | O3' | HO3' | 59.1° | 139.4° |
O6' | C7' | N8' | O7' | 175.9° | 123.4° |
O6' | C7' | N8' | H7' | 99.9° | 117.8° |
O6' | C7' | O7' | H7' | 74.7° | 117.4° |
O6' | C7' | N8' | C9' | 175.1° | 57.8° |
O6' | C7' | N8' | H8' | 49.8° | 179.7° |
O6' | C7' | O7' | H1 | 180.0° | 90.2° |
N8' | C7' | O7' | H7' | 109.6° | 119.3° |
C7' | N8' | C9' | H8' | 125.3° | 121.6° |
C7' | N8' | C9' | H9'1 | 54.8° | 86.1° |
C7' | N8' | C9' | H9'2 | 180.0° | 153.9° |
C7' | N8' | C9' | H9'3 | 54.8° | 33.8° |
N8' | C7' | O7' | H1 | 4.3° | 33.0° |
O7' | C7' | N8' | C9' | 0.7° | 178.8° |
O7' | C7' | N8' | H8' | 126.0° | 56.9° |
H7' | C7' | N8' | C9' | 84.9° | 60.0° |
H7' | C7' | N8' | H8' | 149.8° | 62.0° |
H7' | C7' | O7' | H1 | 105.3° | 152.4° |
N8' | C9' | H9'1 | H9'2 | 129.6° | 120.9° |
N8' | C9' | H9'1 | H9'3 | 115.2° | 120.8° |
N8' | C9' | H9'2 | H9'3 | 125.2° | 120.9° |
H8' | N8' | C9' | H9'1 | 180.0° | 152.2° |
H8' | N8' | C9' | H9'2 | 54.7° | 32.3° |
H8' | N8' | C9' | H9'3 | 70.5° | 87.8° |
H9'1 | C9' | H9'2 | H9'3 | 109.5° | 118.3° |