Bonds
First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
P | OP1 | doub | 1.48Å | 1.49Å | |
P | OP2 | sing | 1.61Å | 1.48Å | |
P | OP3 | sing | 1.61Å | 1.60Å | |
P | O5' | sing | 1.61Å | 1.59Å | |
OP2 | HOP2 | sing | 0.97Å | 0.95Å | |
OP3 | HOP3 | sing | 0.97Å | 0.95Å | |
O5' | C5' | sing | 1.43Å | 1.43Å | |
C5' | C4' | sing | 1.53Å | 1.51Å | |
C5' | H5' | sing | 1.09Å | 1.11Å | |
C5' | H5'' | sing | 1.09Å | 1.11Å | |
C4' | O4' | sing | 1.44Å | 1.45Å | |
C4' | C3' | sing | 1.54Å | 1.52Å | |
C4' | H4' | sing | 1.09Å | 1.11Å | |
O4' | C1' | sing | 1.44Å | 1.42Å | |
C3' | C3M | sing | 1.53Å | 1.42Å | |
C3' | C2' | sing | 1.55Å | 1.52Å | |
C3' | H3' | sing | 1.09Å | 1.12Å | |
C3M | HO3' | sing | 1.09Å | 1.12Å | |
C3M | H3T2 | sing | 1.09Å | 1.11Å | |
C3M | H3T3 | sing | 1.09Å | 1.12Å | |
C2' | O2' | sing | 1.43Å | 1.42Å | |
C2' | C1' | sing | 1.55Å | 1.53Å | |
C2' | H2' | sing | 1.09Å | 1.12Å | |
O2' | CA' | sing | 1.43Å | 1.44Å | |
C1' | N1 | sing | 1.46Å | 1.48Å | |
C1' | H1' | sing | 1.09Å | 1.12Å | |
N1 | C2 | sing | 1.34Å | 1.38Å | |
N1 | C6 | sing | 1.37Å | 1.38Å | |
C2 | O2 | doub | 1.22Å | 1.23Å | |
C2 | N3 | sing | 1.35Å | 1.38Å | |
N3 | C4 | sing | 1.35Å | 1.38Å | |
N3 | H3 | sing | 0.97Å | 1.02Å | |
C4 | O4 | doub | 1.22Å | 1.23Å | |
C4 | C5 | sing | 1.41Å | 1.45Å | |
C5 | C5M | sing | 1.51Å | 1.50Å | |
C5 | C6 | doub | 1.35Å | 1.34Å | |
C5M | H71 | sing | 1.09Å | 1.11Å | |
C5M | H72 | sing | 1.09Å | 1.12Å | |
C5M | H73 | sing | 1.09Å | 1.11Å | |
C6 | H6 | sing | 1.08Å | 1.10Å | |
CA' | HA'1 | sing | 1.09Å | 1.12Å | |
CA' | HA'2 | sing | 1.09Å | 1.12Å | |
CA' | HA'3 | sing | 1.09Å | 1.12Å |
Angles
First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
OP1 | P | OP2 | 119.9° | 109.5° |
OP1 | P | OP3 | 106.1° | 109.5° |
OP1 | P | O5' | 108.5° | 109.5° |
OP2 | P | OP3 | 109.8° | 109.4° |
OP2 | P | O5' | 107.6° | 109.4° |
P | OP2 | HOP2 | 119.9° | 106.8° |
OP3 | P | O5' | 104.0° | 109.5° |
P | OP3 | HOP3 | 106.1° | 106.9° |
P | O5' | C5' | 120.7° | 106.8° |
O5' | C5' | C4' | 110.3° | 109.5° |
O5' | C5' | H5' | 111.9° | 109.4° |
O5' | C5' | H5'' | 111.9° | 109.5° |
C4' | C5' | H5' | 111.9° | 109.5° |
C4' | C5' | H5'' | 111.9° | 109.5° |
C5' | C4' | O4' | 109.6° | 110.0° |
C5' | C4' | C3' | 117.0° | 109.9° |
C5' | C4' | H4' | 102.3° | 109.9° |
H5' | C5' | H5'' | 98.6° | 109.4° |
O4' | C4' | C3' | 102.8° | 107.3° |
O4' | C4' | H4' | 116.6° | 109.9° |
C4' | O4' | C1' | 109.5° | 107.0° |
C3' | C4' | H4' | 109.2° | 109.8° |
C4' | C3' | C3M | 113.9° | 110.7° |
C4' | C3' | C2' | 100.8° | 104.2° |
C4' | C3' | H3' | 113.2° | 110.4° |
O4' | C1' | C2' | 106.3° | 103.5° |
O4' | C1' | N1 | 108.3° | 110.6° |
O4' | C1' | H1' | 113.2° | 110.6° |
C3M | C3' | C2' | 112.0° | 110.5° |
C3M | C3' | H3' | 102.3° | 110.4° |
C3' | C3M | HO3' | 113.9° | 109.4° |
C3' | C3M | H3T2 | 110.6° | 109.4° |
C3' | C3M | H3T3 | 110.6° | 109.5° |
C2' | C3' | H3' | 115.1° | 110.5° |
C3' | C2' | O2' | 109.5° | 110.9° |
C3' | C2' | C1' | 100.4° | 102.1° |
C3' | C2' | H2' | 115.3° | 110.9° |
HO3' | C3M | H3T2 | 110.6° | 109.5° |
HO3' | C3M | H3T3 | 110.5° | 109.5° |
H3T2 | C3M | H3T3 | 99.8° | 109.4° |
O2' | C2' | C1' | 109.9° | 110.9° |
O2' | C2' | H2' | 106.7° | 110.8° |
C2' | O2' | CA' | 116.3° | 106.8° |
C1' | C2' | H2' | 114.9° | 110.9° |
C2' | C1' | N1 | 111.8° | 110.8° |
C2' | C1' | H1' | 109.6° | 110.6° |
O2' | CA' | HA'1 | 116.3° | 109.5° |
O2' | CA' | HA'2 | 109.8° | 109.5° |
O2' | CA' | HA'3 | 109.7° | 109.4° |
N1 | C1' | H1' | 107.7° | 110.5° |
C1' | N1 | C2 | 118.0° | 119.7° |
C1' | N1 | C6 | 120.8° | 119.7° |
C2 | N1 | C6 | 121.2° | 120.6° |
N1 | C2 | O2 | 123.0° | 119.5° |
N1 | C2 | N3 | 114.7° | 121.0° |
N1 | C6 | C5 | 123.9° | 119.7° |
N1 | C6 | H6 | 119.7° | 120.2° |
O2 | C2 | N3 | 122.4° | 119.5° |
C2 | N3 | C4 | 127.1° | 120.2° |
C2 | N3 | H3 | 116.2° | 119.8° |
C4 | N3 | H3 | 116.7° | 120.0° |
N3 | C4 | O4 | 120.0° | 120.3° |
N3 | C4 | C5 | 115.0° | 119.4° |
O4 | C4 | C5 | 125.0° | 120.3° |
C4 | C5 | C5M | 118.9° | 120.4° |
C4 | C5 | C6 | 118.1° | 119.1° |
C5M | C5 | C6 | 122.9° | 120.5° |
C5 | C5M | H71 | 118.9° | 109.5° |
C5 | C5M | H72 | 108.8° | 109.5° |
C5 | C5M | H73 | 108.8° | 109.5° |
C5 | C6 | H6 | 116.5° | 120.1° |
H71 | C5M | H72 | 108.8° | 109.5° |
H71 | C5M | H73 | 108.9° | 109.4° |
H72 | C5M | H73 | 101.2° | 109.4° |
HA'1 | CA' | HA'2 | 109.7° | 109.5° |
HA'1 | CA' | HA'3 | 109.7° | 109.5° |
HA'2 | CA' | HA'3 | 100.4° | 109.4° |
Dihedrals
First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
OP1 | P | OP2 | OP3 | 123.1° | 120.1° |
OP1 | P | OP2 | O5' | 124.4° | 120.0° |
OP1 | P | OP3 | O5' | 114.3° | 120.0° |
OP1 | P | OP2 | HOP2 | 180.0° | 60.0° |
OP1 | P | OP3 | HOP3 | 180.0° | 179.9° |
OP1 | P | O5' | C5' | 37.3° | 60.0° |
OP2 | P | OP3 | O5' | 114.8° | 119.9° |
OP2 | P | OP3 | HOP3 | 49.2° | 60.0° |
OP2 | P | O5' | C5' | 168.4° | 180.0° |
OP3 | P | OP2 | HOP2 | 56.9° | 60.0° |
OP3 | P | O5' | C5' | 75.3° | 60.1° |
O5' | P | OP2 | HOP2 | 55.5° | 180.0° |
O5' | P | OP3 | HOP3 | 65.7° | 59.9° |
P | O5' | C5' | C4' | 177.8° | 180.0° |
P | O5' | C5' | H5' | 52.6° | 60.0° |
P | O5' | C5' | H5'' | 57.0° | 60.0° |
O5' | C5' | C4' | H5' | 125.2° | 120.0° |
O5' | C5' | C4' | H5'' | 125.3° | 120.1° |
O5' | C5' | H5' | H5'' | 117.8° | 120.0° |
O5' | C5' | C4' | O4' | 64.9° | 62.1° |
O5' | C5' | C4' | C3' | 51.5° | 180.0° |
O5' | C5' | C4' | H4' | 170.7° | 59.0° |
C4' | C5' | H5' | H5'' | 117.8° | 120.0° |
C5' | C4' | O4' | C3' | 125.1° | 119.5° |
C5' | C4' | O4' | H4' | 115.6° | 121.1° |
C5' | C4' | C3' | H4' | 115.5° | 121.0° |
C5' | C4' | O4' | C1' | 149.0° | 146.0° |
C5' | C4' | C3' | C3M | 78.3° | 119.6° |
C5' | C4' | C3' | C2' | 161.6° | 121.6° |
C5' | C4' | C3' | H3' | 38.1° | 2.9° |
H5' | C5' | C4' | O4' | 169.9° | 177.9° |
H5' | C5' | C4' | C3' | 73.7° | 60.0° |
H5' | C5' | C4' | H4' | 45.5° | 61.0° |
H5'' | C5' | C4' | O4' | 60.3° | 57.9° |
H5'' | C5' | C4' | C3' | 176.8° | 60.0° |
H5'' | C5' | C4' | H4' | 64.0° | 179.0° |
O4' | C4' | C3' | H4' | 124.4° | 119.4° |
O4' | C4' | C3' | C3M | 161.6° | 120.8° |
O4' | C4' | C3' | C2' | 41.5° | 2.0° |
O4' | C4' | C3' | H3' | 82.0° | 116.6° |
C4' | O4' | C1' | C2' | 3.5° | 40.0° |
C4' | O4' | C1' | N1 | 116.8° | 158.7° |
C4' | O4' | C1' | H1' | 123.9° | 78.5° |
C3' | C4' | O4' | C1' | 23.9° | 26.5° |
C4' | C3' | C3M | C2' | 113.6° | 114.9° |
C4' | C3' | C3M | H3' | 122.6° | 122.6° |
C4' | C3' | C2' | H3' | 122.2° | 118.6° |
C4' | C3' | C3M | HO3' | 180.0° | 65.1° |
C4' | C3' | C3M | H3T2 | 54.7° | 54.8° |
C4' | C3' | C3M | H3T3 | 54.8° | 174.8° |
C4' | C3' | C2' | O2' | 73.0° | 139.1° |
C4' | C3' | C2' | C1' | 42.6° | 20.9° |
C4' | C3' | C2' | H2' | 166.7° | 97.3° |
H4' | C4' | O4' | C1' | 95.5° | 92.9° |
H4' | C4' | C3' | C3M | 37.2° | 1.4° |
H4' | C4' | C3' | C2' | 82.9° | 117.4° |
H4' | C4' | C3' | H3' | 153.6° | 124.0° |
O4' | C1' | C2' | C3' | 29.3° | 37.0° |
O4' | C1' | C2' | O2' | 86.1° | 155.2° |
O4' | C1' | C2' | N1 | 118.0° | 118.6° |
O4' | C1' | C2' | H1' | 122.6° | 118.5° |
O4' | C1' | C2' | H2' | 153.6° | 81.2° |
O4' | C1' | N1 | H1' | 122.7° | 122.9° |
O4' | C1' | N1 | C2 | 152.5° | 58.2° |
O4' | C1' | N1 | C6 | 27.9° | 121.4° |
C3M | C3' | C2' | H3' | 116.3° | 122.5° |
C3' | C3M | HO3' | H3T2 | 125.3° | 119.9° |
C3' | C3M | HO3' | H3T3 | 125.2° | 120.1° |
C3' | C3M | H3T2 | H3T3 | 116.4° | 120.0° |
C3M | C3' | C2' | O2' | 48.5° | 20.2° |
C3M | C3' | C2' | C1' | 164.1° | 98.0° |
C3M | C3' | C2' | H2' | 71.8° | 143.8° |
C2' | C3' | C3M | HO3' | 66.3° | 180.0° |
C2' | C3' | C3M | H3T2 | 168.4° | 60.0° |
C2' | C3' | C3M | H3T3 | 58.8° | 59.9° |
C3' | C2' | O2' | C1' | 109.4° | 112.7° |
C3' | C2' | O2' | H2' | 125.4° | 123.7° |
C3' | C2' | C1' | H2' | 124.4° | 118.2° |
C3' | C2' | O2' | CA' | 176.6° | 152.9° |
C3' | C2' | C1' | N1 | 88.7° | 155.6° |
C3' | C2' | C1' | H1' | 151.9° | 81.5° |
H3' | C3' | C3M | HO3' | 57.5° | 57.5° |
H3' | C3' | C3M | H3T2 | 67.8° | 177.4° |
H3' | C3' | C3M | H3T3 | 177.4° | 62.6° |
H3' | C3' | C2' | O2' | 164.8° | 102.3° |
H3' | C3' | C2' | C1' | 79.6° | 139.5° |
H3' | C3' | C2' | H2' | 44.5° | 21.3° |
HO3' | C3M | H3T2 | H3T3 | 116.4° | 120.0° |
O2' | C2' | C1' | H2' | 120.3° | 123.6° |
O2' | C2' | C1' | N1 | 156.0° | 86.2° |
O2' | C2' | C1' | H1' | 36.6° | 36.7° |
C2' | O2' | CA' | HA'1 | 180.0° | 179.9° |
C2' | O2' | CA' | HA'2 | 54.7° | 60.0° |
C2' | O2' | CA' | HA'3 | 54.7° | 60.0° |
C1' | C2' | O2' | CA' | 74.0° | 94.3° |
C2' | C1' | N1 | H1' | 120.5° | 122.9° |
C2' | C1' | N1 | C2 | 90.7° | 56.0° |
C2' | C1' | N1 | C6 | 88.8° | 124.4° |
H2' | C2' | O2' | CA' | 51.2° | 29.3° |
H2' | C2' | C1' | N1 | 35.7° | 37.4° |
H2' | C2' | C1' | H1' | 83.7° | 160.3° |
O2' | CA' | HA'1 | HA'2 | 125.3° | 120.0° |
O2' | CA' | HA'1 | HA'3 | 125.3° | 120.0° |
O2' | CA' | HA'2 | HA'3 | 115.5° | 120.0° |
C1' | N1 | C2 | C6 | 179.5° | 179.7° |
C1' | N1 | C2 | O2 | 0.6° | 0.3° |
C1' | N1 | C2 | N3 | 179.2° | 179.8° |
C1' | N1 | C6 | C5 | 179.2° | 180.0° |
C1' | N1 | C6 | H6 | 0.8° | 0.1° |
H1' | C1' | N1 | C2 | 29.8° | 178.9° |
H1' | C1' | N1 | C6 | 150.6° | 1.4° |
N1 | C2 | O2 | N3 | 179.7° | 179.5° |
N1 | C2 | N3 | C4 | 0.3° | 0.5° |
N1 | C2 | N3 | H3 | 179.6° | 179.7° |
C2 | N1 | C6 | C5 | 0.3° | 0.3° |
C2 | N1 | C6 | H6 | 179.7° | 179.7° |
C6 | N1 | C2 | O2 | 179.9° | 180.0° |
C6 | N1 | C2 | N3 | 0.3° | 0.6° |
N1 | C6 | C5 | C4 | 0.2° | 0.0° |
N1 | C6 | C5 | C5M | 179.6° | 180.0° |
N1 | C6 | C5 | H6 | 180.0° | 180.0° |
O2 | C2 | N3 | C4 | 179.9° | 180.0° |
O2 | C2 | N3 | H3 | 0.2° | 0.3° |
C2 | N3 | C4 | H3 | 179.9° | 179.7° |
C2 | N3 | C4 | O4 | 179.5° | 179.8° |
C2 | N3 | C4 | C5 | 0.3° | 0.3° |
N3 | C4 | O4 | C5 | 179.8° | 180.0° |
N3 | C4 | C5 | C5M | 179.7° | 180.0° |
N3 | C4 | C5 | C6 | 0.2° | 0.0° |
H3 | N3 | C4 | O4 | 0.5° | 0.0° |
H3 | N3 | C4 | C5 | 179.7° | 180.0° |
O4 | C4 | C5 | C5M | 0.5° | 0.0° |
O4 | C4 | C5 | C6 | 179.6° | 180.0° |
C4 | C5 | C5M | C6 | 179.9° | 180.0° |
C4 | C5 | C5M | H71 | 180.0° | 0.0° |
C4 | C5 | C5M | H72 | 54.7° | 120.1° |
C4 | C5 | C5M | H73 | 54.7° | 120.0° |
C4 | C5 | C6 | H6 | 179.7° | 180.0° |
C5 | C5M | H71 | H72 | 125.3° | 120.1° |
C5 | C5M | H71 | H73 | 125.3° | 120.0° |
C5 | C5M | H72 | H73 | 114.5° | 120.0° |
C5M | C5 | C6 | H6 | 0.4° | 0.0° |
C6 | C5 | C5M | H71 | 0.1° | 180.0° |
C6 | C5 | C5M | H72 | 125.2° | 59.9° |
C6 | C5 | C5M | H73 | 125.4° | 60.0° |
H71 | C5M | H72 | H73 | 114.6° | 119.9° |
HA'1 | CA' | HA'2 | HA'3 | 115.5° | 120.0° |