UMP
Bonds
First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
N1 | C2 | sing | 1.35Å | 1.37Å | |
N1 | C6 | sing | 1.37Å | 1.35Å | |
N1 | C1' | sing | 1.46Å | 1.48Å | |
C2 | N3 | sing | 1.35Å | 1.38Å | |
C2 | O2 | doub | 1.22Å | 1.25Å | |
N3 | C4 | sing | 1.35Å | 1.37Å | |
N3 | HN3 | sing | 0.97Å | 1.00Å | |
C4 | C5 | sing | 1.42Å | 1.41Å | |
C4 | O4 | doub | 1.22Å | 1.25Å | |
C5 | C6 | doub | 1.35Å | 1.38Å | |
C5 | H5 | sing | 1.08Å | 1.08Å | |
C6 | H6 | sing | 1.08Å | 1.08Å | |
C1' | C2' | sing | 1.54Å | 1.51Å | |
C1' | O4' | sing | 1.44Å | 1.42Å | |
C1' | H1' | sing | 1.09Å | 1.10Å | |
C2' | C3' | sing | 1.55Å | 1.50Å | |
C2' | H2' | sing | 1.09Å | 1.10Å | |
C2' | H2'' | sing | 1.09Å | 1.10Å | |
C3' | C4' | sing | 1.55Å | 1.53Å | |
C3' | O3' | sing | 1.43Å | 1.43Å | |
C3' | H3' | sing | 1.09Å | 1.10Å | |
C4' | O4' | sing | 1.44Å | 1.44Å | |
C4' | C5' | sing | 1.53Å | 1.49Å | |
C4' | H4' | sing | 1.09Å | 1.10Å | |
O3' | HO3' | sing | 0.97Å | 0.95Å | |
C5' | O5' | sing | 1.43Å | 1.40Å | |
C5' | H5' | sing | 1.09Å | 1.10Å | |
C5' | H5'' | sing | 1.09Å | 1.10Å | |
O5' | P | sing | 1.61Å | 1.58Å | |
P | OP1 | doub | 1.48Å | 1.50Å | |
P | OP2 | sing | 1.61Å | 1.50Å | |
P | OP3 | sing | 1.61Å | 1.49Å | |
OP2 | HOP2 | sing | 0.97Å | 0.95Å | |
OP3 | HOP3 | sing | 0.97Å | 0.95Å |
Angles
First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
C2 | N1 | C6 | 120.2° | 120.6° |
C2 | N1 | C1' | 120.0° | 119.7° |
N1 | C2 | N3 | 118.0° | 120.9° |
N1 | C2 | O2 | 123.1° | 119.6° |
C6 | N1 | C1' | 119.7° | 119.7° |
N1 | C6 | C5 | 121.7° | 119.7° |
N1 | C6 | H6 | 119.1° | 120.1° |
N1 | C1' | C2' | 112.7° | 109.9° |
N1 | C1' | O4' | 107.0° | 109.9° |
N1 | C1' | H1' | 109.8° | 109.9° |
N3 | C2 | O2 | 118.9° | 119.5° |
C2 | N3 | C4 | 123.8° | 120.2° |
C2 | N3 | HN3 | 118.1° | 119.9° |
C4 | N3 | HN3 | 118.1° | 119.9° |
N3 | C4 | C5 | 116.5° | 119.4° |
N3 | C4 | O4 | 118.4° | 120.3° |
C5 | C4 | O4 | 125.1° | 120.3° |
C4 | C5 | C6 | 119.7° | 119.1° |
C4 | C5 | H5 | 120.1° | 120.4° |
C6 | C5 | H5 | 120.2° | 120.5° |
C5 | C6 | H6 | 119.1° | 120.1° |
C2' | C1' | O4' | 107.3° | 107.3° |
C2' | C1' | H1' | 109.4° | 109.8° |
C1' | C2' | C3' | 105.7° | 104.2° |
C1' | C2' | H2' | 110.4° | 110.5° |
C1' | C2' | H2'' | 110.4° | 110.5° |
O4' | C1' | H1' | 110.6° | 110.0° |
C1' | O4' | C4' | 109.4° | 107.0° |
C3' | C2' | H2' | 110.4° | 110.5° |
C3' | C2' | H2'' | 110.4° | 110.5° |
C2' | C3' | C4' | 102.1° | 102.1° |
C2' | C3' | O3' | 113.9° | 110.9° |
C2' | C3' | H3' | 108.7° | 110.9° |
H2' | C2' | H2'' | 109.4° | 110.5° |
C4' | C3' | O3' | 113.7° | 110.9° |
C4' | C3' | H3' | 108.4° | 110.9° |
C3' | C4' | O4' | 106.6° | 103.5° |
C3' | C4' | C5' | 116.9° | 110.6° |
C3' | C4' | H4' | 107.7° | 110.6° |
O3' | C3' | H3' | 109.6° | 110.8° |
C3' | O3' | HO3' | 109.5° | 114.0° |
O4' | C4' | C5' | 108.5° | 110.6° |
O4' | C4' | H4' | 108.8° | 110.6° |
C5' | C4' | H4' | 108.1° | 110.7° |
C4' | C5' | O5' | 109.9° | 109.5° |
C4' | C5' | H5' | 109.3° | 109.4° |
C4' | C5' | H5'' | 109.3° | 109.5° |
O5' | C5' | H5' | 109.4° | 109.5° |
O5' | C5' | H5'' | 109.4° | 109.5° |
C5' | O5' | P | 120.9° | 123.0° |
H5' | C5' | H5'' | 109.5° | 109.5° |
O5' | P | OP1 | 105.8° | 109.5° |
O5' | P | OP2 | 108.5° | 109.5° |
O5' | P | OP3 | 106.9° | 109.4° |
OP1 | P | OP2 | 112.0° | 109.5° |
OP1 | P | OP3 | 109.9° | 109.5° |
OP2 | P | OP3 | 113.4° | 109.4° |
P | OP2 | HOP2 | 109.5° | 114.0° |
P | OP3 | HOP3 | 109.5° | 114.0° |
Dihedrals
First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
C2 | N1 | C6 | C1' | 177.5° | 179.7° |
N1 | C2 | N3 | O2 | 179.2° | 180.0° |
N1 | C2 | N3 | C4 | 1.0° | 0.0° |
N1 | C2 | N3 | HN3 | 178.9° | 180.0° |
C2 | N1 | C6 | C5 | 3.3° | 0.0° |
C2 | N1 | C6 | H6 | 176.7° | 180.0° |
C2 | N1 | C1' | C2' | 118.3° | 115.0° |
C2 | N1 | C1' | O4' | 124.0° | 127.2° |
C2 | N1 | C1' | H1' | 3.9° | 5.9° |
C6 | N1 | C2 | N3 | 2.0° | 0.0° |
C6 | N1 | C2 | O2 | 178.9° | 180.0° |
N1 | C6 | C5 | C4 | 3.5° | 0.0° |
N1 | C6 | C5 | H6 | 180.0° | 180.0° |
N1 | C6 | C5 | H5 | 176.5° | 180.0° |
C6 | N1 | C1' | C2' | 64.2° | 65.3° |
C6 | N1 | C1' | O4' | 53.5° | 52.6° |
C6 | N1 | C1' | H1' | 173.6° | 173.8° |
C1' | N1 | C2 | N3 | 179.5° | 179.7° |
C1' | N1 | C2 | O2 | 1.3° | 0.3° |
C1' | N1 | C6 | C5 | 179.2° | 179.7° |
C1' | N1 | C6 | H6 | 0.8° | 0.2° |
N1 | C1' | C2' | O4' | 117.6° | 119.5° |
N1 | C1' | C2' | H1' | 122.4° | 121.0° |
N1 | C1' | O4' | H1' | 119.5° | 121.1° |
N1 | C1' | C2' | C3' | 99.8° | 121.5° |
N1 | C1' | C2' | H2' | 140.7° | 119.8° |
N1 | C1' | C2' | H2'' | 19.6° | 2.8° |
N1 | C1' | O4' | C4' | 122.0° | 145.9° |
C2 | N3 | C4 | HN3 | 180.0° | 180.0° |
C2 | N3 | C4 | C5 | 1.2° | 0.1° |
C2 | N3 | C4 | O4 | 178.9° | 180.0° |
O2 | C2 | N3 | C4 | 179.8° | 180.0° |
O2 | C2 | N3 | HN3 | 0.2° | 0.0° |
N3 | C4 | C5 | O4 | 177.5° | 179.9° |
N3 | C4 | C5 | C6 | 2.3° | 0.0° |
N3 | C4 | C5 | H5 | 177.7° | 180.0° |
HN3 | N3 | C4 | C5 | 178.8° | 180.0° |
HN3 | N3 | C4 | O4 | 1.0° | 0.0° |
C4 | C5 | C6 | H5 | 180.0° | 180.0° |
C4 | C5 | C6 | H6 | 176.5° | 180.0° |
O4 | C4 | C5 | C6 | 179.9° | 180.0° |
O4 | C4 | C5 | H5 | 0.1° | 0.1° |
H5 | C5 | C6 | H6 | 3.5° | 0.0° |
C2' | C1' | O4' | H1' | 119.2° | 119.5° |
C1' | C2' | C3' | H2' | 119.4° | 118.7° |
C1' | C2' | C3' | H2'' | 119.4° | 118.7° |
C1' | C2' | H2' | H2'' | 121.7° | 122.6° |
C1' | C2' | C3' | C4' | 27.8° | 20.9° |
C1' | C2' | C3' | O3' | 150.8° | 139.1° |
C1' | C2' | C3' | H3' | 86.7° | 97.3° |
C2' | C1' | O4' | C4' | 0.8° | 26.5° |
O4' | C1' | C2' | C3' | 17.7° | 2.0° |
O4' | C1' | C2' | H2' | 101.7° | 120.7° |
O4' | C1' | C2' | H2'' | 137.1° | 116.7° |
C1' | O4' | C4' | C3' | 18.8° | 40.0° |
C1' | O4' | C4' | C5' | 145.5° | 158.6° |
C1' | O4' | C4' | H4' | 97.1° | 78.4° |
H1' | C1' | C2' | C3' | 137.7° | 117.5° |
H1' | C1' | C2' | H2' | 18.3° | 1.1° |
H1' | C1' | C2' | H2'' | 102.9° | 123.8° |
H1' | C1' | O4' | C4' | 118.4° | 92.9° |
C3' | C2' | H2' | H2'' | 121.8° | 122.7° |
C2' | C3' | C4' | O3' | 123.1° | 118.2° |
C2' | C3' | C4' | H3' | 114.6° | 118.2° |
C2' | C3' | O3' | H3' | 122.0° | 123.6° |
C2' | C3' | C4' | O4' | 28.7° | 37.0° |
C2' | C3' | C4' | C5' | 150.2° | 155.5° |
C2' | C3' | C4' | H4' | 87.9° | 81.5° |
C2' | C3' | O3' | HO3' | 180.0° | 61.4° |
H2' | C2' | C3' | C4' | 91.6° | 97.8° |
H2' | C2' | C3' | O3' | 31.4° | 20.4° |
H2' | C2' | C3' | H3' | 153.9° | 144.0° |
H2'' | C2' | C3' | C4' | 147.2° | 139.6° |
H2'' | C2' | C3' | O3' | 89.8° | 102.2° |
H2'' | C2' | C3' | H3' | 32.7° | 21.3° |
C4' | C3' | O3' | H3' | 121.6° | 123.6° |
C3' | C4' | O4' | C5' | 126.7° | 118.5° |
C3' | C4' | O4' | H4' | 115.9° | 118.5° |
C3' | C4' | C5' | H4' | 121.7° | 123.0° |
C4' | C3' | O3' | HO3' | 63.5° | 174.2° |
C3' | C4' | C5' | O5' | 59.0° | 175.0° |
C3' | C4' | C5' | H5' | 179.1° | 55.0° |
C3' | C4' | C5' | H5'' | 61.1° | 65.0° |
O3' | C3' | C4' | O4' | 151.9° | 155.2° |
O3' | C3' | C4' | C5' | 86.7° | 86.3° |
O3' | C3' | C4' | H4' | 35.2° | 36.8° |
H3' | C3' | C4' | O4' | 85.9° | 81.2° |
H3' | C3' | C4' | C5' | 35.6° | 37.3° |
H3' | C3' | C4' | H4' | 157.5° | 160.3° |
H3' | C3' | O3' | HO3' | 58.0° | 62.2° |
O4' | C4' | C5' | H4' | 117.8° | 123.0° |
O4' | C4' | C5' | O5' | 61.5° | 70.9° |
O4' | C4' | C5' | H5' | 58.6° | 169.1° |
O4' | C4' | C5' | H5'' | 178.4° | 49.1° |
C4' | C5' | O5' | H5' | 120.1° | 120.0° |
C4' | C5' | O5' | H5'' | 120.1° | 120.0° |
C4' | C5' | H5' | H5'' | 119.8° | 120.0° |
C4' | C5' | O5' | P | 174.4° | 180.0° |
H4' | C4' | C5' | O5' | 179.3° | 52.0° |
H4' | C4' | C5' | H5' | 59.2° | 68.0° |
H4' | C4' | C5' | H5'' | 60.6° | 172.0° |
O5' | C5' | H5' | H5'' | 119.8° | 120.0° |
C5' | O5' | P | OP1 | 175.6° | 55.0° |
C5' | O5' | P | OP2 | 55.2° | 65.0° |
C5' | O5' | P | OP3 | 67.4° | 175.0° |
H5' | C5' | O5' | P | 65.5° | 60.0° |
H5'' | C5' | O5' | P | 54.3° | 60.0° |
O5' | P | OP1 | OP2 | 118.0° | 120.1° |
O5' | P | OP1 | OP3 | 115.1° | 120.0° |
O5' | P | OP2 | OP3 | 118.6° | 120.0° |
O5' | P | OP2 | HOP2 | 116.4° | 60.0° |
O5' | P | OP3 | HOP3 | 114.4° | 180.0° |
OP1 | P | OP2 | OP3 | 125.0° | 120.0° |
OP1 | P | OP2 | HOP2 | 0.0° | 180.0° |
OP1 | P | OP3 | HOP3 | 0.0° | 60.0° |
OP2 | P | OP3 | HOP3 | 126.1° | 60.0° |
OP3 | P | OP2 | HOP2 | 125.0° | 60.0° |