VC6
Bonds
First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
O2 | C2 | doub | 1.22Å | 1.20Å | |
C2 | N3 | sing | 1.33Å | 1.32Å | |
C2 | N1 | sing | 1.35Å | 1.32Å | |
C2' | C1' | sing | 1.55Å | 1.57Å | |
C2' | C3' | sing | 1.55Å | 1.55Å | |
N3 | C4 | doub | 1.33Å | 1.33Å | |
C1' | N1 | sing | 1.47Å | 1.47Å | |
C1' | O4' | sing | 1.44Å | 1.31Å | |
N1 | C6 | sing | 1.36Å | 1.33Å | |
O3' | C3' | sing | 1.43Å | 1.48Å | |
C3' | C4' | sing | 1.54Å | 1.33Å | |
C4 | N4 | sing | 1.38Å | 1.45Å | |
C4 | C5 | sing | 1.41Å | 1.38Å | |
O4' | C4' | sing | 1.43Å | 1.60Å | |
C6 | C5 | doub | 1.35Å | 1.39Å | |
C4' | C5' | sing | 1.53Å | 1.49Å | |
O2B | PB | doub | 1.48Å | 1.50Å | |
C5' | O5' | sing | 1.43Å | 1.40Å | |
PB | O3A | sing | 1.61Å | 1.63Å | |
PB | O1B | sing | 1.61Å | 1.52Å | |
PB | C3B | sing | 1.82Å | 1.87Å | |
O3A | PA | sing | 1.61Å | 1.64Å | |
O5' | PA | sing | 1.61Å | 1.63Å | |
F4B | C3B | sing | 1.40Å | 1.39Å | |
C3B | CL1 | sing | 1.80Å | 1.76Å | |
C3B | PG | sing | 1.82Å | 1.87Å | |
PA | O2A | doub | 1.48Å | 1.49Å | |
PA | O1A | sing | 1.61Å | 1.50Å | |
O3G | PG | doub | 1.48Å | 1.49Å | |
PG | O2G | sing | 1.61Å | 1.52Å | |
PG | O1G | sing | 1.61Å | 1.50Å | |
N4 | H1 | sing | 0.97Å | 1.00Å | |
N4 | H2 | sing | 0.97Å | 1.00Å | |
C5 | H3 | sing | 1.08Å | 1.08Å | |
C6 | H4 | sing | 1.08Å | 1.08Å | |
C1' | H5 | sing | 1.09Å | 1.10Å | |
C2' | H6 | sing | 1.09Å | 1.10Å | |
C2' | H7 | sing | 1.09Å | 1.10Å | |
C3' | H8 | sing | 1.09Å | 1.10Å | |
O3' | H9 | sing | 0.97Å | 0.95Å | |
C4' | H10 | sing | 1.09Å | 1.10Å | |
C5' | H11 | sing | 1.09Å | 1.10Å | |
C5' | H12 | sing | 1.09Å | 1.10Å | |
O1A | H13 | sing | 0.97Å | 0.95Å | |
O1B | H14 | sing | 0.97Å | 0.95Å | |
O2G | H15 | sing | 0.97Å | 0.95Å | |
O1G | H16 | sing | 0.97Å | 0.95Å |
Angles
First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
O2 | C2 | N3 | 119.3° | 119.4° |
O2 | C2 | N1 | 118.8° | 119.5° |
N3 | C2 | N1 | 121.9° | 121.1° |
C2 | N3 | C4 | 120.3° | 120.6° |
C2 | N1 | C1' | 118.7° | 119.8° |
C2 | N1 | C6 | 119.7° | 120.4° |
C1' | C2' | C3' | 105.4° | 100.9° |
C2' | C1' | N1 | 107.9° | 110.3° |
C2' | C1' | O4' | 103.7° | 105.1° |
C2' | C1' | H5 | 108.6° | 110.4° |
C1' | C2' | H6 | 110.5° | 111.1° |
C1' | C2' | H7 | 110.5° | 111.1° |
C2' | C3' | O3' | 114.6° | 110.9° |
C2' | C3' | C4' | 102.6° | 102.3° |
C3' | C2' | H6 | 110.5° | 111.1° |
C3' | C2' | H7 | 110.5° | 111.2° |
C2' | C3' | H8 | 105.7° | 110.8° |
N3 | C4 | N4 | 121.0° | 120.1° |
N3 | C4 | C5 | 120.3° | 119.7° |
N1 | C1' | O4' | 113.9° | 110.3° |
C1' | N1 | C6 | 121.5° | 119.8° |
N1 | C1' | H5 | 109.9° | 110.3° |
C1' | O4' | C4' | 103.2° | 109.9° |
O4' | C1' | H5 | 112.5° | 110.3° |
N1 | C6 | C5 | 120.7° | 119.3° |
N1 | C6 | H4 | 119.7° | 120.4° |
O3' | C3' | C4' | 118.4° | 110.9° |
O3' | C3' | H8 | 106.5° | 110.9° |
C3' | O3' | H9 | 109.5° | 114.0° |
C3' | C4' | O4' | 111.9° | 107.6° |
C3' | C4' | C5' | 125.9° | 109.8° |
C4' | C3' | H8 | 108.4° | 110.8° |
C3' | C4' | H10 | 102.6° | 109.8° |
N4 | C4 | C5 | 118.6° | 120.2° |
C4 | N4 | H1 | 120.0° | 120.0° |
C4 | N4 | H2 | 120.0° | 120.0° |
C4 | C5 | C6 | 117.0° | 118.9° |
C4 | C5 | H3 | 121.5° | 120.5° |
O4' | C4' | C5' | 110.5° | 109.8° |
O4' | C4' | H10 | 100.4° | 109.8° |
C6 | C5 | H3 | 121.5° | 120.5° |
C5 | C6 | H4 | 119.7° | 120.3° |
C4' | C5' | O5' | 90.2° | 109.5° |
C5' | C4' | H10 | 101.2° | 109.9° |
C4' | C5' | H11 | 114.1° | 109.5° |
C4' | C5' | H12 | 114.0° | 109.5° |
O2B | PB | O3A | 103.9° | 109.5° |
O2B | PB | O1B | 111.5° | 109.5° |
O2B | PB | C3B | 108.6° | 109.5° |
C5' | O5' | PA | 118.3° | 123.0° |
O5' | C5' | H11 | 114.1° | 109.5° |
O5' | C5' | H12 | 114.1° | 109.5° |
O3A | PB | O1B | 111.4° | 109.5° |
O3A | PB | C3B | 109.4° | 109.5° |
PB | O3A | PA | 128.4° | 134.0° |
O1B | PB | C3B | 111.7° | 109.5° |
PB | O1B | H14 | 109.5° | 114.0° |
PB | C3B | F4B | 112.6° | 109.5° |
PB | C3B | CL1 | 107.4° | 109.5° |
PB | C3B | PG | 110.0° | 109.4° |
O3A | PA | O5' | 105.2° | 109.5° |
O3A | PA | O2A | 107.7° | 109.5° |
O3A | PA | O1A | 112.6° | 109.4° |
O5' | PA | O2A | 111.2° | 109.5° |
O5' | PA | O1A | 105.8° | 109.4° |
F4B | C3B | CL1 | 106.9° | 109.5° |
F4B | C3B | PG | 112.2° | 109.5° |
CL1 | C3B | PG | 107.5° | 109.5° |
C3B | PG | O3G | 108.8° | 109.5° |
C3B | PG | O2G | 107.7° | 109.5° |
C3B | PG | O1G | 109.5° | 109.5° |
O2A | PA | O1A | 114.1° | 109.5° |
PA | O1A | H13 | 109.5° | 114.0° |
O3G | PG | O2G | 110.4° | 109.5° |
O3G | PG | O1G | 110.9° | 109.5° |
O2G | PG | O1G | 109.6° | 109.5° |
PG | O2G | H15 | 109.5° | 114.0° |
PG | O1G | H16 | 109.5° | 114.0° |
H1 | N4 | H2 | 120.0° | 120.0° |
H6 | C2' | H7 | 109.5° | 111.0° |
H11 | C5' | H12 | 109.5° | 109.4° |
Dihedrals
First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
O2 | C2 | N3 | N1 | 179.9° | 180.0° |
O2 | C2 | N3 | C4 | 179.9° | 179.9° |
O2 | C2 | N1 | C1' | 2.2° | 0.1° |
O2 | C2 | N1 | C6 | 179.0° | 179.8° |
N3 | C2 | N1 | C1' | 177.9° | 180.0° |
N3 | C2 | N1 | C6 | 1.1° | 0.3° |
C2 | N3 | C4 | N4 | 179.6° | 180.0° |
C2 | N3 | C4 | C5 | 0.9° | 0.3° |
C2 | N1 | C1' | C2' | 85.4° | 62.1° |
N1 | C2 | N3 | C4 | 0.0° | 0.0° |
C2 | N1 | C1' | C6 | 176.7° | 179.7° |
C2 | N1 | C1' | O4' | 160.1° | 53.6° |
C2 | N1 | C6 | C5 | 1.2° | 0.3° |
C2 | N1 | C6 | H4 | 178.8° | 179.7° |
C2 | N1 | C1' | H5 | 32.8° | 175.6° |
C1' | C2' | C3' | H6 | 119.3° | 117.9° |
C1' | C2' | C3' | H7 | 119.3° | 117.9° |
C2' | C1' | N1 | O4' | 114.5° | 115.7° |
C2' | C1' | N1 | H5 | 118.2° | 122.3° |
C2' | C1' | O4' | H5 | 117.1° | 119.1° |
C2' | C1' | N1 | C6 | 91.3° | 117.6° |
C1' | C2' | C3' | O3' | 141.3° | 84.0° |
C1' | C2' | C3' | C4' | 11.7° | 34.2° |
C2' | C1' | O4' | C4' | 35.2° | 24.5° |
C1' | C2' | H6 | H7 | 121.9° | 124.2° |
C1' | C2' | C3' | H8 | 101.8° | 152.3° |
C3' | C2' | C1' | N1 | 89.1° | 155.4° |
C3' | C2' | C1' | O4' | 32.0° | 36.5° |
C2' | C3' | O3' | C4' | 121.3° | 112.9° |
C2' | C3' | O3' | H8 | 116.4° | 123.6° |
C2' | C3' | C4' | H8 | 111.5° | 118.2° |
C2' | C3' | C4' | O4' | 9.1° | 21.4° |
C2' | C3' | C4' | C5' | 148.2° | 140.9° |
C3' | C2' | C1' | H5 | 151.8° | 82.5° |
C3' | C2' | H6 | H7 | 121.9° | 124.3° |
C2' | C3' | O3' | H9 | 153.2° | 61.5° |
C2' | C3' | C4' | H10 | 97.8° | 98.2° |
N3 | C4 | N4 | C5 | 178.7° | 179.7° |
N3 | C4 | C5 | C6 | 0.8° | 0.3° |
N3 | C4 | N4 | H1 | 0.0° | 179.7° |
N3 | C4 | N4 | H2 | 180.0° | 0.3° |
N3 | C4 | C5 | H3 | 179.2° | 179.7° |
N1 | C1' | O4' | H5 | 125.9° | 122.0° |
N1 | C1' | O4' | C4' | 81.8° | 143.4° |
C1' | N1 | C6 | C5 | 177.9° | 180.0° |
C1' | N1 | C6 | H4 | 2.1° | 0.0° |
N1 | C1' | C2' | H6 | 151.5° | 86.7° |
N1 | C1' | C2' | H7 | 30.2° | 37.4° |
O4' | C1' | N1 | C6 | 23.2° | 126.7° |
C1' | O4' | C4' | C3' | 31.1° | 1.7° |
C1' | O4' | C4' | C5' | 176.6° | 117.8° |
O4' | C1' | C2' | H6 | 87.3° | 154.4° |
O4' | C1' | C2' | H7 | 151.3° | 81.5° |
C1' | O4' | C4' | H10 | 77.2° | 121.3° |
N1 | C6 | C5 | C4 | 0.3° | 0.0° |
N1 | C6 | C5 | H4 | 180.0° | 180.0° |
N1 | C6 | C5 | H3 | 179.7° | 180.0° |
C6 | N1 | C1' | H5 | 150.5° | 4.7° |
O3' | C3' | C4' | H8 | 121.3° | 123.6° |
O3' | C3' | C4' | O4' | 118.1° | 96.8° |
O3' | C3' | C4' | C5' | 21.0° | 22.7° |
O3' | C3' | C2' | H6 | 22.0° | 33.8° |
O3' | C3' | C2' | H7 | 99.3° | 158.0° |
O3' | C3' | C4' | H10 | 135.0° | 143.6° |
C3' | C4' | O4' | C5' | 145.5° | 119.5° |
C3' | C4' | O4' | H10 | 108.3° | 119.5° |
C3' | C4' | C5' | H10 | 114.7° | 120.9° |
C3' | C4' | C5' | O5' | 124.0° | 175.0° |
C4' | C3' | C2' | H6 | 107.6° | 152.0° |
C4' | C3' | C2' | H7 | 131.0° | 83.8° |
C4' | C3' | O3' | H9 | 85.5° | 174.3° |
C3' | C4' | C5' | H11 | 119.4° | 65.0° |
C3' | C4' | C5' | H12 | 7.4° | 55.0° |
N4 | C4 | C5 | C6 | 179.5° | 180.0° |
C4 | N4 | H1 | H2 | 180.0° | 180.0° |
N4 | C4 | C5 | H3 | 0.5° | 0.0° |
C4 | C5 | C6 | H3 | 180.0° | 179.9° |
C5 | C4 | N4 | H1 | 178.8° | 0.0° |
C5 | C4 | N4 | H2 | 1.3° | 180.0° |
C4 | C5 | C6 | H4 | 179.7° | 180.0° |
O4' | C4' | C5' | H10 | 105.7° | 120.9° |
O4' | C4' | C5' | O5' | 96.4° | 66.9° |
C4' | O4' | C1' | H5 | 152.3° | 94.6° |
O4' | C4' | C3' | H8 | 120.6° | 139.5° |
O4' | C4' | C5' | H11 | 20.2° | 53.2° |
O4' | C4' | C5' | H12 | 147.0° | 173.1° |
C4' | C5' | O5' | H11 | 116.6° | 120.0° |
C4' | C5' | O5' | H12 | 116.6° | 120.0° |
C4' | C5' | O5' | PA | 115.2° | 180.0° |
C5' | C4' | C3' | H8 | 100.3° | 101.0° |
C4' | C5' | H11 | H12 | 129.1° | 120.0° |
O2B | PB | O3A | O1B | 120.2° | 120.0° |
O2B | PB | O3A | C3B | 115.8° | 120.0° |
O2B | PB | O1B | C3B | 121.8° | 120.0° |
O2B | PB | O3A | PA | 146.3° | 60.1° |
O2B | PB | C3B | F4B | 19.0° | 60.0° |
O2B | PB | C3B | CL1 | 98.3° | 180.0° |
O2B | PB | C3B | PG | 145.0° | 60.0° |
O2B | PB | O1B | H14 | 0.0° | 180.0° |
C5' | O5' | PA | O3A | 45.4° | 175.0° |
C5' | O5' | PA | O2A | 161.8° | 55.0° |
C5' | O5' | PA | O1A | 73.9° | 65.0° |
O5' | C5' | C4' | H10 | 9.3° | 54.1° |
O5' | C5' | H11 | H12 | 129.2° | 120.0° |
O3A | PB | O1B | C3B | 122.6° | 120.0° |
PB | O3A | PA | O5' | 106.8° | 165.0° |
O3A | PB | C3B | F4B | 131.8° | 60.0° |
O3A | PB | C3B | CL1 | 14.4° | 60.0° |
O3A | PB | C3B | PG | 102.3° | 180.0° |
PB | O3A | PA | O2A | 134.5° | 44.9° |
PB | O3A | PA | O1A | 7.9° | 75.1° |
O3A | PB | O1B | H14 | 115.6° | 60.0° |
O1B | PB | O3A | PA | 26.1° | 59.9° |
O1B | PB | C3B | F4B | 104.4° | 180.0° |
O1B | PB | C3B | CL1 | 138.2° | 60.0° |
O1B | PB | C3B | PG | 21.5° | 60.0° |
C3B | PB | O3A | PA | 97.9° | 179.9° |
PB | C3B | F4B | CL1 | 117.6° | 120.0° |
PB | C3B | F4B | PG | 124.8° | 120.0° |
PB | C3B | CL1 | PG | 118.3° | 120.0° |
PB | C3B | PG | O3G | 79.7° | 60.0° |
PB | C3B | PG | O2G | 39.9° | 60.0° |
PB | C3B | PG | O1G | 159.0° | 180.0° |
C3B | PB | O1B | H14 | 121.7° | 60.0° |
O3A | PA | O5' | O2A | 116.3° | 120.1° |
O3A | PA | O5' | O1A | 119.3° | 119.9° |
O3A | PA | O2A | O1A | 125.7° | 120.0° |
O3A | PA | O1A | H13 | 123.2° | 60.0° |
O5' | PA | O2A | O1A | 119.5° | 120.0° |
PA | O5' | C5' | H11 | 128.2° | 59.9° |
PA | O5' | C5' | H12 | 1.4° | 60.0° |
O5' | PA | O1A | H13 | 122.5° | 60.0° |
F4B | C3B | CL1 | PG | 120.6° | 120.0° |
F4B | C3B | PG | O3G | 46.5° | 180.0° |
F4B | C3B | PG | O2G | 166.1° | 60.0° |
F4B | C3B | PG | O1G | 74.8° | 60.0° |
CL1 | C3B | PG | O3G | 163.7° | 60.0° |
CL1 | C3B | PG | O2G | 76.7° | 180.0° |
CL1 | C3B | PG | O1G | 42.4° | 60.0° |
C3B | PG | O3G | O2G | 117.9° | 120.0° |
C3B | PG | O3G | O1G | 120.4° | 120.0° |
C3B | PG | O2G | O1G | 119.0° | 120.0° |
C3B | PG | O2G | H15 | 118.6° | 60.0° |
C3B | PG | O1G | H16 | 120.0° | 180.0° |
O2A | PA | O1A | H13 | 0.0° | 180.0° |
O3G | PG | O2G | O1G | 122.4° | 120.0° |
O3G | PG | O2G | H15 | 0.0° | 180.0° |
O3G | PG | O1G | H16 | 0.0° | 60.0° |
O2G | PG | O1G | H16 | 122.1° | 60.0° |
O1G | PG | O2G | H15 | 122.4° | 60.0° |
H3 | C5 | C6 | H4 | 0.3° | 0.0° |
H5 | C1' | C2' | H6 | 32.4° | 35.4° |
H5 | C1' | C2' | H7 | 88.9° | 159.5° |
H6 | C2' | C3' | H8 | 138.9° | 89.8° |
H7 | C2' | C3' | H8 | 17.5° | 34.4° |
H8 | C3' | O3' | H9 | 36.8° | 62.1° |
H8 | C3' | C4' | H10 | 13.7° | 20.0° |
H10 | C4' | C5' | H11 | 125.9° | 174.1° |
H10 | C4' | C5' | H12 | 107.3° | 65.9° |