G5N
Bonds
First atom | Second atom | Bond order type | Distance (experimental model) | Distance (ideal model) | Properties |
OD1 | CG | doub | 1.21Å | 1.26Å | |
CG | OD2 | sing | 1.34Å | 1.25Å | |
CG | CB | sing | 1.51Å | 1.53Å | |
CB | CA | sing | 1.53Å | 1.54Å | |
O3' | C3' | sing | 1.43Å | 1.42Å | |
O2' | C2' | sing | 1.43Å | 1.42Å | |
C4' | C5' | sing | 1.53Å | 1.51Å | |
C4' | C3' | sing | 1.54Å | 1.52Å | |
C4' | O4' | sing | 1.44Å | 1.44Å | |
C5' | O5' | sing | 1.43Å | 1.45Å | |
CA | N | sing | 1.47Å | 1.48Å | |
CA | C | sing | 1.51Å | 1.53Å | |
C3' | C2' | sing | 1.55Å | 1.53Å | |
O4' | C1' | sing | 1.44Å | 1.42Å | |
C2' | C1' | sing | 1.55Å | 1.54Å | |
C | N3S | sing | 1.35Å | 1.44Å | |
C | O | doub | 1.21Å | 1.23Å | |
C1' | N1 | sing | 1.46Å | 1.48Å | |
N3S | S | sing | 1.66Å | 1.60Å | |
O5' | S | sing | 1.52Å | 1.59Å | |
O2S | S | doub | 1.42Å | 1.42Å | |
O2 | C2 | doub | 1.22Å | 1.23Å | |
S | O1S | doub | 1.42Å | 1.42Å | |
N1 | C2 | sing | 1.35Å | 1.40Å | |
N1 | C6 | sing | 1.36Å | 1.37Å | |
C2 | N3 | sing | 1.33Å | 1.36Å | |
C6 | C5 | doub | 1.35Å | 1.34Å | |
N3 | C4 | doub | 1.33Å | 1.34Å | |
C5 | C4 | sing | 1.41Å | 1.43Å | |
C4 | N4 | sing | 1.38Å | 1.33Å | |
C5 | H1 | sing | 1.08Å | 1.08Å | |
C6 | H2 | sing | 1.08Å | 1.08Å | |
N | H3 | sing | 1.01Å | 1.00Å | |
N | H4 | sing | 1.01Å | 1.00Å | |
CA | H6 | sing | 1.09Å | 1.10Å | |
CB | H7 | sing | 1.09Å | 1.10Å | |
CB | H8 | sing | 1.09Å | 1.10Å | |
OD2 | H9 | sing | 0.97Å | 0.95Å | |
C1' | H10 | sing | 1.09Å | 1.10Å | |
C2' | H11 | sing | 1.09Å | 1.10Å | |
C3' | H12 | sing | 1.09Å | 1.10Å | |
C4' | H13 | sing | 1.09Å | 1.10Å | |
C5' | H14 | sing | 1.09Å | 1.10Å | |
C5' | H15 | sing | 1.09Å | 1.10Å | |
N3S | H16 | sing | 0.97Å | 1.00Å | |
N4 | H17 | sing | 0.97Å | 1.00Å | |
N4 | H18 | sing | 0.97Å | 1.00Å | |
O2' | H19 | sing | 0.97Å | 0.95Å | |
O3' | H20 | sing | 0.97Å | 0.95Å |
Angles
First atom | Second atom | Third atom | Angle (experimental model) | Angle (ideal model) |
OD1 | CG | OD2 | 124.4° | 120.0° |
OD1 | CG | CB | 118.1° | 119.9° |
OD2 | CG | CB | 117.5° | 120.0° |
CG | OD2 | H9 | 109.5° | 117.0° |
CG | CB | CA | 110.3° | 109.5° |
CG | CB | H7 | 109.2° | 109.5° |
CG | CB | H8 | 109.3° | 109.4° |
CB | CA | N | 115.1° | 109.4° |
CB | CA | C | 109.2° | 109.5° |
CB | CA | H6 | 109.1° | 109.5° |
CA | CB | H7 | 109.3° | 109.5° |
CA | CB | H8 | 109.3° | 109.4° |
O3' | C3' | C4' | 110.5° | 110.6° |
O3' | C3' | C2' | 111.7° | 110.5° |
O3' | C3' | H12 | 111.7° | 110.5° |
C3' | O3' | H20 | 109.5° | 113.9° |
O2' | C2' | C3' | 112.7° | 110.9° |
O2' | C2' | C1' | 108.9° | 110.9° |
O2' | C2' | H11 | 111.8° | 110.8° |
C2' | O2' | H19 | 109.5° | 114.0° |
C5' | C4' | C3' | 116.3° | 109.9° |
C5' | C4' | O4' | 108.8° | 110.0° |
C4' | C5' | O5' | 106.4° | 109.5° |
C5' | C4' | H13 | 108.9° | 109.9° |
C4' | C5' | H14 | 110.3° | 109.5° |
C4' | C5' | H15 | 110.2° | 109.4° |
C3' | C4' | O4' | 104.0° | 107.4° |
C4' | C3' | C2' | 102.3° | 104.2° |
C4' | C3' | H12 | 110.2° | 110.5° |
C3' | C4' | H13 | 108.8° | 109.9° |
C4' | O4' | C1' | 109.4° | 107.0° |
O4' | C4' | H13 | 109.9° | 109.8° |
C5' | O5' | S | 117.6° | 114.0° |
O5' | C5' | H14 | 110.2° | 109.5° |
O5' | C5' | H15 | 110.2° | 109.5° |
N | CA | C | 104.3° | 109.5° |
CA | N | H3 | 109.5° | 111.0° |
CA | N | H4 | 109.5° | 111.0° |
N | CA | H6 | 109.9° | 109.5° |
CA | C | N3S | 117.4° | 120.0° |
CA | C | O | 124.7° | 120.0° |
C | CA | H6 | 109.1° | 109.5° |
C3' | C2' | C1' | 102.8° | 102.1° |
C3' | C2' | H11 | 110.1° | 110.9° |
C2' | C3' | H12 | 110.0° | 110.5° |
O4' | C1' | C2' | 107.6° | 103.6° |
O4' | C1' | N1 | 109.0° | 110.7° |
O4' | C1' | H10 | 109.8° | 110.6° |
C2' | C1' | N1 | 113.4° | 110.6° |
C2' | C1' | H10 | 108.1° | 110.6° |
C1' | C2' | H11 | 110.1° | 110.9° |
N3S | C | O | 117.9° | 120.0° |
C | N3S | S | 127.1° | 120.0° |
C | N3S | H16 | 116.4° | 120.0° |
C1' | N1 | C2 | 118.3° | 119.8° |
C1' | N1 | C6 | 121.2° | 119.8° |
N1 | C1' | H10 | 108.9° | 110.6° |
N3S | S | O5' | 105.3° | 107.3° |
N3S | S | O2S | 107.8° | 106.4° |
N3S | S | O1S | 111.5° | 106.4° |
S | N3S | H16 | 116.4° | 120.0° |
O5' | S | O2S | 105.8° | 106.4° |
O5' | S | O1S | 103.8° | 106.4° |
O2S | S | O1S | 121.3° | 123.1° |
O2 | C2 | N1 | 119.0° | 119.4° |
O2 | C2 | N3 | 122.2° | 119.5° |
C2 | N1 | C6 | 120.4° | 120.3° |
N1 | C2 | N3 | 118.9° | 121.1° |
N1 | C6 | C5 | 121.2° | 119.3° |
N1 | C6 | H2 | 119.4° | 120.4° |
C2 | N3 | C4 | 120.5° | 120.7° |
C6 | C5 | C4 | 117.5° | 119.0° |
C6 | C5 | H1 | 121.2° | 120.5° |
C5 | C6 | H2 | 119.4° | 120.3° |
N3 | C4 | C5 | 121.5° | 119.7° |
N3 | C4 | N4 | 118.1° | 120.1° |
C5 | C4 | N4 | 120.4° | 120.2° |
C4 | C5 | H1 | 121.2° | 120.5° |
C4 | N4 | H17 | 120.0° | 120.0° |
C4 | N4 | H18 | 120.0° | 120.0° |
H3 | N | H4 | 109.5° | 111.0° |
H7 | CB | H8 | 109.5° | 109.4° |
H14 | C5' | H15 | 109.5° | 109.5° |
H17 | N4 | H18 | 120.0° | 120.0° |
Dihedrals
First atom | Second atom | Third atom | Fourth atom | Torsion (experimental model) | Torsion (ideal model) |
OD1 | CG | OD2 | CB | 178.8° | 180.0° |
OD1 | CG | CB | CA | 136.9° | 0.0° |
OD1 | CG | CB | H7 | 102.9° | 120.0° |
OD1 | CG | CB | H8 | 16.8° | 120.0° |
OD1 | CG | OD2 | H9 | 0.0° | 0.0° |
OD2 | CG | CB | CA | 44.1° | 180.0° |
OD2 | CG | CB | H7 | 76.0° | 59.9° |
OD2 | CG | CB | H8 | 164.3° | 60.0° |
CG | CB | CA | H7 | 120.1° | 120.1° |
CG | CB | CA | H8 | 120.1° | 120.0° |
CG | CB | CA | N | 81.4° | 65.0° |
CG | CB | CA | C | 161.8° | 175.0° |
CG | CB | CA | H6 | 42.6° | 54.9° |
CG | CB | H7 | H8 | 119.6° | 120.0° |
CB | CG | OD2 | H9 | 178.8° | 180.0° |
CB | CA | N | C | 119.6° | 120.0° |
CB | CA | N | H6 | 123.5° | 120.0° |
CB | CA | C | H6 | 119.1° | 120.0° |
CB | CA | C | N3S | 76.4° | 80.0° |
CB | CA | C | O | 102.6° | 99.9° |
CB | CA | N | H3 | 180.0° | 176.0° |
CB | CA | N | H4 | 60.0° | 60.0° |
CA | CB | H7 | H8 | 119.6° | 120.0° |
O3' | C3' | C2' | O2' | 30.9° | 20.3° |
O3' | C3' | C4' | C5' | 84.0° | 119.8° |
O3' | C3' | C4' | C2' | 119.1° | 118.7° |
O3' | C3' | C4' | H12 | 123.9° | 122.6° |
O3' | C3' | C4' | O4' | 156.5° | 120.6° |
O3' | C3' | C2' | H12 | 124.7° | 122.6° |
O3' | C3' | C2' | C1' | 148.0° | 97.9° |
O3' | C3' | C2' | H11 | 94.7° | 144.0° |
O3' | C3' | C4' | H13 | 39.4° | 1.2° |
O2' | C2' | C3' | C4' | 87.4° | 139.1° |
O2' | C2' | C3' | C1' | 117.1° | 118.2° |
O2' | C2' | C3' | H11 | 125.6° | 123.6° |
O2' | C2' | C1' | O4' | 107.5° | 155.2° |
O2' | C2' | C1' | H11 | 122.9° | 123.6° |
O2' | C2' | C1' | N1 | 131.9° | 86.2° |
O2' | C2' | C1' | H10 | 11.0° | 36.6° |
O2' | C2' | C3' | H12 | 155.5° | 102.2° |
C5' | C4' | C3' | O4' | 119.6° | 119.6° |
C5' | C4' | C3' | H13 | 123.4° | 121.0° |
C5' | C4' | O4' | H13 | 119.2° | 121.0° |
C4' | C5' | O5' | H14 | 119.5° | 120.0° |
C4' | C5' | O5' | H15 | 119.5° | 120.0° |
C5' | C4' | C3' | C2' | 157.0° | 121.5° |
C5' | C4' | O4' | C1' | 155.6° | 145.8° |
C4' | C5' | O5' | S | 132.6° | 180.0° |
C5' | C4' | C3' | H12 | 40.0° | 2.8° |
C4' | C5' | H14 | H15 | 121.4° | 119.9° |
C3' | C4' | O4' | H13 | 116.3° | 119.4° |
C3' | C4' | C5' | O5' | 70.4° | 175.0° |
C4' | C3' | C2' | H12 | 117.1° | 118.7° |
C3' | C4' | O4' | C1' | 31.1° | 26.3° |
C4' | C3' | C2' | C1' | 29.8° | 20.9° |
C4' | C3' | C2' | H11 | 147.1° | 97.3° |
C3' | C4' | C5' | H14 | 170.1° | 55.0° |
C3' | C4' | C5' | H15 | 49.2° | 65.0° |
C4' | C3' | O3' | H20 | 180.0° | 176.3° |
O4' | C4' | C5' | O5' | 46.5° | 67.0° |
O4' | C4' | C3' | C2' | 37.4° | 1.9° |
C4' | O4' | C1' | C2' | 11.6° | 39.8° |
C4' | O4' | C1' | N1 | 134.9° | 158.4° |
C4' | O4' | C1' | H10 | 105.8° | 78.7° |
O4' | C4' | C3' | H12 | 79.6° | 116.8° |
O4' | C4' | C5' | H14 | 73.0° | 172.9° |
O4' | C4' | C5' | H15 | 166.1° | 53.0° |
C5' | O5' | S | N3S | 60.9° | 75.0° |
C5' | O5' | S | O2S | 53.2° | 171.4° |
C5' | O5' | S | O1S | 178.1° | 38.5° |
O5' | C5' | C4' | H13 | 166.4° | 54.0° |
O5' | C5' | H14 | H15 | 121.4° | 120.0° |
N | CA | C | H6 | 117.4° | 120.0° |
N | CA | C | N3S | 160.1° | 160.0° |
N | CA | C | O | 20.9° | 20.0° |
CA | N | H3 | H4 | 120.0° | 124.0° |
N | CA | CB | H7 | 158.5° | 55.0° |
N | CA | CB | H8 | 38.8° | 175.0° |
CA | C | N3S | O | 179.1° | 179.9° |
CA | C | N3S | S | 170.2° | 180.0° |
C | CA | N | H3 | 60.4° | 64.0° |
C | CA | N | H4 | 59.6° | 60.0° |
C | CA | CB | H7 | 41.7° | 64.9° |
C | CA | CB | H8 | 78.1° | 55.0° |
CA | C | N3S | H16 | 9.8° | 0.1° |
C3' | C2' | C1' | O4' | 12.3° | 36.9° |
C3' | C2' | C1' | H11 | 117.3° | 118.1° |
C3' | C2' | C1' | N1 | 108.3° | 155.5° |
C3' | C2' | C1' | H10 | 130.8° | 81.6° |
C2' | C3' | C4' | H13 | 79.7° | 117.5° |
C3' | C2' | O2' | H19 | 180.0° | 67.2° |
C2' | C3' | O3' | H20 | 66.8° | 61.5° |
O4' | C1' | C2' | N1 | 120.6° | 118.6° |
O4' | C1' | C2' | H10 | 118.5° | 118.5° |
O4' | C1' | N1 | H10 | 119.7° | 122.9° |
O4' | C1' | N1 | C2 | 139.5° | 51.4° |
O4' | C1' | N1 | C6 | 44.6° | 128.6° |
O4' | C1' | C2' | H11 | 129.6° | 81.2° |
C1' | O4' | C4' | H13 | 85.2° | 93.2° |
C2' | C1' | N1 | H10 | 120.4° | 122.8° |
C2' | C1' | N1 | C2 | 100.6° | 62.9° |
C2' | C1' | N1 | C6 | 75.2° | 117.1° |
C1' | C2' | C3' | H12 | 87.4° | 139.5° |
C1' | C2' | O2' | H19 | 66.5° | 180.0° |
C | N3S | S | H16 | 180.0° | 179.9° |
C | N3S | S | O5' | 49.4° | 65.0° |
C | N3S | S | O2S | 162.1° | 48.6° |
C | N3S | S | O1S | 62.5° | 178.5° |
N3S | C | CA | H6 | 42.7° | 40.1° |
O | C | N3S | S | 8.8° | 0.1° |
O | C | CA | H6 | 138.3° | 140.0° |
O | C | N3S | H16 | 171.1° | 180.0° |
C1' | N1 | C2 | O2 | 6.0° | 0.2° |
C1' | N1 | C2 | C6 | 175.9° | 180.0° |
C1' | N1 | C2 | N3 | 174.4° | 180.0° |
C1' | N1 | C6 | C5 | 174.5° | 179.9° |
C1' | N1 | C6 | H2 | 5.6° | 0.0° |
N1 | C1' | C2' | H11 | 9.1° | 37.4° |
N3S | S | O5' | O2S | 114.1° | 113.6° |
N3S | S | O5' | O1S | 117.2° | 113.5° |
N3S | S | O2S | O1S | 130.2° | 122.9° |
O5' | S | O2S | O1S | 117.5° | 122.9° |
S | O5' | C5' | H14 | 107.8° | 60.0° |
S | O5' | C5' | H15 | 13.1° | 60.0° |
O5' | S | N3S | H16 | 130.6° | 114.9° |
O2S | S | N3S | H16 | 17.9° | 131.5° |
O2 | C2 | N1 | N3 | 179.7° | 179.8° |
O2 | C2 | N1 | C6 | 178.1° | 179.8° |
O2 | C2 | N3 | C4 | 179.0° | 179.7° |
O1S | S | N3S | H16 | 117.5° | 1.4° |
C2 | N1 | C6 | C5 | 1.3° | 0.1° |
N1 | C2 | N3 | C4 | 0.7° | 0.1° |
C2 | N1 | C6 | H2 | 178.7° | 180.0° |
C2 | N1 | C1' | H10 | 19.8° | 174.3° |
C6 | N1 | C2 | N3 | 1.5° | 0.0° |
N1 | C6 | C5 | H2 | 180.0° | 179.9° |
N1 | C6 | C5 | C4 | 0.3° | 0.1° |
N1 | C6 | C5 | H1 | 179.7° | 180.0° |
C6 | N1 | C1' | H10 | 164.3° | 5.7° |
C2 | N3 | C4 | C5 | 0.4° | 0.1° |
C2 | N3 | C4 | N4 | 179.3° | 180.0° |
C6 | C5 | C4 | N3 | 0.6° | 0.0° |
C6 | C5 | C4 | H1 | 180.0° | 179.9° |
C6 | C5 | C4 | N4 | 179.1° | 179.9° |
N3 | C4 | C5 | N4 | 179.7° | 179.9° |
N3 | C4 | C5 | H1 | 179.4° | 179.9° |
N3 | C4 | N4 | H17 | 0.0° | 179.9° |
N3 | C4 | N4 | H18 | 180.0° | 0.1° |
C4 | C5 | C6 | H2 | 179.7° | 180.0° |
C5 | C4 | N4 | H17 | 179.7° | 0.0° |
C5 | C4 | N4 | H18 | 0.3° | 180.0° |
N4 | C4 | C5 | H1 | 0.9° | 0.0° |
C4 | N4 | H17 | H18 | 180.0° | 180.0° |
H1 | C5 | C6 | H2 | 0.3° | 0.1° |
H3 | N | CA | H6 | 56.5° | 56.0° |
H4 | N | CA | H6 | 176.5° | 180.0° |
H6 | CA | CB | H7 | 77.5° | 175.0° |
H6 | CA | CB | H8 | 162.7° | 65.0° |
H10 | C1' | C2' | H11 | 111.8° | 160.2° |
H11 | C2' | C3' | H12 | 30.0° | 21.4° |
H11 | C2' | O2' | H19 | 55.3° | 56.4° |
H12 | C3' | C4' | H13 | 163.3° | 123.8° |
H12 | C3' | O3' | H20 | 56.9° | 61.1° |
H13 | C4' | C5' | H14 | 46.8° | 66.0° |
H13 | C4' | C5' | H15 | 74.1° | 174.0° |