PDB Chemical Component 3JY

The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.

Bond Distances for 3JY

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O18 P16 1.492 1.480
O19 P16 1.559 1.610
P16 O17 1.548 1.610
P16 C12 1.842 1.823
C20 C10 1.502 1.549
C20 C7 1.505 1.549
O11 C10 1.344 1.429
O11 C12 1.387 1.429
C10 C9 1.499 1.542
C12 C13 1.480 1.507
C7 N6 1.485 1.465
C7 C8 1.531 1.543
O14 C13 1.205 1.208
O23 C22 1.182 1.216
C13 O15 1.204 1.342
N6 C22 1.339 1.345
N6 C5 1.351 1.368
C22 N21 1.340 1.346
C9 C8 1.497 1.539
C5 C3 1.396 1.350
N21 C2 1.355 1.348
C3 C2 1.390 1.415
C3 C4 1.499 1.508
C2 O1 1.348 1.218
N21 H1 1.000 0.970
C7 H2 1.100 1.090
C20 H3 1.100 1.091
C20 H4 1.100 1.090
C10 H5 1.100 1.090
C12 H6 1.100 1.091
C9 H7 1.100 1.090
C9 H8 1.100 1.089
C8 H9 1.100 1.090
C8 H10 1.100 1.090
C5 H11 1.080 1.080
C4 H12 1.100 1.090
C4 H13 1.100 1.090
C4 H14 1.100 1.089
O19 H15 0.950 0.967
O17 H16 0.950 0.967
O15 C1   1.452
C1 H17   1.090
C1 H18   1.090
C1 H19   1.091

Bond Angles for 3JY

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O18 P16 O19 109.3 109.5
O18 P16 O17 111.7 109.5
O19 P16 O17 110.1 109.5
P16 O19 H15 109.5 114.0
P16 O17 H16 109.5 114.0
P16 C12 H6 106.1 109.4
C20 C10 C9 105.6 104.2
C10 C20 H3 109.9 110.8
C10 C20 H4 109.9 110.7
C20 C10 H5 107.9 110.5
C20 C7 C8 106.6 104.2
C20 C7 H2 108.3 110.6
O11 C10 H5 110.0 110.5
O11 C12 H6 111.7 109.5
C10 C9 C8 106.5 106.6
C9 C10 H5 107.9 110.5
C10 C9 H7 110.2 110.0
C10 C9 H8 110.2 110.0
C12 C13 O15 119.0 120.0
C13 C12 H6 110.3 109.4
C7 N6 C5 119.8 119.7
C7 C8 C9 105.9 106.6
C8 C7 H2 108.0 110.5
C7 C8 H9 110.3 110.1
C7 C8 H10 110.3 110.0
O14 C13 O15 117.4 120.0
C13 O15 C1   117.0
C22 N6 C5 120.6 120.6
N6 C5 C3 120.0 119.7
N6 C5 H11 120.0 120.2
C22 N21 H1 119.4 119.9
C8 C9 H7 110.2 110.0
C8 C9 H8 110.2 110.0
C9 C8 H9 110.4 110.0
C9 C8 H10 110.4 110.0
C5 C3 C4 122.0 120.4
C3 C5 H11 120.0 120.2
N21 C2 O1 121.1 120.3
C2 N21 H1 119.4 119.9
C3 C2 O1 119.5 120.3
C3 C4 H12 109.5 109.4
C3 C4 H13 109.5 109.5
C3 C4 H14 109.4 109.5
H3 C20 H4 109.5 110.8
H7 C9 H8 109.5 110.1
H9 C8 H10 109.5 110.0
H12 C4 H13 109.4 109.4
H12 C4 H14 109.5 109.6
H13 C4 H14 109.5 109.5
O15 C1 H17   109.4
O15 C1 H18   109.5
O15 C1 H19   109.4
H17 C1 H18   109.6
H17 C1 H19   109.4
H18 C1 H19   109.5

Torsion Angles for 3JY

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O19 P16 O18 O17 122.0 120.0
O18 P16 O19 H15 0.0 49.8
O18 P16 O17 H16 0.0 300.0
O18 P16 C12 H6 236.8 163.3
O18 P16 O19 O17 237.0 240.0
O19 P16 O17 H16 238.4 180.0
O19 P16 C12 H6 356.3 283.3
O18 P16 O17 O19 121.6 120.0
O17 P16 O19 H15 123.0 169.9
O17 P16 C12 H6 116.1 43.3
O11 C12 P16 H6 115.9 120.0
C13 C12 P16 H6 242.2 240.0
C10 C20 C7 C8 5.8 38.0
C10 C20 C7 H2 249.8 279.2
O11 C10 C20 H5 123.3 122.6
C20 C10 C9 C8 28.8 23.6
C9 C10 C20 H5 244.8 241.3
C20 C10 C9 H7 148.3 142.9
C20 C10 C9 H8 269.3 264.4
H3 C20 C10 H4 239.4 123.3
C20 C7 N6 C5 308.4 124.4
C20 C7 C8 C9 11.9 336.4
C8 C7 C20 H2 116.0 118.7
C20 C7 C8 H9 131.3 95.7
C20 C7 C8 H10 252.4 217.1
O11 C10 C20 H3 337.0 85.0
O11 C10 C20 H4 97.6 321.7
C20 C10 O11 H5 237.8 237.4
C9 C10 O11 H5 118.7 122.6
O11 C10 C9 H7 273.2 261.6
O11 C10 C9 H8 34.1 23.1
P16 C12 O11 H6 248.4 240.0
C12 O11 C10 H5 168.8 20.3
O11 C12 C13 O15 234.7 155.0
C13 C12 O11 H6 132.1 120.0
C9 C10 C20 H3 98.5 203.7
C9 C10 C20 H4 219.1 80.4
C20 C10 C9 H5 115.1 118.7
O11 C10 C9 H5 240.0 237.4
C7 C8 C9 C10 334.9 0.0
C8 C9 C10 H7 240.4 240.7
C8 C9 C10 H8 119.5 119.2
C10 C9 C8 H9 215.5 240.7
C10 C9 C8 H10 94.3 119.3
H7 C9 C10 H8 239.1 238.5
P16 C12 C13 H6 115.0 120.0
O11 C12 C13 H6 227.3 240.0
O14 C13 C12 O15 181.6 180.0
C12 C13 O15 C1   180.0
C22 N6 C7 C5 178.5 179.3
C7 N6 C5 C3 179.1 180.2
C7 N6 C5 H11 359.2 359.4
C20 C7 C8 H2 243.8 241.2
C10 C9 C8 C7 334.9 0.0
C8 C7 N6 C5 68.8 239.1
C7 C8 C9 H7 215.3 240.7
C7 C8 C9 H8 94.4 119.3
C9 C8 C7 H9 240.6 240.7
C9 C8 C7 H10 119.5 119.3
H9 C8 C7 H10 238.9 238.6
C12 C13 O14 O15 178.4 180.0
O14 C13 C12 H6 189.1 95.0
O14 C13 O15 C1   0.0
O23 C22 N21 H1 359.9 0.3
O15 C13 C12 H6 7.5 275.0
C13 O15 C1 H17   299.9
C13 O15 C1 H18   60.0
C13 O15 C1 H19   180.0
C7 N6 C22 C5 181.5 180.7
C22 N6 C5 C3 0.6 0.9
C22 N6 C5 H11 180.6 180.1
N6 C22 N21 H1 180.1 180.4
N6 C5 C3 C4 179.6 180.0
C3 C5 N6 H11 180.0 180.8
C22 N21 C2 O1 180.0 180.2
C2 N21 C22 H1 180.0 179.7
C8 C9 C10 H5 273.6 264.9
C10 C9 C8 H7 119.5 119.3
C10 C9 C8 H8 240.5 240.8
C9 C8 C7 H2 128.1 95.2
C7 C8 C9 H9 119.4 119.3
C7 C8 C9 H10 240.6 240.8
H7 C9 C8 H8 120.9 121.5
H9 C8 C9 H10 121.2 121.4
N6 C5 C3 H11 180.0 179.2
C5 C3 C2 O1 180.2 180.0
C5 C3 C4 H12 180.0 90.1
C5 C3 C4 H13 300.0 210.0
C5 C3 C4 H14 60.0 330.0
C22 N21 C2 H1 180.0 180.3
C3 C2 N21 O1 179.9 180.0
N6 C5 C3 C2 359.4 359.4
N21 C2 C3 O1 180.1 180.0
C3 C2 N21 H1 179.9 180.0
C4 C3 C5 H11 359.6 0.8
C4 C3 C2 O1 0.0 359.5
H12 C4 C3 H13 240.0 240.1
H12 C4 C3 H14 120.0 120.1
H13 C4 C3 H14 240.0 240.0
O1 C2 N21 H1 0.0 359.9
H1 N21 C2 O1 0.0 359.9
C20 C7 H2 C8 115.1 114.8
H2 C7 N6 C5 190.4 1.7
H2 C7 C8 C9 128.1 95.2
H2 C7 C8 H9 247.6 214.5
H2 C7 C8 H10 8.7 335.9
H3 C20 C10 C9 98.5 203.7
C10 C20 H3 H4 120.9 236.7
H3 C20 C10 H5 213.7 322.4
H3 C20 C7 C8 246.1 156.3
H3 C20 C7 H2 130.0 37.6
H4 C20 C10 C9 219.1 80.4
C10 C20 H4 H3 239.1 123.3
H4 C20 C10 H5 334.3 199.1
H4 C20 C7 C8 125.5 279.7
H4 C20 C7 H2 9.5 160.9
C20 C10 H5 C9 246.4 245.2
H5 C10 C20 H3 213.7 322.4
H5 C10 C20 H4 334.3 199.1
H5 C10 C9 C8 273.6 264.9
H5 C10 C9 H7 33.2 24.2
H5 C10 C9 H8 154.1 145.7
H6 C12 C13 O15 7.5 275.0
C10 C9 H7 C8 242.8 242.9
H7 C9 C10 H5 33.2 24.2
C10 C9 H7 H8 121.4 121.5
C8 C9 H7 H8 238.6 238.6
H7 C9 C8 H9 95.9 121.4
H7 C9 C8 H10 334.8 360.0
C10 C9 H8 C8 117.2 117.1
H8 C9 C10 H5 154.1 145.7
C10 C9 H8 H7 238.6 238.5
C8 C9 H8 H7 121.4 121.4
H8 C9 C8 H9 335.0 359.9
H8 C9 C8 H10 213.8 238.5
C7 C8 H9 C9 243.3 242.8
H9 C8 C7 H2 247.6 214.5
C7 C8 H9 H10 121.6 121.4
H9 C8 C9 H7 95.9 121.4
H9 C8 C9 H8 335.0 359.9
C9 C8 H9 H10 238.3 238.6
C7 C8 H10 C9 116.7 117.2
H10 C8 C7 H2 8.7 335.9
C7 C8 H10 H9 238.4 238.6
H10 C8 C9 H7 334.8 360.0
H10 C8 C9 H8 213.8 238.5
C9 C8 H10 H9 121.7 121.4
N6 C5 H11 C3 180.0 180.9
H11 C5 C3 C4 359.6 0.8
C3 C4 H12 H13 120.0 119.9
C3 C4 H12 H14 240.0 239.9
H13 C4 H12 H14 120.0 120.0
C3 C4 H13 H12 239.9 240.1
C3 C4 H13 H14 120.0 120.0
H12 C4 H13 H14 240.0 239.9
C3 C4 H14 H12 120.0 120.0
C3 C4 H14 H13 240.0 240.0
H12 C4 H14 H13 120.0 120.0
H15 O19 P16 O17 123.0 169.9
H17 C1 O15 H18   239.9
H17 C1 O15 H19   119.9
H18 C1 O15 H19   240.0
O15 C1 H17 H18   120.0
O15 C1 H17 H19   240.1
H18 C1 H17 H19   120.1
O15 C1 H18 H17   240.0
O15 C1 H18 H19   119.9
H17 C1 H18 H19   240.0
O15 C1 H19 H17   119.9
O15 C1 H19 H18   240.0
H17 C1 H19 H18   120.1