PDB Chemical Component J1D

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 J1D

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N9 C16 1.395 1.366
C16 N10 1.338 1.362
C16 N8 1.319 1.320
N10 C17 1.404 1.351
N8 C22 1.406 1.328
C17 O5 1.212 1.218
C17 C23 1.440 1.418
C22 N12 1.347 1.377
C22 C23 1.392 1.412
N12 C19 1.488 1.472
C23 N11 1.365 1.338
C21 C19 1.524 1.530
N11 C18 1.298 1.303
C19 C18 1.507 1.507
C19 C20 1.537 1.530
C18 C15 1.498 1.465
O6 C13 1.226 1.212
C15 N7 1.388 1.348
C15 O4 1.228 1.217
N7 C14 1.450 1.465
N3 C7 1.384 1.385
C13 C14 1.505 1.507
C13 N6 1.378 1.348
C7 N4 1.380 1.328
C7 C6 1.373 1.405
N4 C8 1.372 1.320
N2 C6 1.394 1.355
N2 C5 1.334 1.301
C11 C12 1.525 1.530
C11 S1 1.681 1.813
C6 C9 1.414 1.405
N6 C12 1.461 1.464
C8 N5 1.320 1.316
C5 N1 1.431 1.362
O7 S1 1.413 1.422
C10 S1 1.770 1.814
C10 C1 1.531 1.530
C9 N5 1.378 1.330
C9 N1 1.386 1.372
S1 O8 1.431 1.420
N1 C4 1.469 1.466
C2 C1 1.543 1.541
C2 O2 1.382 1.429
C2 C3 1.586 1.549
C1 O1 1.472 1.438
O1 C4 1.438 1.444
C4 C3 1.567 1.550
C3 O3 1.381 1.428
C1 H1 1.100 1.089
C2 H2 1.100 1.090
O2 H3 0.950 0.967
C3 H4 1.101 1.090
O3 H5 0.950 0.967
C4 H6 1.100 1.090
C5 H7 1.080 1.080
N3 H8 1.000 0.969
N3 H9 1.000 0.970
C8 H10 1.080 1.080
C10 H11 1.100 1.090
C10 H12 1.100 1.090
C11 H13 1.100 1.090
C11 H14 1.100 1.091
N6 H15 1.001 0.970
C12 H16 1.100 1.091
C12 H17 1.100 1.090
C14 H18 1.100 1.091
C14 H19 1.100 1.090
N7 H20 1.000 0.969
N9 H21 1.000 0.970
N9 H22 1.000 0.970
N10 H23 1.000 0.969
C20 H24 1.100 1.090
C20 H25 1.100 1.090
C20 H26 1.100 1.090
C21 H27 1.100 1.089
C21 H28 1.100 1.090
C21 H29 1.100 1.090
N12 H31 1.000 0.970

Bond Angles for J1D

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
N9 C16 N10 112.1 119.0
C16 N10 C17 123.5 120.5
C16 N10 H23 118.3 119.8
C16 N8 C22 114.4 121.0
N10 C17 O5 117.0 120.9
N10 C17 C23 112.6 118.3
C17 N10 H23 118.2 119.7
N8 C22 N12 116.7 121.6
N8 C22 C23 122.8 119.9
O5 C17 C23 130.3 120.9
C17 C23 C22 120.7 118.3
C17 C23 N11 116.1 121.5
C22 N12 H31 106.4 121.4
C19 C20 H24 109.5 109.4
C19 C20 H25 109.5 109.5
C19 C20 H26 109.5 109.5
C15 N7 H20 118.0 119.9
N7 C14 H18 109.5 109.4
N7 C14 H19 109.6 109.5
N3 C7 N4 121.3 120.7
C13 C14 H18 109.5 109.5
C13 C14 H19 109.5 109.5
C13 N6 H15 120.6 120.0
C7 N4 C8 118.4 121.2
C7 C6 C9 116.5 118.1
N4 C8 N5 127.4 122.4
N4 C8 H10 116.3 118.8
N2 C6 C9 111.8 107.1
N2 C5 H7 124.0 124.9
C11 C12 N6 107.7 109.5
C12 C11 H13 108.6 109.4
C12 C11 H14 108.6 109.4
C11 C12 H16 109.9 109.4
C11 C12 H17 109.9 109.5
C11 S1 O8 109.8 108.6
C6 C9 N5 125.8 119.1
C12 N6 H15 120.6 120.0
N6 C12 H16 109.9 109.5
N6 C12 H17 109.9 109.5
N5 C8 H10 116.3 118.7
O7 S1 O8 124.1 119.3
C10 S1 O8 103.1 108.6
S1 C10 H11 108.7 109.5
S1 C10 H12 108.8 109.5
C10 C1 H1 108.1 109.9
N1 C4 H6 111.6 110.7
C2 C1 H1 108.0 109.9
O2 C2 C3 112.3 110.5
O2 C2 H2 113.0 110.5
C2 O2 H3 109.5 114.0
C2 C3 O3 116.8 110.9
C3 C2 H2 110.0 110.6
C2 C3 H4 108.9 110.9
C1 O1 C4 111.3 107.0
O1 C1 H1 108.9 109.9
O1 C4 C3 105.6 103.5
O1 C4 H6 112.1 110.7
C4 C3 H4 109.2 111.0
O3 C3 H4 111.9 110.8
C3 O3 H5 109.5 114.0
H8 N3 H9 109.5 120.0
H11 C10 H12 109.5 109.5
H13 C11 H14 109.5 109.4
H16 C12 H17 109.5 109.4
H18 C14 H19 109.5 109.5
H21 N9 H22 120.0 120.0
H24 C20 H25 109.4 109.5
H24 C20 H26 109.5 109.5
H25 C20 H26 109.5 109.5
H27 C21 H28 109.4 109.5
H27 C21 H29 109.5 109.5
H28 C21 H29 109.5 109.4

Torsion Angles for J1D

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
N9 C16 N10 C17 178.9 180.4
N9 C16 N10 H23 358.9 0.5
N9 C16 N8 C22 179.7 179.7
N10 C16 N8 C22 1.3 359.7
C16 N10 C17 O5 180.8 180.2
C16 N10 C17 C23 2.0 0.2
C17 N10 C16 H23 180.0 180.0
C16 N8 C22 N12 178.3 179.3
C16 N8 C22 C23 0.3 359.5
C16 N10 C17 H23 180.0 180.0
O5 C17 N10 C23 178.8 180.0
N10 C17 C23 C22 359.5 359.0
N10 C17 C23 N11 178.8 179.8
C17 C23 C22 N8 359.3 1.1
N8 C22 N12 H31 301.2 331.9
N10 C17 O5 C23 181.4 180.0
O5 C17 N10 H23 0.8 0.2
O5 C17 C23 C22 180.9 179.0
O5 C17 C23 N11 0.1 359.8
N10 C17 C23 O5 178.6 180.0
C23 C17 N10 H23 182.0 180.2
N8 C22 C23 C17 359.3 1.1
N8 C22 N12 C23 182.0 180.2
C17 C23 C22 N12 181.4 181.4
N8 C22 C23 N12 177.9 179.8
C17 C23 C22 N11 179.2 180.8
C23 C22 N12 H31 119.2 151.7
N8 C22 N12 C19 179.5 151.9
N12 C19 C20 H24 180.0 290.6
N12 C19 C20 H25 300.0 50.7
N12 C19 C20 H26 60.0 170.6
N8 C22 C23 N11 180.2 180.4
C17 C23 N11 C22 180.8 179.2
C21 C19 C20 H24 63.2 170.2
C21 C19 C20 H25 183.2 290.3
C21 C19 C20 H26 303.1 50.3
C17 C23 N11 C18 182.6 191.9
H24 C20 C19 H25 240.0 239.9
H24 C20 C19 H26 120.1 119.9
H25 C20 C19 H26 240.0 240.0
C18 C15 N7 H20 359.6 0.0
O6 C13 C14 H18 272.7 120.0
O6 C13 C14 H19 152.6 240.0
O6 C13 N6 H15 180.7 180.0
C15 N7 C14 H18 178.0 60.0
C15 N7 C14 H19 298.1 300.0
O4 C15 N7 H20 178.9 180.0
C13 C14 N7 H18 240.1 120.0
C13 C14 N7 H19 119.9 240.0
H18 C14 N7 H19 239.9 120.0
N3 C7 N4 C8 182.1 180.0
N3 C7 C6 C9 178.6 180.3
N7 C14 C13 H18 120.0 240.1
N7 C14 C13 H19 240.0 120.0
C14 C13 N6 H15 359.4 360.0
H18 C14 C13 H19 120.1 239.9
C12 N6 C13 H15 180.0 180.0
C13 N6 C12 H16 327.1 60.0
C13 N6 C12 H17 206.5 300.0
N4 C7 C6 C9 358.4 0.3
C7 N4 C8 N5 357.5 0.1
C7 N4 C8 H10 177.5 180.0
N2 C6 C7 C9 180.2 179.7
C7 C6 C9 N5 1.1 359.4
N5 C8 N4 H10 180.0 180.0
C7 C6 N2 C9 179.8 180.3
C6 N2 C5 H7 181.4 180.1
N2 C6 C9 N5 180.9 179.6
C12 C11 S1 O8 25.1 294.5
C11 C12 N6 H15 266.8 0.0
N6 C12 C11 H16 240.3 240.0
N6 C12 C11 H17 119.7 120.1
H13 C11 C12 H14 241.1 119.9
H16 C12 C11 H17 239.5 240.1
O7 S1 C11 O8 137.5 131.1
C10 S1 C11 O8 249.9 245.5
C11 S1 C10 H11 293.4 60.0
C11 S1 C10 H12 52.6 300.0
C13 N6 C12 H15 180.0 180.0
N6 C12 C11 H13 198.5 60.0
N6 C12 C11 H14 317.5 300.0
C11 C12 N6 H16 119.7 120.0
C11 C12 N6 H17 240.3 240.0
H16 C12 N6 H17 120.5 120.0
N4 C8 N5 H10 180.0 180.0
C6 C9 N5 C8 358.9 0.7
C5 N1 C4 H6 243.3 146.6
C11 S1 O7 O8 230.1 235.0
C10 S1 O7 O8 118.7 125.0
O7 S1 C10 H11 46.8 174.5
O7 S1 C10 H12 166.0 54.5
C11 S1 C10 O8 114.9 114.5
O7 S1 C10 O8 228.3 229.0
S1 C10 C1 H1 295.0 305.5
H11 C10 S1 H12 240.9 120.0
C2 C1 C10 H1 241.0 238.9
O1 C1 C10 H1 121.6 121.1
C9 N5 C8 H10 181.8 179.6
C9 N1 C4 H6 66.8 326.2
O8 S1 C10 H11 178.6 305.5
O8 S1 C10 H12 297.7 185.5
O1 C4 N1 H6 238.0 237.0
N1 C4 C3 H4 327.6 37.3
C10 C1 C2 H1 119.1 121.1
C2 C1 O1 C4 14.2 26.6
O1 C1 C2 H1 244.0 240.5
O2 C2 C1 H1 323.7 358.8
O2 C2 C3 O3 38.2 339.6
C3 C2 O2 H2 125.2 122.7
O2 C2 C3 H4 270.3 216.0
C3 C2 C1 H1 82.3 117.4
O2 C2 C3 H2 233.2 237.4
C3 C2 O2 H3 68.5 65.2
O1 C4 C3 C2 327.8 37.1
C4 C3 C2 H4 245.5 241.7
O3 C3 C2 H4 127.9 123.6
C2 C3 O3 H5 180.0 298.5
C10 C1 O1 H1 238.8 239.0
C2 C1 O1 H1 115.4 119.4
C1 O1 C4 C3 12.1 319.9
C1 O1 C4 H6 132.2 78.4
N1 C4 O1 H6 121.7 123.0
C4 O1 C1 H1 258.8 267.1
O1 C4 C3 H4 213.4 278.8
C4 C3 C2 H2 282.6 220.4
C2 C3 C4 H4 114.4 118.2
O1 C4 C3 H6 121.3 118.6
O3 C3 C4 H4 237.5 236.4
C4 C3 O3 H5 67.3 185.9
O3 C3 C2 H2 165.0 102.2
C2 C3 O3 H4 233.6 236.4
O1 C4 C3 O3 90.9 155.2
C4 C3 O3 H4 120.8 123.7
H1 C1 O1 C4 258.8 267.1
H2 C2 C1 H1 198.9 236.2
O2 C2 H2 C3 126.4 122.6
H2 C2 O2 H3 303.4 302.6
H2 C2 C3 O3 165.0 102.2
H2 C2 C3 H4 37.1 338.6
H3 O2 C2 C3 68.5 65.2
H3 O2 C2 H2 303.4 302.6
C2 C3 H4 O3 130.6 123.6
H4 C3 C2 H2 37.1 338.6
H4 C3 O3 H5 306.4 62.2
H5 O3 C3 H4 306.4 62.2
O1 C4 H6 C3 242.6 245.9
H6 C4 C3 H4 92.1 160.3
H8 N3 C7 N4 360.0 360.0
H9 N3 C7 N4 120.0 179.9
N4 C8 H10 N5 180.0 180.0
H11 C10 S1 O8 178.6 305.5
S1 C10 H11 H12 118.7 240.0
H11 C10 C1 H1 174.6 65.4
H12 C10 S1 O8 297.7 185.5
S1 C10 H12 H11 241.3 120.0
H12 C10 C1 H1 55.5 185.4
H13 C11 C12 N6 198.5 60.0
C12 C11 H13 H14 118.3 240.1
H13 C11 C12 H16 318.3 179.9
H13 C11 C12 H17 78.8 299.9
H13 C11 S1 O8 264.6 54.5
H14 C11 C12 N6 317.5 300.0
C12 C11 H14 H13 241.7 119.9
H14 C11 C12 H16 77.2 60.0
H14 C11 C12 H17 197.7 180.0
H14 C11 S1 O8 145.7 174.5
H15 N6 C12 H16 147.0 240.1
H15 N6 C12 H17 26.5 120.0
C11 C12 H16 N6 241.6 240.0
H16 C12 C11 H13 318.3 179.9
H16 C12 C11 H14 77.2 60.0
C11 C12 H16 H17 120.8 120.0
H16 C12 N6 H15 147.0 240.1
N6 C12 H16 H17 239.2 239.9
C11 C12 H17 N6 118.4 120.0
H17 C12 C11 H13 78.8 299.9
H17 C12 C11 H14 197.7 180.0
C11 C12 H17 H16 239.2 240.1
H17 C12 N6 H15 26.5 120.0
N6 C12 H17 H16 120.8 120.0
N7 C14 H18 H19 120.2 240.0
C13 C14 H18 H19 239.9 120.1
N7 C14 H19 H18 239.8 120.0
C13 C14 H19 H18 120.1 240.0
H20 N7 C14 H18 358.0 240.0
H20 N7 C14 H19 118.1 120.0
H21 N9 C16 N10 178.5 0.0
H22 N9 C16 N10 358.6 180.0
C16 N10 H23 C17 180.0 180.0
H23 N10 C17 O5 0.8 0.2
H23 N10 C17 C23 182.0 180.2
C19 C20 H24 H25 120.0 120.0
C19 C20 H24 H26 240.0 240.1
H25 C20 H24 H26 120.0 120.0
C19 C20 H25 H24 240.0 240.0
C19 C20 H25 H26 120.0 120.0
H24 C20 H25 H26 240.0 240.0
C19 C20 H26 H24 120.1 119.9
C19 C20 H26 H25 240.0 240.0
H24 C20 H26 H25 119.9 120.1
H28 C21 H27 H29 120.0 120.0
H27 C21 H28 H29 240.0 240.0
H27 C21 H29 H28 120.0 120.0