PDB Chemical Component EDK

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 EDK

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C2 C1 1.504 1.530
C2 O 1.433 1.428
C24 C23 1.383 1.380
C24 C3 1.382 1.387
C1 N 1.462 1.465
C23 C6 1.380 1.382
O C3 1.367 1.360
C3 C4 1.380 1.387
C6 C7 1.511 1.507
C6 C5 1.383 1.383
C4 C5 1.383 1.382
C7 C8 1.534 1.529
N C 1.457 1.465
N C25 1.431 1.390
N2 C25 1.340 1.324
N2 C26 1.342 1.320
O2 C22 1.308 1.208
C25 C29 1.392 1.392
C26 C27 1.384 1.380
C8 C22 1.515 1.506
C8 N1 1.452 1.466
C22 O3 1.209 1.342
N1 C9 1.386 1.388
C29 C28 1.385 1.383
C27 C28 1.376 1.389
O1 C15 1.226 1.216
C9 C14 1.393 1.389
C9 C10 1.410 1.405
C14 C13 1.383 1.381
C15 C10 1.500 1.473
C15 C16 1.488 1.478
C10 C11 1.398 1.398
C21 C16 1.392 1.397
C21 C20 1.384 1.380
C13 C12 1.375 1.386
C16 C17 1.392 1.396
C20 C19 1.380 1.384
C11 C12 1.383 1.378
C17 C18 1.383 1.379
C19 C18 1.378 1.384
O3 H1 0.950 0.967
C4 H2 1.080 1.080
C5 H3 1.080 1.080
N1 H4 1.000 0.970
C7 H5 1.100 1.090
C7 H6 1.100 1.090
C8 H7 1.100 1.090
C11 H8 1.080 1.081
C12 H9 1.080 1.079
C13 H10 1.080 1.080
C14 H11 1.080 1.079
C21 H12 1.080 1.080
C20 H13 1.080 1.080
C19 H14 1.080 1.081
C18 H15 1.080 1.080
C17 H16 1.080 1.080
C23 H17 1.080 1.081
C24 H18 1.080 1.081
C2 H19 1.100 1.090
C2 H20 1.101 1.090
C1 H21 1.100 1.090
C1 H22 1.100 1.090
C H23 1.100 1.090
C H24 1.100 1.090
C H25 1.100 1.091
C29 H26 1.080 1.080
C28 H27 1.080 1.080
C27 H28 1.080 1.080
C26 H29 1.081 1.079

Bond Angles for EDK

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 C1 N 110.6 109.4
C1 C2 H19 110.4 109.5
C1 C2 H20 110.4 109.5
C2 C1 H21 109.2 109.5
C2 C1 H22 109.2 109.5
C24 C23 H17 119.6 120.0
C3 C24 H18 120.1 120.0
C1 N C 120.3 120.0
C1 N C25 121.5 120.1
N C1 H21 109.2 109.5
N C1 H22 109.1 109.5
C3 C4 H2 120.2 120.0
C6 C7 C8 112.1 109.5
C6 C7 H5 108.8 109.4
C6 C7 H6 108.8 109.5
C6 C5 H3 119.6 120.0
C5 C4 H2 120.1 120.0
C4 C5 H3 119.6 120.0
C7 C8 C22 108.5 109.5
C8 C7 H5 108.8 109.5
C8 C7 H6 108.8 109.4
C7 C8 H7 107.3 109.5
C N C25 117.9 119.9
N C H23 109.5 109.6
N C H24 109.4 109.5
N C H25 109.5 109.5
N2 C25 N 119.0 119.7
N C25 C29 117.3 119.7
C25 N2 C26 117.0 121.6
N2 C25 C29 123.7 120.6
N2 C26 C27 123.6 120.8
N2 C26 H29 118.2 119.6
C25 C29 C28 117.6 119.1
C25 C29 H26 121.2 120.5
C26 C27 H28 120.9 120.4
C22 C8 H7 107.6 109.5
C8 N1 C9 123.9 120.0
C8 N1 H4 105.7 119.9
C22 O3 H1 109.5 117.0
N1 C9 C14 121.9 120.2
N1 C9 C10 117.9 120.2
C9 N1 H4 105.8 120.1
C28 C29 H26 121.2 120.4
C29 C28 H27 120.0 120.7
C27 C28 H27 120.0 120.8
C10 C9 C14 119.7 119.6
C9 C14 C13 120.3 120.0
C9 C14 H11 119.8 120.0
C9 C10 C11 118.7 119.6
C14 C13 H10 119.8 119.7
C15 C16 C17 121.8 120.2
C10 C11 C12 120.6 119.9
C10 C11 H8 119.7 120.1
C21 C16 C17 118.5 119.7
C21 C20 C19 120.2 120.1
C20 C21 H12 119.7 120.1
C21 C20 H13 119.9 120.0
C13 C12 H9 119.8 119.8
C16 C17 C18 120.6 119.9
C16 C17 H16 119.7 120.1
C20 C19 C18 119.9 120.3
C19 C20 H13 119.9 119.9
C20 C19 H14 120.1 119.8
C12 C11 H8 119.7 120.0
C11 C12 H9 119.8 119.9
C17 C18 H15 119.9 120.0
C18 C19 H14 120.0 119.9
C19 C18 H15 119.9 119.9
H5 C7 H6 109.5 109.5
H19 C2 H20 109.5 109.5
H21 C1 H22 109.5 109.4
H23 C H24 109.5 109.5
H23 C H25 109.4 109.4
H24 C H25 109.5 109.5

Torsion Angles for EDK

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C2 C1 N C 91.9 90.1
C2 C1 N C25 277.2 270.0
N C1 C2 H21 239.8 240.0
N C1 C2 H22 120.1 120.0
H19 C2 C1 H20 238.8 120.0
H21 C1 C2 H22 240.3 240.0
C3 C24 C23 H17 179.6 179.7
C24 C3 C4 H2 178.4 179.8
N C1 C2 H19 50.6 304.9
N C1 C2 H20 171.8 185.0
C2 C1 N H21 120.2 120.0
C2 C1 N H22 239.8 240.0
C N C1 C25 174.7 180.1
C1 N C H23 180.0 89.9
C1 N C H24 300.0 210.0
C1 N C H25 60.0 330.0
N2 C25 N C1 349.5 185.1
C1 N C25 C29 171.7 5.0
H21 C1 N H22 119.6 120.0
C23 C6 C7 H5 39.3 30.0
C23 C6 C7 H6 158.5 150.0
C23 C6 C5 H3 181.5 180.1
O C3 C24 H18 8.9 359.7
O C3 C4 H2 351.6 0.3
C5 C4 C3 H2 180.0 179.7
C3 C4 C5 H3 179.9 180.2
C7 C6 C5 H3 4.2 0.1
C6 C7 C8 C22 179.9 175.0
C8 C7 C6 H5 239.6 240.0
C8 C7 C6 H6 120.4 120.0
C6 C7 C8 H7 63.9 54.9
H5 C7 C6 H6 240.8 240.0
C6 C5 C4 H2 179.9 179.9
C4 C5 C6 H3 180.0 179.9
C3 C4 C5 H2 180.0 180.3
C6 C5 C4 H3 180.0 180.1
C6 C7 C8 H5 120.4 120.0
C6 C7 C8 H6 239.6 240.0
C22 C8 C7 H7 116.0 120.1
C7 C8 N1 C9 171.1 155.0
C7 C8 N1 H4 293.1 335.0
H5 C7 C8 H6 119.2 120.0
C1 N C C25 185.1 179.9
C N C1 H21 331.7 330.0
C N C1 H22 212.1 210.0
N2 C25 N C 174.8 5.0
C N C25 C29 356.9 185.0
H23 C N H24 240.0 240.0
H23 C N H25 120.0 120.0
H24 C N H25 240.0 240.0
C1 N C25 C 174.8 180.1
C25 N C1 H21 157.0 150.0
C25 N C1 H22 37.4 30.0
C25 N C H23 354.8 270.0
C25 N C H24 114.9 30.0
C25 N C H25 234.9 150.0
N C25 N2 C26 182.8 180.0
N2 C25 N C29 177.9 180.0
N C25 C29 C28 177.0 180.0
N C25 C29 H26 357.0 0.0
C1 N C25 N2 349.5 185.1
C N C25 N2 174.8 5.0
N C25 N2 C29 182.3 180.0
C25 N2 C26 C27 360.0 0.0
C25 N2 C26 H29 180.0 180.0
N2 C25 C29 C28 359.2 359.9
N2 C25 C29 H26 179.2 180.0
C26 N2 C25 N 182.8 180.0
C26 N2 C25 C29 0.5 0.0
N2 C26 C27 H28 179.7 180.0
O2 C22 C8 H7 29.0 240.0
O2 C22 O3 H1 360.0 359.9
N2 C25 C29 N 182.2 180.0
C29 C25 N2 C26 0.5 0.0
C28 C29 C25 H26 180.0 179.9
C25 C29 C28 H27 180.4 180.0
N2 C26 C27 H29 180.0 179.9
C26 C27 C28 H27 180.0 180.0
C22 C8 C7 H5 59.5 55.0
C22 C8 C7 H6 300.2 295.0
C7 C8 C22 H7 244.2 240.0
C22 C8 N1 C9 293.9 275.0
C22 C8 N1 H4 55.8 95.1
C8 C22 O3 H1 181.6 179.9
C6 C7 C8 N1 304.8 295.0
C8 N1 C9 C14 8.5 5.3
C8 N1 C9 C10 196.8 185.6
C9 N1 C8 H4 238.0 180.0
C8 N1 C9 H4 122.0 180.0
C10 C9 N1 C14 188.3 180.3
N1 C9 C14 C13 188.8 179.7
N1 C9 C14 H11 8.8 0.0
N1 C9 C10 C11 170.7 180.0
C25 C29 C28 H26 180.0 180.1
C27 C28 C29 H27 180.0 180.0
N2 C26 C27 C28 359.7 359.9
C27 C28 C29 H26 180.4 180.0
C29 C28 C27 H27 180.0 180.0
N1 C9 C14 C10 188.5 180.3
C14 C9 N1 H4 246.5 185.3
C14 C9 C10 C11 358.8 0.3
C9 C14 C13 H10 180.6 180.3
N1 C9 C10 C14 171.9 179.7
C10 C9 N1 H4 74.9 5.6
C10 C9 C14 C13 0.3 359.4
C10 C9 C14 H11 180.3 179.7
C9 C10 C11 C12 1.1 360.0
C9 C10 C11 H8 181.1 179.9
C9 C14 C13 H11 180.0 180.3
C14 C13 C12 H9 179.3 179.8
C15 C10 C11 H8 0.6 360.0
C21 C16 C15 C17 177.0 180.3
C15 C16 C17 C18 176.9 179.7
C15 C16 C17 H16 356.9 0.0
C11 C10 C9 C14 358.8 0.3
C12 C11 C10 H8 180.0 180.0
C10 C11 C12 H9 179.8 179.9
C15 C16 C21 C17 182.9 179.8
C21 C16 C17 C18 359.9 359.5
C21 C16 C17 H16 179.9 179.8
C20 C21 C16 C17 0.4 0.2
C21 C20 C19 C18 360.0 359.9
C19 C20 C21 H13 180.0 180.0
C21 C20 C19 H14 180.0 180.0
C9 C14 C13 C12 0.6 0.6
C13 C12 C11 H8 179.8 180.1
C11 C12 C13 H9 180.0 179.9
C16 C17 C18 H15 179.8 180.3
C19 C20 C21 H12 179.7 180.1
C21 C20 C19 H13 180.0 180.0
C18 C19 C20 H14 180.0 179.9
C20 C19 C18 H15 180.3 180.0
C10 C11 C12 H8 180.0 180.0
C13 C12 C11 H9 180.0 180.1
C16 C17 C18 H16 180.0 180.3
C17 C18 C19 H14 180.3 179.7
C19 C18 C17 H15 180.0 180.2
C16 C17 C18 C19 359.7 0.5
C18 C19 C20 H13 180.0 180.0
C20 C19 C18 H14 180.0 180.1
C17 C18 C19 H15 180.0 179.8
H2 C4 C5 H3 359.9 359.9
H3 C5 C4 H2 359.9 359.9
C8 N1 H4 C9 227.0 180.0
H4 N1 C9 C14 246.5 185.3
H4 N1 C9 C10 74.9 5.6
C6 C7 H5 C8 237.5 240.0
C6 C7 H5 H6 118.8 120.0
H5 C7 C8 C22 59.5 55.0
C8 C7 H5 H6 241.2 240.0
H5 C7 C8 H7 303.5 295.0
C6 C7 H6 C8 122.4 120.0
C6 C7 H6 H5 241.2 240.0
H6 C7 C8 C22 300.2 295.0
C8 C7 H6 H5 118.8 120.0
H6 C7 C8 H7 184.3 175.0
C7 C8 H7 C22 116.6 120.1
H7 C8 C7 H5 303.5 295.0
H7 C8 C7 H6 184.3 175.0
H7 C8 N1 C9 52.6 35.0
H7 C8 N1 H4 174.6 215.0
C10 C11 H8 C12 180.0 180.0
H8 C11 C12 H9 359.8 360.0
H9 C12 C11 H8 359.8 360.0
H10 C13 C12 H9 359.4 0.1
C9 C14 H11 C13 180.0 179.7
H11 C14 C13 H10 0.6 360.0
H12 C21 C16 C17 180.3 180.2
H12 C21 C20 C19 179.7 180.1
H12 C21 C20 H13 359.7 0.1
C21 C20 H13 C19 180.0 180.0
H13 C20 C21 H12 359.7 0.1
H13 C20 C19 C18 180.0 180.0
H13 C20 C19 H14 360.0 0.0
C20 C19 H14 C18 180.0 179.9
H14 C19 C20 H13 360.0 0.0
H14 C19 C18 H15 0.3 359.9
H15 C18 C19 H14 0.3 359.9
C16 C17 H16 C18 180.0 179.7
H16 C17 C18 H15 359.8 0.0
H18 C24 C23 H17 359.7 359.9
H19 C2 C1 N 50.6 304.9
C1 C2 H19 H20 121.7 240.0
H19 C2 C1 H21 170.8 65.0
H19 C2 C1 H22 290.5 185.0
H20 C2 C1 N 171.8 185.0
C1 C2 H20 H19 238.3 120.0
H20 C2 C1 H21 292.0 305.0
H20 C2 C1 H22 51.7 65.0
C2 C1 H21 N 238.9 240.0
H21 C1 C2 H19 170.8 65.0
H21 C1 C2 H20 292.0 305.0
C2 C1 H21 H22 119.5 120.0
H21 C1 N C 331.7 330.0
H21 C1 N C25 157.0 150.0
N C1 H21 H22 240.6 240.0
C2 C1 H22 N 121.1 120.0
H22 C1 C2 H19 290.5 185.0
H22 C1 C2 H20 51.7 65.0
C2 C1 H22 H21 240.5 240.0
H22 C1 N C 212.1 210.0
H22 C1 N C25 37.4 30.0
N C1 H22 H21 119.5 120.0
H23 C N C25 354.8 270.0
N C H23 H24 120.0 120.1
N C H23 H25 240.0 240.0
H24 C H23 H25 120.0 120.0
H24 C N C25 114.9 30.0
N C H24 H23 240.0 239.9
N C H24 H25 120.0 120.0
H23 C H24 H25 240.0 240.1
H25 C N C25 234.9 150.0
N C H25 H23 120.0 120.0
N C H25 H24 240.0 240.0
H23 C H25 H24 120.0 120.0
C25 C29 H26 C28 180.0 179.9
H26 C29 C28 H27 0.4 360.0
H27 C28 C29 H26 0.4 360.0
H28 C27 C28 H27 0.1 359.9
N2 C26 H29 C27 180.0 180.1
H29 C26 C27 H28 359.7 0.1