PDB Chemical Component EMJ

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 EMJ

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O8 C5 1.264 1.215
C5 C6 1.414 1.466
C5 C4 1.438 1.486
O10 C4 1.382 1.352
C6 C7 1.423 1.350
C4 C3 1.440 1.350
C7 O11 1.396 1.353
C7 C2 1.433 1.486
C3 C2 1.470 1.466
C3 C12 1.572 1.508
C2 O9 1.271 1.215
C12 C13 1.539 1.530
C13 C14 1.537 1.529
C14 C15 1.539 1.529
C15 C16 1.525 1.530
C16 C17 1.528 1.530
C17 C18 1.531 1.530
C18 C19 1.534 1.530
C19 C20 1.522 1.530
C20 C21 1.531 1.530
C21 C22 1.516 1.530
C6 H1 1.080 1.080
O10 H2 0.950 0.967
O11 H3 0.950 0.967
C12 H4 1.100 1.089
C13 H5 1.100 1.090
C14 H6 1.100 1.090
C14 H7 1.100 1.090
C15 H8 1.100 1.091
C15 H9 1.100 1.090
C16 H10 1.100 1.090
C16 H11 1.100 1.090
C17 H12 1.100 1.090
C17 H13 1.100 1.090
C18 H14 1.100 1.090
C18 H15 1.100 1.090
C19 H16 1.100 1.090
C19 H17 1.100 1.089
C20 H18 1.100 1.090
C20 H19 1.100 1.090
C21 H20 1.100 1.089
C21 H21 1.100 1.090
C22 H22 1.100 1.090
C22 H23 1.100 1.089
C22 H24 1.100 1.090
C12 H25 1.100 1.090
C13 H26 1.100 1.090

Bond Angles for EMJ

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C5 C6 C7 120.1 120.0
C5 C6 H1 119.9 120.0
C6 C7 O11 120.2 120.0
C7 C6 H1 119.9 120.0
C4 C3 C12 117.0 120.0
C7 O11 H3 109.5 114.0
C7 C2 O9 115.5 120.0
C3 C2 O9 123.8 120.0
C3 C12 C13 116.0 109.5
C3 C12 H4 107.8 109.5
C3 C12 H25 107.8 109.4
C12 C13 C14 116.9 109.5
C13 C12 H4 107.8 109.5
C12 C13 H5 107.6 109.5
C13 C12 H25 107.8 109.5
C12 C13 H26 107.6 109.5
C13 C14 C15 105.0 109.5
C14 C13 H5 107.6 109.5
C13 C14 H6 110.6 109.5
C13 C14 H7 110.6 109.4
C14 C13 H26 107.6 109.5
C14 C15 C16 116.3 109.5
C15 C14 H6 110.6 109.5
C15 C14 H7 110.6 109.5
C14 C15 H8 107.8 109.5
C14 C15 H9 107.8 109.5
C15 C16 C17 106.8 109.5
C16 C15 H8 107.7 109.5
C16 C15 H9 107.7 109.5
C15 C16 H10 110.1 109.4
C15 C16 H11 110.1 109.5
C16 C17 C18 114.0 109.4
C17 C16 H10 110.1 109.4
C17 C16 H11 110.2 109.5
C16 C17 H12 108.3 109.4
C16 C17 H13 108.4 109.5
C17 C18 C19 108.3 109.4
C18 C17 H12 108.3 109.5
C18 C17 H13 108.3 109.5
C17 C18 H14 109.8 109.5
C17 C18 H15 109.7 109.5
C18 C19 C20 112.5 109.4
C19 C18 H14 109.8 109.4
C19 C18 H15 109.8 109.5
C18 C19 H16 108.7 109.4
C18 C19 H17 108.7 109.5
C19 C20 C21 110.0 109.5
C20 C19 H16 108.7 109.5
C20 C19 H17 108.7 109.5
C19 C20 H18 109.3 109.5
C19 C20 H19 109.4 109.5
C20 C21 C22 111.0 109.5
C21 C20 H18 109.3 109.5
C21 C20 H19 109.3 109.4
C20 C21 H20 109.1 109.5
C20 C21 H21 109.1 109.5
C22 C21 H20 109.1 109.4
C22 C21 H21 109.1 109.4
C21 C22 H22 109.5 109.5
C21 C22 H23 109.5 109.4
C21 C22 H24 109.5 109.4
H4 C12 H25 109.5 109.5
H5 C13 H26 109.5 109.5
H6 C14 H7 109.5 109.4
H8 C15 H9 109.4 109.4
H10 C16 H11 109.5 109.5
H12 C17 H13 109.5 109.5
H14 C18 H15 109.5 109.5
H16 C19 H17 109.5 109.5
H18 C20 H19 109.5 109.5
H20 C21 H21 109.5 109.4
H22 C22 H23 109.5 109.6
H22 C22 H24 109.5 109.5
H23 C22 H24 109.4 109.4

Torsion Angles for EMJ

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O8 C5 C6 H1 359.7 0.3
C5 C6 C7 O11 180.2 180.1
C7 C6 C5 H1 180.0 179.7
C5 C4 C3 C12 180.2 180.0
O10 C4 C3 C12 0.2 360.0
C5 C6 C7 H1 180.0 180.3
C6 C7 O11 H3 179.9 0.0
C6 C7 C2 O9 180.0 179.7
C4 C3 C2 O9 179.9 180.0
C4 C3 C12 C13 179.2 95.0
C4 C3 C12 H4 300.2 215.0
C4 C3 C12 H25 58.3 335.0
O11 C7 C6 H1 0.2 359.8
O11 C7 C2 O9 359.9 0.2
C3 C2 C7 O9 180.1 179.7
C7 C2 C3 O9 179.9 180.3
C12 C3 C2 O9 359.7 360.0
C3 C12 C13 C14 180.2 180.0
C13 C12 C3 H4 239.1 240.0
C3 C12 C13 H5 301.2 300.0
C13 C12 C3 H25 121.0 120.0
C3 C12 C13 H26 59.1 60.0
H4 C12 C3 H25 241.9 240.0
C3 C12 C13 H4 120.9 120.0
C3 C12 C13 H25 239.1 240.1
C12 C13 C14 C15 161.3 180.0
C14 C13 C12 H5 238.9 240.0
C12 C13 C14 H6 280.6 300.1
C12 C13 C14 H7 42.0 60.0
C14 C13 C12 H26 121.1 120.0
H4 C12 C13 H25 118.1 120.0
H5 C13 C12 H26 242.2 240.0
C14 C13 C12 H4 59.2 59.9
C12 C13 C14 H5 121.1 120.0
C14 C13 C12 H25 301.1 299.9
C12 C13 C14 H26 238.9 240.0
C13 C14 C15 C16 178.8 180.0
C15 C14 C13 H6 240.7 239.9
C15 C14 C13 H7 119.3 120.0
C13 C14 C15 H8 299.8 300.1
C13 C14 C15 H9 57.8 60.0
H5 C13 C14 H26 117.8 120.0
H6 C14 C13 H7 238.6 240.1
C15 C14 C13 H5 40.2 60.0
C13 C14 C15 H6 119.3 120.1
C13 C14 C15 H7 240.7 240.0
C15 C14 C13 H26 282.4 300.0
C14 C15 C16 C17 181.2 180.0
C16 C15 C14 H8 239.0 240.0
C16 C15 C14 H9 121.0 120.1
C14 C15 C16 H10 300.8 300.0
C14 C15 C16 H11 61.6 60.0
H6 C14 C15 H7 121.4 119.9
H8 C15 C14 H9 242.0 240.1
C16 C15 C14 H6 59.5 59.9
C16 C15 C14 H7 298.1 300.0
C14 C15 C16 H8 121.0 120.0
C14 C15 C16 H9 239.0 240.0
C15 C16 C17 C18 178.2 180.0
C17 C16 C15 H10 240.4 240.0
C17 C16 C15 H11 119.6 120.0
C15 C16 C17 H12 298.9 300.0
C15 C16 C17 H13 57.6 60.0
H8 C15 C16 H9 118.0 119.9
H10 C16 C15 H11 239.2 240.0
C17 C16 C15 H8 60.2 60.0
C17 C16 C15 H9 302.2 300.1
C15 C16 C17 H10 119.6 120.0
C15 C16 C17 H11 240.4 240.0
C16 C17 C18 C19 180.3 180.0
C18 C17 C16 H12 239.3 240.0
C18 C17 C16 H13 120.7 120.0
C16 C17 C18 H14 300.1 300.0
C16 C17 C18 H15 60.4 60.0
H10 C16 C17 H11 120.8 120.0
H12 C17 C16 H13 241.3 240.0
C18 C17 C16 H10 58.6 60.0
C18 C17 C16 H11 297.8 300.0
C16 C17 C18 H12 120.7 120.0
C16 C17 C18 H13 239.3 240.0
C17 C18 C19 C20 179.1 180.0
C19 C18 C17 H14 240.2 240.0
C19 C18 C17 H15 119.8 120.0
C17 C18 C19 H16 299.5 300.0
C17 C18 C19 H17 58.6 60.0
H12 C17 C18 H13 118.7 120.1
H14 C18 C17 H15 239.7 239.9
C19 C18 C17 H12 59.6 60.0
C19 C18 C17 H13 301.0 300.0
C17 C18 C19 H14 119.8 120.0
C17 C18 C19 H15 240.2 240.0
C18 C19 C20 C21 179.8 180.0
C20 C19 C18 H16 239.6 240.0
C20 C19 C18 H17 120.4 120.0
C18 C19 C20 H18 299.8 300.0
C18 C19 C20 H19 59.7 60.0
H14 C18 C19 H15 120.4 120.0
H16 C19 C18 H17 240.9 240.0
C20 C19 C18 H14 59.2 60.0
C20 C19 C18 H15 298.9 300.0
C18 C19 C20 H16 120.4 120.0
C18 C19 C20 H17 239.6 240.0
C19 C20 C21 C22 179.9 180.0
C21 C20 C19 H18 239.9 240.0
C21 C20 C19 H19 120.1 120.0
C19 C20 C21 H20 300.1 300.0
C19 C20 C21 H21 59.6 60.0
H16 C19 C20 H17 119.1 120.0
H18 C20 C19 H19 240.1 239.9
C21 C20 C19 H16 59.3 60.0
C21 C20 C19 H17 300.2 300.0
C19 C20 C21 H18 120.0 120.0
C19 C20 C21 H19 239.9 240.0
C22 C21 C20 H20 239.8 240.0
C22 C21 C20 H21 120.2 120.0
C20 C21 C22 H22 180.0 180.0
C20 C21 C22 H23 300.0 300.1
C20 C21 C22 H24 60.0 60.0
H18 C20 C21 H19 119.9 120.0
H20 C21 C20 H21 240.5 240.0
C22 C21 C20 H18 59.8 60.0
C22 C21 C20 H19 300.0 300.0
C20 C21 C22 H20 120.2 120.1
C20 C21 C22 H21 239.8 240.0
H20 C21 C22 H21 119.5 119.9
H22 C22 C21 H23 240.0 239.9
H22 C22 C21 H24 120.0 120.0
H23 C22 C21 H24 240.0 240.1
C5 C6 H1 C7 180.0 179.7
H1 C6 C7 O11 0.2 359.8
C3 C12 H4 C13 234.1 240.0
C3 C12 H4 H25 117.0 119.9
H4 C12 C13 C14 59.2 59.9
H4 C12 C13 H5 180.3 180.0
C13 C12 H4 H25 243.0 240.0
H4 C12 C13 H26 298.1 299.9
C12 C13 H5 C14 233.3 240.0
H5 C13 C12 H4 180.3 180.0
H5 C13 C12 H25 62.2 60.0
C12 C13 H5 H26 116.6 120.0
H5 C13 C14 C15 40.2 60.0
H5 C13 C14 H6 159.5 180.1
H5 C13 C14 H7 280.9 300.0
C14 C13 H5 H26 243.4 240.0
C13 C14 H6 C15 244.1 239.9
H6 C14 C13 H5 159.5 180.1
C13 C14 H6 H7 122.1 119.9
H6 C14 C13 H26 41.7 60.1
H6 C14 C15 C16 59.5 59.9
C15 C14 H6 H7 237.9 240.0
H6 C14 C15 H8 180.5 180.0
H6 C14 C15 H9 298.5 299.9
C13 C14 H7 C15 115.9 120.0
H7 C14 C13 H5 280.9 300.0
C13 C14 H7 H6 237.9 240.0
H7 C14 C13 H26 163.1 180.0
H7 C14 C15 C16 298.1 300.0
C15 C14 H7 H6 122.1 120.0
H7 C14 C15 H8 59.1 60.0
H7 C14 C15 H9 177.1 180.0
C14 C15 H8 C16 233.8 239.9
H8 C15 C14 H6 180.5 180.0
H8 C15 C14 H7 59.1 60.0
C14 C15 H8 H9 116.9 119.9
H8 C15 C16 C17 60.2 60.0
C16 C15 H8 H9 243.1 240.0
H8 C15 C16 H10 179.8 180.0
H8 C15 C16 H11 300.6 300.0
C14 C15 H9 C16 126.2 120.1
H9 C15 C14 H6 298.5 299.9
H9 C15 C14 H7 177.1 180.0
C14 C15 H9 H8 243.1 240.0
H9 C15 C16 C17 302.2 300.1
C16 C15 H9 H8 116.9 120.0
H9 C15 C16 H10 61.8 60.0
H9 C15 C16 H11 182.6 180.0
C15 C16 H10 C17 242.5 240.0
H10 C16 C15 H8 179.8 180.0
H10 C16 C15 H9 61.8 60.0
C15 C16 H10 H11 121.2 120.0
H10 C16 C17 C18 58.6 60.0
C17 C16 H10 H11 238.7 240.0
H10 C16 C17 H12 179.3 180.0
H10 C16 C17 H13 298.0 300.0
C15 C16 H11 C17 117.5 120.0
H11 C16 C15 H8 300.6 300.0
H11 C16 C15 H9 182.6 180.0
C15 C16 H11 H10 238.8 240.0
H11 C16 C17 C18 297.8 300.0
C17 C16 H11 H10 121.2 120.0
H11 C16 C17 H12 58.4 60.0
H11 C16 C17 H13 177.1 180.0
C16 C17 H12 C18 235.9 240.0
H12 C17 C16 H10 179.3 180.0
H12 C17 C16 H11 58.4 60.0
C16 C17 H12 H13 118.0 120.0
H12 C17 C18 C19 59.6 60.0
C18 C17 H12 H13 242.1 240.0
H12 C17 C18 H14 179.5 180.0
H12 C17 C18 H15 299.8 300.1
C16 C17 H13 C18 124.1 120.0
H13 C17 C16 H10 298.0 300.0
H13 C17 C16 H11 177.1 180.0
C16 C17 H13 H12 242.1 240.0
H13 C17 C18 C19 301.0 300.0
C18 C17 H13 H12 117.9 120.0
H13 C17 C18 H14 60.8 59.9
H13 C17 C18 H15 181.1 180.0
C17 C18 H14 C19 241.0 240.0
H14 C18 C17 H12 179.5 180.0
H14 C18 C17 H13 60.8 59.9
C17 C18 H14 H15 120.5 120.0
H14 C18 C19 C20 59.2 60.0
C19 C18 H14 H15 239.5 240.0
H14 C18 C19 H16 179.7 180.0
H14 C18 C19 H17 298.8 300.0
C17 C18 H15 C19 118.9 120.0
H15 C18 C17 H12 299.8 300.1
H15 C18 C17 H13 181.1 180.0
C17 C18 H15 H14 239.5 240.0
H15 C18 C19 C20 298.9 300.0
C19 C18 H15 H14 120.5 120.0
H15 C18 C19 H16 59.3 60.0
H15 C18 C19 H17 178.4 180.0
C18 C19 H16 C20 237.2 240.0
H16 C19 C18 H14 179.7 180.0
H16 C19 C18 H15 59.3 60.0
C18 C19 H16 H17 118.6 120.1
H16 C19 C20 C21 59.3 60.0
C20 C19 H16 H17 241.4 240.0
H16 C19 C20 H18 179.4 180.0
H16 C19 C20 H19 299.2 300.1
C18 C19 H17 C20 122.8 120.0
H17 C19 C18 H14 298.8 300.0
H17 C19 C18 H15 178.4 180.0
C18 C19 H17 H16 241.4 240.0
H17 C19 C20 C21 300.2 300.0
C20 C19 H17 H16 118.6 120.0
H17 C19 C20 H18 60.2 60.0
H17 C19 C20 H19 180.1 180.0
C19 C20 H18 C21 239.6 240.0
H18 C20 C19 H16 179.4 180.0
H18 C20 C19 H17 60.2 60.0
C19 C20 H18 H19 119.8 120.0
H18 C20 C21 C22 59.8 60.0
C21 C20 H18 H19 240.2 240.0
H18 C20 C21 H20 180.0 180.0
H18 C20 C21 H21 299.6 300.0
C19 C20 H19 C21 120.5 120.0
H19 C20 C19 H16 299.2 300.1
H19 C20 C19 H17 180.1 180.0
C19 C20 H19 H18 240.2 240.0
H19 C20 C21 C22 300.0 300.0
C21 C20 H19 H18 119.8 120.0
H19 C20 C21 H20 60.2 60.0
H19 C20 C21 H21 179.7 180.0
C20 C21 H20 C22 238.6 239.9
H20 C21 C20 H18 180.0 180.0
H20 C21 C20 H19 60.2 60.0
C20 C21 H20 H21 119.3 120.1
C22 C21 H20 H21 240.7 240.1
H20 C21 C22 H22 59.8 59.9
H20 C21 C22 H23 179.8 180.0
H20 C21 C22 H24 299.7 299.9
C20 C21 H21 C22 121.4 120.0
H21 C21 C20 H18 299.6 300.0
H21 C21 C20 H19 179.7 180.0
C20 C21 H21 H20 240.7 239.9
C22 C21 H21 H20 119.3 119.9
H21 C21 C22 H22 300.2 300.0
H21 C21 C22 H23 60.3 60.1
H21 C21 C22 H24 180.2 180.0
H22 C22 C21 H20 59.8 59.9
H22 C22 C21 H21 300.2 300.0
C21 C22 H22 H23 120.0 120.0
C21 C22 H22 H24 240.0 240.0
H23 C22 H22 H24 120.0 120.0
H23 C22 C21 H20 179.8 180.0
H23 C22 C21 H21 60.3 60.1
C21 C22 H23 H22 240.0 239.9
C21 C22 H23 H24 120.0 119.9
H22 C22 H23 H24 240.0 240.0
H24 C22 C21 H20 299.7 299.9
H24 C22 C21 H21 180.2 180.0
C21 C22 H24 H22 120.0 120.0
C21 C22 H24 H23 240.0 240.1
H22 C22 H24 H23 120.0 120.1
C3 C12 H25 C13 125.9 120.0
C3 C12 H25 H4 243.0 240.0
H25 C12 C13 C14 301.1 299.9
C13 C12 H25 H4 117.0 120.0
H25 C12 C13 H5 62.2 60.0
H25 C12 C13 H26 180.0 179.9
C12 C13 H26 C14 126.7 120.0
H26 C13 C12 H4 298.1 299.9
C12 C13 H26 H5 243.4 240.0
H26 C13 C12 H25 180.0 179.9
H26 C13 C14 C15 282.4 300.0
C14 C13 H26 H5 116.6 120.0
H26 C13 C14 H6 41.7 60.1
H26 C13 C14 H7 163.1 180.0