PDB Chemical Component JDC

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 JDC

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C3B C3A 1.478 1.530
C3A C3D 1.584 1.530
C3A C2A 1.535 1.529
C4D C2A 1.515 1.530
C4D N11 1.540 1.470
C2A N2A 1.424 1.465
N2A C1A 1.448 1.347
C61 N11 1.450 1.469
C61 C51 1.490 1.531
N11 C21 1.446 1.468
C1A C3 1.524 1.507
C1A O1 1.238 1.213
C3 C4 1.520 1.529
C3 N2 1.421 1.472
C4 C4A 1.505 1.507
C5 C4A 1.452 1.386
C5 C6 1.419 1.380
C4A C8A 1.328 1.377
C21 C31 1.482 1.530
C6 C7 1.385 1.387
C51 C41 1.437 1.531
C8A C1 1.471 1.506
C8A C8 1.461 1.389
N2 C1 1.413 1.466
C7 C8 1.390 1.386
C7 O7 1.348 1.359
C4E C41 1.519 1.530
C41 C31 1.464 1.532
C41 C1C 1.529 1.507
C31 C34 1.577 1.530
C1C C6C 1.433 1.382
C1C C2C 1.399 1.381
C6C C5C 1.409 1.383
C2C C3C 1.410 1.387
C5C C4C 1.387 1.381
C3C C4C 1.438 1.388
C3C O3C 1.451 1.359
C1 H1 1.100 1.090
C1 H2 1.100 1.090
N2 H3 1.000 1.008
C3 H5 1.100 1.090
C4 H6 1.100 1.090
C4 H7 1.100 1.091
C5 H8 1.080 1.080
C6 H9 1.079 1.080
O7 H10 0.950 0.967
C8 H11 1.080 1.080
N2A H12 1.000 0.970
C2A H13 1.100 1.089
C3A H14 1.100 1.090
C3D H15 1.100 1.089
C3D H16 1.100 1.090
C3D H17 1.100 1.091
C3B H18 1.100 1.090
C3B H19 1.100 1.090
C3B H20 1.100 1.091
C4D H21 1.100 1.090
C4D H22 1.100 1.091
C21 H24 1.100 1.091
C21 H25 1.100 1.090
C31 H26 1.100 1.090
C34 H27 1.100 1.090
C34 H28 1.100 1.091
C34 H29 1.100 1.089
C51 H30 1.100 1.090
C51 H31 1.100 1.090
C61 H32 1.100 1.091
C61 H33 1.100 1.090
C4E H34 1.099 1.090
C4E H35 1.100 1.090
C4E H36 1.100 1.090
C2C H37 1.080 1.080
O3C H38 0.950 0.967
C4C H39 1.080 1.080
C5C H40 1.080 1.079
C6C H41 1.080 1.080

Bond Angles for JDC

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C3B C3A H14 105.5 109.5
C3D C3A H14 104.4 109.4
C3A C3D H15 109.5 109.5
C3A C3D H16 109.5 109.5
C3A C3D H17 109.5 109.5
C3A C2A H13 108.5 109.5
C4D C2A H13 108.7 109.5
C4D N11 C21 113.2 111.0
N11 C4D H21 107.5 109.4
N11 C4D H22 107.5 109.4
C2A N2A H12 120.0 120.0
C61 C51 H30 108.6 109.4
C61 C51 H31 108.6 109.5
N11 C21 C31 113.3 109.5
N11 C21 H24 108.5 109.5
N11 C21 H25 108.5 109.5
C1A C3 H5 108.1 109.8
C3 C4 C4A 110.8 110.0
C4 C3 H5 108.1 109.7
C3 C4 H6 109.1 109.4
C3 C4 H7 109.1 109.4
C3 N2 H3 109.1 111.1
C4 C4A C8A 120.4 121.5
C4A C4 H6 109.1 109.4
C4A C4 H7 109.1 109.4
C5 C4A C8A 119.0 120.0
C5 C6 C7 120.2 119.8
C6 C5 H8 119.9 119.8
C5 C6 H9 119.9 120.1
C4A C8A C8 121.0 119.8
C21 C31 C34 107.8 109.5
C31 C21 H24 108.5 109.5
C31 C21 H25 108.5 109.5
C21 C31 H26 108.6 109.5
C6 C7 C8 119.5 119.8
C6 C7 O7 120.8 120.1
C7 C6 H9 119.9 120.1
C51 C41 C1C 114.5 109.5
C8A C1 H1 108.3 109.3
C8A C1 H2 108.3 109.3
C8A C8 H11 119.9 119.9
N2 C1 H1 108.3 109.3
N2 C1 H2 108.3 109.3
O7 C7 C8 119.6 120.1
C7 C8 H11 119.9 119.8
C7 O7 H10 109.5 114.0
C4E C41 C1C 106.1 109.6
C41 C31 H26 108.9 109.5
C41 C1C C6C 120.4 120.0
C41 C1C C2C 119.6 120.0
C34 C31 H26 107.4 109.5
C31 C34 H27 109.5 109.5
C31 C34 H28 109.5 109.5
C31 C34 H29 109.5 109.5
C2C C1C C6C 120.1 120.1
C1C C6C C5C 119.9 120.1
C1C C6C H41 120.0 120.0
C1C C2C C3C 119.8 120.0
C1C C2C H37 120.1 120.1
C6C C5C H40 119.9 120.0
C2C C3C C4C 119.9 119.8
C2C C3C O3C 119.6 120.1
C3C C2C H37 120.1 120.0
C5C C4C H39 119.9 120.0
O3C C3C C4C 120.5 120.0
C3C C4C H39 120.0 120.0
C3C O3C H38 109.5 114.0
H1 C1 H2 109.5 109.3
H6 C4 H7 109.5 109.3
H15 C3D H16 109.4 109.5
H15 C3D H17 109.5 109.5
H16 C3D H17 109.5 109.4
H18 C3B H19 109.5 109.5
H18 C3B H20 109.5 109.5
H19 C3B H20 109.5 109.5
H21 C4D H22 109.5 109.5
H24 C21 H25 109.5 109.4
H27 C34 H28 109.5 109.4
H27 C34 H29 109.5 109.5
H28 C34 H29 109.5 109.5
H30 C51 H31 109.5 109.5
H32 C61 H33 109.5 109.5
H34 C4E H35 109.5 109.4
H34 C4E H36 109.5 109.5
H35 C4E H36 109.4 109.4

Torsion Angles for JDC

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C3D C3A C3B H14 113.7 240.0
C3B C3A C3D H15 180.0 300.0
C3B C3A C3D H16 300.0 60.0
C3B C3A C3D H17 60.0 180.0
C3B C3A C2A H13 288.1 60.0
C3B C3A C3D H14 245.7 120.0
C3D C3A C2A H13 59.9 300.0
H15 C3D C3A H16 240.0 240.0
H15 C3D C3A H17 120.0 120.0
H16 C3D C3A H17 240.0 240.0
C4D C2A C3A H13 119.9 120.0
C3A C2A N2A H12 305.6 280.9
C3A C2A C4D H13 240.2 240.0
C4D C2A N2A H12 67.5 40.9
N11 C4D C2A H13 307.7 295.4
C4D N11 C21 C31 195.1 185.8
C4D N11 C21 H24 315.6 305.9
C4D N11 C21 H25 74.5 65.8
H21 C4D N11 H22 117.8 120.0
N2A C1A C3 H5 351.3 319.5
C61 N11 C4D H21 80.8 79.8
C61 N11 C4D H22 323.1 319.7
C61 N11 C21 H24 169.4 181.8
C61 N11 C21 H25 288.3 301.7
C61 C51 C41 C1C 182.2 182.5
H30 C51 C61 H31 241.0 120.1
C21 N11 C4D H21 298.6 315.6
C21 N11 C4D H22 180.9 195.5
N11 C21 C31 C34 72.8 60.7
C31 C21 N11 H24 239.4 240.0
C31 C21 N11 H25 120.5 120.0
N11 C21 C31 H26 188.9 180.8
H24 C21 N11 H25 241.1 240.1
C4 C3 C1A H5 118.9 120.5
C1A C3 C4 H6 289.3 290.3
C1A C3 C4 H7 48.9 49.9
C1A C3 N2 H3 291.4 292.4
O1 C1A C3 H5 170.7 139.5
C1A C3 C4 H5 241.1 239.4
C4 C3 N2 H3 54.7 52.1
C3 C4 C4A C8A 344.5 343.0
C4A C4 C3 H6 239.8 239.8
C4A C4 C3 H7 120.2 120.1
H6 C4 C3 H7 240.4 240.3
C3 N2 C1 H1 288.2 172.9
C3 N2 C1 H2 169.5 292.5
C4A C4 C3 H5 287.9 290.7
C3 C4 C4A H6 120.2 120.2
C3 C4 C4A H7 239.8 239.9
C5 C4A C4 C8A 179.7 180.2
C4 C4A C8A C8 179.6 180.0
H6 C4 C4A H7 119.6 119.7
C4 C4A C5 C8A 180.3 179.8
C5 C4A C4 H6 44.0 43.1
C5 C4A C4 H7 284.4 283.4
C5 C4A C8A C8 359.9 359.8
C6 C5 C4A C8A 0.0 0.1
C5 C6 C7 C8 0.2 0.1
C5 C6 C7 O7 180.0 180.1
C7 C6 C5 H9 180.0 180.0
C8A C4A C4 H6 224.3 222.8
C8A C4A C4 H7 104.7 103.2
C4A C8A C1 H1 104.8 222.0
C4A C8A C1 H2 223.6 102.4
C4A C8A C8 H11 180.3 180.1
N11 C21 C31 H24 120.6 120.0
N11 C21 C31 H25 239.4 240.0
C41 C31 C21 H26 121.1 120.0
C34 C31 C21 H26 243.9 239.9
C21 C31 C34 H27 180.0 55.6
C21 C31 C34 H28 300.0 175.6
C21 C31 C34 H29 60.0 295.6
H24 C21 C31 H25 118.9 119.9
C7 C6 C5 H8 180.0 179.9
C5 C6 C7 H9 180.0 180.0
O7 C7 C6 C8 179.8 180.0
C6 C7 C8 H11 179.7 180.0
C6 C7 O7 H10 180.0 90.0
C4E C41 C51 C1C 244.4 239.8
C51 C41 C31 H26 171.8 177.6
C51 C41 C1C C6C 353.7 4.0
C51 C41 C1C C2C 174.0 184.3
N2 C1 C8A H1 239.3 120.2
N2 C1 C8A H2 120.6 239.8
H1 C1 C8A H2 241.3 119.6
C8 C8A C1 H1 285.1 42.6
C8 C8A C1 H2 43.8 283.0
C7 C8 C8A H11 180.0 180.1
C8A C1 N2 H1 120.7 239.8
C8A C1 N2 H2 239.4 120.2
H1 C1 N2 H2 118.7 240.4
C4A C8A C8 C7 0.3 0.2
C6 C7 C8 O7 179.8 180.0
C8 C7 C6 H9 180.2 180.1
C8A C8 C7 H11 180.0 179.9
C8 C7 O7 H10 359.8 270.0
C6 C7 O7 C8 180.2 180.0
O7 C7 C6 H9 360.0 0.1
O7 C7 C8 H11 359.9 360.0
C51 C41 C4E C1C 121.3 120.2
C4E C41 C31 H26 57.0 57.7
C4E C41 C1C C6C 108.3 124.2
C4E C41 C1C C2C 288.6 304.5
C41 C31 C21 H24 189.4 180.8
C41 C31 C21 H25 70.5 60.8
C21 C31 C41 H26 239.1 240.0
C34 C31 C41 H26 117.9 120.1
C41 C31 C34 H27 304.3 175.4
C41 C31 C34 H28 64.3 295.4
C41 C31 C34 H29 184.3 55.4
C1C C41 C31 H26 300.9 297.5
C2C C1C C41 C6C 180.3 180.3
C41 C1C C6C C5C 180.1 179.8
C41 C1C C6C H41 0.1 0.0
C41 C1C C2C C3C 179.9 180.0
C41 C1C C2C H37 359.9 359.9
C34 C31 C21 H24 312.2 300.7
C34 C31 C21 H25 193.3 180.7
C21 C31 C34 H26 116.9 120.1
C41 C31 C34 H26 241.2 239.9
H27 C34 C31 H28 240.0 240.0
H27 C34 C31 H29 120.0 120.0
H28 C34 C31 H29 240.0 240.0
C41 C1C C6C C2C 180.3 180.3
C6C C1C C2C C3C 0.2 0.3
C6C C1C C2C H37 180.1 180.2
C1C C6C C5C H40 180.2 180.3
C41 C1C C2C C6C 179.7 179.7
C2C C1C C6C C5C 359.8 359.5
C2C C1C C6C H41 179.8 179.7
C1C C2C C3C C4C 360.0 360.0
C1C C2C C3C O3C 179.8 180.1
C3C C2C C1C H37 180.0 180.1
C1C C6C C5C H41 180.0 180.2
C6C C5C C4C H39 179.9 179.8
C3C C2C C1C C6C 0.2 0.3
C1C C2C C3C H37 180.0 179.9
O3C C3C C2C C4C 179.8 180.1
C2C C3C C4C H39 180.0 180.0
C2C C3C O3C H38 180.0 89.9
C1C C6C C5C C4C 0.2 0.5
C3C C4C C5C H39 180.0 180.0
C2C C3C C4C O3C 179.8 180.1
C4C C3C C2C H37 180.0 180.0
C5C C4C C3C H39 180.0 180.0
C4C C3C O3C H38 359.8 270.0
C2C C3C O3C C4C 180.2 179.9
O3C C3C C2C H37 359.8 0.1
O3C C3C C4C H39 0.2 359.9
C8A C1 H1 H2 118.0 240.4
N2 C1 H1 H2 242.1 119.6
C8A C1 H2 H1 242.0 119.6
N2 C1 H2 H1 117.9 240.4
H3 N2 C1 H1 167.9 49.4
H3 N2 C1 H2 49.3 169.0
H5 C3 C4 C4A 287.9 290.7
H5 C3 C4 H6 48.1 50.8
H5 C3 C4 H7 167.7 170.5
H5 C3 N2 H3 173.4 171.8
C3 C4 H6 C4A 238.8 239.5
H6 C4 C3 H5 48.1 50.8
C3 C4 H6 H7 119.4 119.7
H6 C4 C4A C8A 224.3 222.8
C4A C4 H6 H7 240.6 240.3
C3 C4 H7 C4A 121.2 120.5
H7 C4 C3 H5 167.7 170.5
C3 C4 H7 H6 240.6 240.2
H7 C4 C4A C8A 104.7 103.2
C4A C4 H7 H6 119.4 119.7
H8 C5 C4A C8A 180.0 180.1
H8 C5 C6 C7 180.0 179.9
H8 C5 C6 H9 0.0 360.0
C5 C6 H9 C7 180.0 180.0
H9 C6 C5 H8 0.0 360.0
H9 C6 C7 C8 180.2 180.1
H9 C6 C7 O7 360.0 0.1
H10 O7 C7 C8 359.8 270.0
H13 C2A N2A H12 189.4 160.9
H14 C3A C3D H15 294.3 180.0
H14 C3A C3D H16 54.3 300.0
H14 C3A C3D H17 174.3 60.0
H14 C3A C2A H13 172.5 180.0
H15 C3D C3A H14 294.3 180.0
C3A C3D H15 H16 120.0 120.1
C3A C3D H15 H17 240.0 240.0
H16 C3D H15 H17 120.0 120.0
H16 C3D C3A H14 54.3 300.0
C3A C3D H16 H15 240.0 240.0
C3A C3D H16 H17 120.0 120.0
H15 C3D H16 H17 240.0 240.0
H17 C3D C3A H14 174.3 60.0
C3A C3D H17 H15 120.0 120.0
C3A C3D H17 H16 240.0 240.0
H15 C3D H17 H16 120.0 120.0
H18 C3B C3A H14 66.3 180.0
H19 C3B H18 H20 120.0 120.0
H19 C3B C3A H14 186.3 300.0
H18 C3B H19 H20 240.0 240.0
H20 C3B C3A H14 306.3 60.0
H18 C3B H20 H19 120.0 120.0
H21 C4D C2A H13 68.9 55.3
H21 C4D N11 C21 298.6 315.6
N11 C4D H21 H22 243.6 240.0
H22 C4D C2A H13 186.6 175.4
H22 C4D N11 C21 180.9 195.5
N11 C4D H22 H21 116.4 120.0
N11 C21 H24 C31 236.5 239.9
N11 C21 H24 H25 118.3 120.0
H24 C21 C31 C34 312.2 300.7
C31 C21 H24 H25 241.8 240.0
H24 C21 C31 H26 68.3 60.8
N11 C21 H25 C31 123.5 120.1
N11 C21 H25 H24 241.7 240.0
H25 C21 C31 C34 193.3 180.7
C31 C21 H25 H24 118.3 120.0
H25 C21 C31 H26 309.4 300.8
C21 C31 H26 C34 243.7 239.9
H26 C31 C21 H24 68.3 60.8
H26 C31 C21 H25 309.4 300.8
H26 C31 C34 H27 63.1 295.5
H26 C31 C34 H28 183.1 55.5
H26 C31 C34 H29 303.1 175.5
H27 C34 C31 H26 63.1 295.5
C31 C34 H27 H28 120.0 120.0
C31 C34 H27 H29 240.0 239.9
H28 C34 H27 H29 120.0 120.0
H28 C34 C31 H26 183.1 55.5
C31 C34 H28 H27 240.0 240.0
C31 C34 H28 H29 120.0 120.0
H27 C34 H28 H29 240.0 240.0
H29 C34 C31 H26 303.1 175.5
C31 C34 H29 H27 120.0 120.0
C31 C34 H29 H28 240.0 240.0
H27 C34 H29 H28 120.0 120.0
C61 C51 H30 H31 118.4 239.9
H30 C51 C41 C1C 61.7 302.4
C61 C51 H31 H30 241.6 120.0
H31 C51 C41 C1C 302.7 62.5
H32 C61 C51 H30 50.3 179.3
H32 C61 C51 H31 169.3 59.2
H33 C61 C51 H30 291.5 59.3
H33 C61 C51 H31 50.5 299.2
H34 C4E C41 C1C 58.7 180.2
H35 C4E H34 H36 120.0 119.9
H35 C4E C41 C1C 178.7 300.1
H34 C4E H35 H36 240.0 240.0
H36 C4E C41 C1C 298.7 60.1
H34 C4E H36 H35 120.0 119.9
H37 C2C C1C C6C 180.1 180.2
C1C C2C H37 C3C 180.0 180.1
H37 C2C C3C C4C 180.0 180.0
H37 C2C C3C O3C 359.8 0.1
H38 O3C C3C C4C 359.8 270.0
H40 C5C C4C H39 359.9 360.0
C1C C6C H41 C5C 180.0 179.8
H41 C6C C5C H40 0.2 0.1