PDB Chemical Component SPK

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 SPK

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C2 1.517 1.469
N1 H1A 0.890 1.009
N1 H1B 0.891 1.009
N1 H1C 0.889 1.010
C2 C3 1.479 1.530
C2 H2A 0.970 1.090
C2 H2B 0.969 1.090
C3 C4 1.499 1.530
C3 H3A 0.970 1.090
C3 H3B 0.970 1.090
C4 N5 1.480 1.470
C4 H4A 0.970 1.090
C4 H4B 0.970 1.090
N5 C6 1.469 1.469
N5 H5A 0.900 1.009
N5 H5B 0.900 1.009
C6 C7 1.510 1.530
C6 H6A 0.970 1.090
C6 H6B 0.970 1.090
C7 C8 1.501 1.530
C7 H7A 0.970 1.090
C7 H7B 0.969 1.090
C8 C9 1.519 1.530
C8 H8A 0.970 1.090
C8 H8B 0.970 1.090
C9 N10 1.497 1.469
C9 H9A 0.970 1.090
C9 H9B 0.970 1.090
N10 C11 1.493 1.470
N10 H101 0.900 1.009
N10 H102 0.900 1.009
C11 C12 1.504 1.530
C11 H111 0.970 1.090
C11 H112 0.970 1.090
C12 C13 1.500 1.530
C12 H121 0.970 1.090
C12 H122 0.970 1.090
C13 N14 1.505 1.469
C13 H131 0.970 1.090
C13 H132 0.970 1.090
N14 H141 0.890 1.009
N14 H142 0.890 1.009
N14 H143 0.890 1.010

Bond Angles for SPK

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N1 H1A 109.5 109.4
C2 N1 H1B 109.4 109.4
C2 N1 H1C 109.5 109.5
N1 C2 C3 114.0 109.5
N1 C2 H2A 108.7 109.5
N1 C2 H2B 108.7 109.5
H1A N1 H1B 109.4 109.5
H1A N1 H1C 109.5 109.5
H1B N1 H1C 109.5 109.5
C3 C2 H2A 108.8 109.5
C3 C2 H2B 108.8 109.5
C2 C3 C4 116.4 109.5
C2 C3 H3A 108.2 109.5
C2 C3 H3B 108.1 109.5
H2A C2 H2B 107.7 109.5
C4 C3 H3A 108.2 109.5
C4 C3 H3B 108.2 109.5
C3 C4 N5 116.5 109.4
C3 C4 H4A 108.2 109.5
C3 C4 H4B 108.2 109.5
H3A C3 H3B 107.4 109.5
N5 C4 H4A 108.2 109.5
N5 C4 H4B 108.2 109.5
C4 N5 C6 111.5 109.5
C4 N5 H5A 109.4 109.4
C4 N5 H5B 109.3 109.4
H4A C4 H4B 107.3 109.5
C6 N5 H5A 109.3 109.5
C6 N5 H5B 109.4 109.5
N5 C6 C7 111.6 109.5
N5 C6 H6A 109.3 109.5
N5 C6 H6B 109.3 109.5
H5A N5 H5B 108.0 109.5
C7 C6 H6A 109.3 109.5
C7 C6 H6B 109.3 109.5
C6 C7 C8 114.3 109.5
C6 C7 H7A 108.7 109.5
C6 C7 H7B 108.7 109.5
H6A C6 H6B 107.9 109.4
C8 C7 H7A 108.6 109.5
C8 C7 H7B 108.7 109.5
C7 C8 C9 112.1 109.5
C7 C8 H8A 109.2 109.5
C7 C8 H8B 109.2 109.5
H7A C7 H7B 107.6 109.5
C9 C8 H8A 109.2 109.5
C9 C8 H8B 109.2 109.5
C8 C9 N10 110.7 109.5
C8 C9 H9A 109.5 109.5
C8 C9 H9B 109.5 109.5
H8A C8 H8B 107.9 109.5
N10 C9 H9A 109.5 109.5
N10 C9 H9B 109.5 109.5
C9 N10 C11 112.5 109.5
C9 N10 H101 109.0 109.5
C9 N10 H102 109.1 109.5
H9A C9 H9B 108.1 109.4
C11 N10 H101 109.1 109.4
C11 N10 H102 109.1 109.4
N10 C11 C12 112.3 109.4
N10 C11 H111 109.2 109.5
N10 C11 H112 109.2 109.5
H101 N10 H102 107.9 109.5
C12 C11 H111 109.1 109.5
C12 C11 H112 109.1 109.5
C11 C12 C13 114.4 109.5
C11 C12 H121 108.6 109.5
C11 C12 H122 108.6 109.5
H111 C11 H112 107.9 109.5
C13 C12 H121 108.7 109.5
C13 C12 H122 108.7 109.5
C12 C13 N14 114.7 109.5
C12 C13 H131 108.6 109.5
C12 C13 H132 108.6 109.5
H121 C12 H122 107.6 109.5
N14 C13 H131 108.6 109.5
N14 C13 H132 108.6 109.5
C13 N14 H141 109.5 109.4
C13 N14 H142 109.5 109.4
C13 N14 H143 109.4 109.5
H131 C13 H132 107.5 109.5
H141 N14 H142 109.5 109.5
H141 N14 H143 109.5 109.5
H142 N14 H143 109.5 109.5

Torsion Angles for SPK

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
H1A N1 C2 H1B 119.9 120.0
H1A N1 C2 H1C 239.9 240.0
H1B N1 C2 H1C 120.0 120.0
C3 C2 N1 H2A 238.5 240.0
C3 C2 N1 H2B 121.6 120.0
N1 C2 C3 C4 165.7 180.0
N1 C2 C3 H3A 43.7 300.0
N1 C2 C3 H3B 287.7 60.0
H2A C2 N1 H2B 243.1 240.0
C2 N1 H1A H1B 240.1 240.0
C2 N1 H1A H1C 120.1 120.0
H1A N1 C2 C3 190.3 60.0
H1A N1 C2 H2A 311.8 180.0
H1A N1 C2 H2B 68.7 300.0
H1B N1 H1A H1C 240.0 240.0
C2 N1 H1B H1A 120.0 120.0
C2 N1 H1B H1C 240.0 240.0
H1B N1 C2 C3 70.3 300.0
H1B N1 C2 H2A 191.9 60.0
H1B N1 C2 H2B 308.8 180.0
H1A N1 H1B H1C 120.0 120.0
C2 N1 H1C H1A 239.9 240.0
C2 N1 H1C H1B 120.0 120.0
H1C N1 C2 C3 310.3 180.0
H1C N1 C2 H2A 71.9 300.0
H1C N1 C2 H2B 188.8 60.0
H1A N1 H1C H1B 240.1 239.9
C3 C2 N1 H1A 190.3 60.0
C3 C2 N1 H1B 70.3 300.0
C3 C2 N1 H1C 310.3 180.0
N1 C2 C3 H2A 121.5 120.0
N1 C2 C3 H2B 238.5 240.0
H2A C2 C3 H2B 117.0 120.0
C4 C3 C2 H3A 122.0 240.0
C4 C3 C2 H3B 238.0 120.0
C2 C3 C4 N5 47.6 180.0
C2 C3 C4 H4A 169.6 300.0
C2 C3 C4 H4B 285.6 60.0
H3A C3 C2 H3B 116.0 240.0
H2A C2 N1 H1A 311.8 180.0
H2A C2 N1 H1B 191.9 60.0
H2A C2 N1 H1C 71.9 300.0
N1 C2 H2A C3 235.3 240.0
N1 C2 H2A H2B 117.6 120.0
C3 C2 H2A H2B 242.3 240.0
H2A C2 C3 C4 44.2 60.0
H2A C2 C3 H3A 282.2 180.0
H2A C2 C3 H3B 166.3 300.0
H2B C2 N1 H1A 68.7 300.0
H2B C2 N1 H1B 308.8 180.0
H2B C2 N1 H1C 188.8 60.0
N1 C2 H2B C3 124.7 120.0
N1 C2 H2B H2A 242.4 240.0
C3 C2 H2B H2A 117.7 120.0
H2B C2 C3 C4 287.2 300.0
H2B C2 C3 H3A 165.2 60.0
H2B C2 C3 H3B 49.3 180.0
C4 C3 C2 H2A 44.2 60.0
C4 C3 C2 H2B 287.2 300.0
C2 C3 C4 H3A 238.0 120.0
C2 C3 C4 H3B 122.0 240.0
H3A C3 C4 H3B 244.0 120.0
N5 C4 C3 H4A 238.0 240.0
N5 C4 C3 H4B 122.0 120.0
C3 C4 N5 C6 174.8 180.0
C3 C4 N5 H5A 295.8 300.0
C3 C4 N5 H5B 53.8 60.0
H4A C4 C3 H4B 244.0 240.0
H3A C3 C2 H2A 282.2 180.0
H3A C3 C2 H2B 165.2 60.0
C2 C3 H3A C4 126.9 240.0
C2 C3 H3A H3B 243.5 120.0
C4 C3 H3A H3B 116.6 240.0
H3A C3 C4 N5 169.6 60.0
H3A C3 C4 H4A 291.6 180.0
H3A C3 C4 H4B 47.6 300.0
H3B C3 C2 H2A 166.3 300.0
H3B C3 C2 H2B 49.3 180.0
C2 C3 H3B C4 233.1 120.0
C2 C3 H3B H3A 116.5 240.0
C4 C3 H3B H3A 243.4 120.0
H3B C3 C4 N5 285.6 300.0
H3B C3 C4 H4A 47.7 60.0
H3B C3 C4 H4B 163.6 180.0
N5 C4 C3 H3A 169.6 60.0
N5 C4 C3 H3B 285.6 300.0
C3 C4 N5 H4A 122.0 120.0
C3 C4 N5 H4B 238.0 240.0
H4A C4 N5 H4B 115.9 120.0
C6 N5 C4 H5A 239.0 240.0
C6 N5 C4 H5B 121.0 120.0
C4 N5 C6 C7 168.7 180.0
C4 N5 C6 H6A 47.6 300.0
C4 N5 C6 H6B 289.7 60.0
H5A N5 C4 H5B 242.0 240.0
H4A C4 C3 H3A 291.6 180.0
H4A C4 C3 H3B 47.7 60.0
C3 C4 H4A N5 233.0 240.0
C3 C4 H4A H4B 116.5 120.0
N5 C4 H4A H4B 243.5 240.0
H4A C4 N5 C6 52.8 60.0
H4A C4 N5 H5A 173.8 180.0
H4A C4 N5 H5B 291.8 300.0
H4B C4 C3 H3A 47.6 300.0
H4B C4 C3 H3B 163.6 180.0
C3 C4 H4B N5 127.0 120.0
C3 C4 H4B H4A 243.5 240.0
N5 C4 H4B H4A 116.5 120.0
H4B C4 N5 C6 296.8 300.0
H4B C4 N5 H5A 57.8 60.0
H4B C4 N5 H5B 175.8 180.0
C6 N5 C4 H4A 52.8 60.0
C6 N5 C4 H4B 296.8 300.0
C4 N5 C6 H5A 121.0 120.0
C4 N5 C6 H5B 239.0 240.0
H5A N5 C6 H5B 118.0 120.1
C7 C6 N5 H6A 121.1 240.0
C7 C6 N5 H6B 239.0 120.0
N5 C6 C7 C8 181.9 180.0
N5 C6 C7 H7A 303.4 300.0
N5 C6 C7 H7B 60.3 60.0
H6A C6 N5 H6B 117.9 240.1
H5A N5 C4 H4A 173.8 180.0
H5A N5 C4 H4B 57.8 60.0
C4 N5 H5A C6 237.7 240.0
C4 N5 H5A H5B 118.8 120.0
C6 N5 H5A H5B 241.1 239.9
H5A N5 C6 C7 47.7 60.0
H5A N5 C6 H6A 286.6 180.1
H5A N5 C6 H6B 168.7 300.0
H5B N5 C4 H4A 291.8 300.0
H5B N5 C4 H4B 175.8 180.0
C4 N5 H5B C6 122.3 120.0
C4 N5 H5B H5A 241.1 240.0
C6 N5 H5B H5A 118.9 120.1
H5B N5 C6 C7 289.7 300.0
H5B N5 C6 H6A 168.5 60.0
H5B N5 C6 H6B 50.7 179.9
C7 C6 N5 H5A 47.7 60.0
C7 C6 N5 H5B 289.7 300.0
N5 C6 C7 H6A 238.9 120.0
N5 C6 C7 H6B 121.0 240.0
H6A C6 C7 H6B 242.1 119.9
C8 C7 C6 H7A 238.5 240.0
C8 C7 C6 H7B 121.6 120.0
C6 C7 C8 C9 167.1 180.0
C6 C7 C8 H8A 46.0 300.0
C6 C7 C8 H8B 288.3 60.0
H7A C7 C6 H7B 243.1 240.0
H6A C6 N5 H5A 286.6 180.1
H6A C6 N5 H5B 168.5 60.0
N5 C6 H6A C7 122.5 240.0
N5 C6 H6A H6B 241.3 120.0
C7 C6 H6A H6B 118.8 240.0
H6A C6 C7 C8 303.0 60.0
H6A C6 C7 H7A 64.5 180.0
H6A C6 C7 H7B 181.4 300.0
H6B C6 N5 H5A 168.7 300.0
H6B C6 N5 H5B 50.7 179.9
N5 C6 H6B C7 237.6 120.0
N5 C6 H6B H6A 118.8 240.0
C7 C6 H6B H6A 241.2 120.0
H6B C6 C7 C8 60.9 300.0
H6B C6 C7 H7A 182.4 60.0
H6B C6 C7 H7B 299.3 180.0
C8 C7 C6 H6A 303.0 60.0
C8 C7 C6 H6B 60.9 300.0
C6 C7 C8 H7A 121.5 120.0
C6 C7 C8 H7B 238.4 240.0
H7A C7 C8 H7B 116.8 120.0
C9 C8 C7 H8A 121.1 240.0
C9 C8 C7 H8B 238.9 120.0
C7 C8 C9 N10 175.1 180.0
C7 C8 C9 H9A 296.0 300.0
C7 C8 C9 H9B 54.3 60.0
H8A C8 C7 H8B 117.8 240.0
H7A C7 C6 H6A 64.5 180.0
H7A C7 C6 H6B 182.4 60.0
C6 C7 H7A C8 235.1 240.0
C6 C7 H7A H7B 117.6 120.0
C8 C7 H7A H7B 242.5 240.0
H7A C7 C8 C9 45.6 60.0
H7A C7 C8 H8A 284.5 180.0
H7A C7 C8 H8B 166.7 300.0
H7B C7 C6 H6A 181.4 300.0
H7B C7 C6 H6B 299.3 180.0
C6 C7 H7B C8 125.0 120.0
C6 C7 H7B H7A 242.5 240.0
C8 C7 H7B H7A 117.5 120.0
H7B C7 C8 C9 288.8 300.0
H7B C7 C8 H8A 167.7 60.0
H7B C7 C8 H8B 49.9 180.0
C9 C8 C7 H7A 45.6 60.0
C9 C8 C7 H7B 288.8 300.0
C7 C8 C9 H8A 238.9 120.0
C7 C8 C9 H8B 121.1 240.0
H8A C8 C9 H8B 242.3 120.0
N10 C9 C8 H9A 239.1 240.0
N10 C9 C8 H9B 120.8 120.0
C8 C9 N10 C11 170.2 180.0
C8 C9 N10 H101 49.0 300.0
C8 C9 N10 H102 291.4 60.0
H9A C9 C8 H9B 241.7 240.1
H8A C8 C7 H7A 284.5 180.0
H8A C8 C7 H7B 167.7 60.0
C7 C8 H8A C9 122.8 240.0
C7 C8 H8A H8B 241.4 120.0
C9 C8 H8A H8B 118.6 240.0
H8A C8 C9 N10 296.3 60.0
H8A C8 C9 H9A 57.1 180.0
H8A C8 C9 H9B 175.4 300.0
H8B C8 C7 H7A 166.7 300.0
H8B C8 C7 H7B 49.9 180.0
C7 C8 H8B C9 237.1 120.0
C7 C8 H8B H8A 118.6 240.0
C9 C8 H8B H8A 241.5 120.0
H8B C8 C9 N10 54.0 300.0
H8B C8 C9 H9A 174.9 60.0
H8B C8 C9 H9B 293.2 180.0
N10 C9 C8 H8A 296.3 60.0
N10 C9 C8 H8B 54.0 300.0
C8 C9 N10 H9A 120.9 120.0
C8 C9 N10 H9B 239.2 240.0
H9A C9 N10 H9B 118.3 119.9
C11 N10 C9 H101 121.2 240.0
C11 N10 C9 H102 238.8 120.0
C9 N10 C11 C12 176.9 180.0
C9 N10 C11 H111 55.7 300.0
C9 N10 C11 H112 298.0 60.0
H101 N10 C9 H102 117.7 239.9
H9A C9 C8 H8A 57.1 180.0
H9A C9 C8 H8B 174.9 60.0
C8 C9 H9A N10 238.4 240.0
C8 C9 H9A H9B 119.2 120.0
N10 C9 H9A H9B 240.8 240.0
H9A C9 N10 C11 49.3 60.0
H9A C9 N10 H101 288.2 179.9
H9A C9 N10 H102 170.5 300.0
H9B C9 C8 H8A 175.4 300.0
H9B C9 C8 H8B 293.2 180.0
C8 C9 H9B N10 121.5 120.0
C8 C9 H9B H9A 240.8 240.0
N10 C9 H9B H9A 119.3 120.0
H9B C9 N10 C11 291.0 300.0
H9B C9 N10 H101 169.8 60.0
H9B C9 N10 H102 52.2 180.1
C11 N10 C9 H9A 49.3 60.0
C11 N10 C9 H9B 291.0 300.0
C9 N10 C11 H101 238.9 120.0
C9 N10 C11 H102 121.2 240.0
H101 N10 C11 H102 242.3 120.0
C12 C11 N10 H111 121.1 240.0
C12 C11 N10 H112 238.9 120.0
N10 C11 C12 C13 186.1 180.0
N10 C11 C12 H121 307.7 300.0
N10 C11 C12 H122 64.5 60.0
H111 C11 N10 H112 117.7 240.0
H101 N10 C9 H9A 288.2 179.9
H101 N10 C9 H9B 169.8 60.0
C9 N10 H101 C11 123.2 240.0
C9 N10 H101 H102 241.6 120.1
C11 N10 H101 H102 118.4 240.0
H101 N10 C11 C12 298.0 60.0
H101 N10 C11 H111 176.9 180.0
H101 N10 C11 H112 59.1 300.0
H102 N10 C9 H9A 170.5 300.0
H102 N10 C9 H9B 52.2 180.1
C9 N10 H102 C11 236.8 120.0
C9 N10 H102 H101 118.4 239.9
C11 N10 H102 H101 241.6 120.0
H102 N10 C11 C12 55.7 300.0
H102 N10 C11 H111 294.5 60.0
H102 N10 C11 H112 176.8 180.0
C12 C11 N10 H101 298.0 60.0
C12 C11 N10 H102 55.7 300.0
N10 C11 C12 H111 238.8 120.0
N10 C11 C12 H112 121.2 240.0
H111 C11 C12 H112 242.3 120.0
C13 C12 C11 H121 238.4 240.0
C13 C12 C11 H122 121.6 120.0
C11 C12 C13 N14 291.3 180.0
C11 C12 C13 H131 169.6 300.0
C11 C12 C13 H132 52.9 60.0
H121 C12 C11 H122 243.2 240.0
H111 C11 N10 H101 176.9 180.0
H111 C11 N10 H102 294.5 60.0
N10 C11 H111 C12 123.0 240.0
N10 C11 H111 H112 241.5 120.0
C12 C11 H111 H112 118.4 240.0
H111 C11 C12 C13 307.3 60.0
H111 C11 C12 H121 68.9 180.0
H111 C11 C12 H122 185.7 300.0
H112 C11 N10 H101 59.1 300.0
H112 C11 N10 H102 176.8 180.0
N10 C11 H112 C12 236.9 120.0
N10 C11 H112 H111 118.5 240.0
C12 C11 H112 H111 241.6 120.0
H112 C11 C12 C13 64.9 300.0
H112 C11 C12 H121 186.5 60.0
H112 C11 C12 H122 303.3 180.0
C13 C12 C11 H111 307.3 60.0
C13 C12 C11 H112 64.9 300.0
C11 C12 C13 H121 121.6 120.0
C11 C12 C13 H122 238.4 240.0
H121 C12 C13 H122 116.9 120.0
N14 C13 C12 H131 121.7 240.0
N14 C13 C12 H132 238.3 120.0
C12 C13 N14 H141 179.3 300.0
C12 C13 N14 H142 59.2 60.0
C12 C13 N14 H143 299.3 180.0
H131 C13 C12 H132 116.6 240.0
H121 C12 C11 H111 68.9 180.0
H121 C12 C11 H112 186.5 60.0
C11 C12 H121 C13 235.0 240.0
C11 C12 H121 H122 117.4 120.0
C13 C12 H121 H122 242.5 240.0
H121 C12 C13 N14 169.7 60.0
H121 C12 C13 H131 48.0 180.0
H121 C12 C13 H132 291.4 300.0
H122 C12 C11 H111 185.7 300.0
H122 C12 C11 H112 303.3 180.0
C11 C12 H122 C13 125.0 120.0
C11 C12 H122 H121 242.6 240.0
C13 C12 H122 H121 117.6 120.0
H122 C12 C13 N14 52.8 300.0
H122 C12 C13 H131 291.1 60.0
H122 C12 C13 H132 174.5 180.0
N14 C13 C12 H121 169.7 60.0
N14 C13 C12 H122 52.8 300.0
C12 C13 N14 H131 238.3 120.0
C12 C13 N14 H132 121.6 240.0
H131 C13 N14 H132 243.3 120.0
H141 N14 C13 H142 120.0 240.0
H141 N14 C13 H143 240.0 120.0
H142 N14 C13 H143 120.0 240.0
H131 C13 C12 H121 48.0 180.0
H131 C13 C12 H122 291.1 60.0
C12 C13 H131 N14 125.4 240.0
C12 C13 H131 H132 242.7 120.0
N14 C13 H131 H132 117.4 240.0
H131 C13 N14 H141 300.9 180.0
H131 C13 N14 H142 180.9 300.0
H131 C13 N14 H143 61.0 60.0
H132 C13 C12 H121 291.4 300.0
H132 C13 C12 H122 174.5 180.0
C12 C13 H132 N14 234.7 120.0
C12 C13 H132 H131 117.3 240.0
N14 C13 H132 H131 242.6 120.0
H132 C13 N14 H141 57.6 60.0
H132 C13 N14 H142 297.6 180.0
H132 C13 N14 H143 177.6 300.0
H141 N14 C13 H131 300.9 180.0
H141 N14 C13 H132 57.6 60.0
C13 N14 H141 H142 240.0 120.0
C13 N14 H141 H143 120.0 240.0
H142 N14 H141 H143 240.0 120.0
H142 N14 C13 H131 180.9 300.0
H142 N14 C13 H132 297.6 180.0
C13 N14 H142 H141 120.0 240.0
C13 N14 H142 H143 240.1 120.0
H141 N14 H142 H143 120.0 240.0
H143 N14 C13 H131 61.0 60.0
H143 N14 C13 H132 177.6 300.0
C13 N14 H143 H141 240.0 120.0
C13 N14 H143 H142 120.0 240.0
H141 N14 H143 H142 240.0 120.1