PDB Chemical Component TBY

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 TBY

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C11 C10 1.527 1.530
C11 C12 1.514 1.530
C10 SN1 2.139 2.150
SN1 C2 2.138 2.150
SN1 C6 2.147 2.150
C2 C3 1.521 1.530
C3 C4 1.525 1.530
C4 C5 1.510 1.530
C6 C7 1.520 1.530
C7 C8 1.519 1.530
C8 C9 1.505 1.531
C12 C13 1.511 1.530
C11 H11 1.100 1.090
C11 H11A 1.100 1.090
C10 H10 1.100 1.090
C10 H10A 1.101 1.090
C2 H2 1.101 1.090
C2 H2A 1.100 1.090
C3 H3 1.100 1.090
C3 H3A 1.100 1.090
C4 H4 1.100 1.090
C4 H4A 1.100 1.090
C5 H5 1.100 1.090
C5 H5A 1.100 1.090
C5 H5B 1.100 1.091
C6 H6 1.100 1.090
C6 H6A 1.100 1.090
C7 H7 1.100 1.090
C7 H7A 1.100 1.090
C8 H8 1.100 1.090
C8 H8A 1.100 1.090
C9 H9 1.100 1.090
C9 H9A 1.100 1.090
C9 H9B 1.100 1.090
C12 H12 1.100 1.090
C12 H12A 1.100 1.090
C13 H13 1.100 1.090
C13 H13A 1.100 1.090
C13 H13B 1.100 1.090

Bond Angles for TBY

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C10 C11 C12 109.7 109.5
C11 C10 SN1 112.2 109.5
C10 C11 H11 109.4 109.4
C10 C11 H11A 109.3 109.4
C11 C10 H10 108.5 109.5
C11 C10 H10A 107.9 109.5
C11 C12 C13 111.3 109.5
C12 C11 H11 109.4 109.5
C12 C11 H11A 109.3 109.5
C11 C12 H12 108.9 109.5
C11 C12 H12A 108.5 109.5
C10 SN1 C2 107.7 120.0
C10 SN1 C6 97.0 120.0
SN1 C10 H10 108.5 109.5
SN1 C10 H10A 107.9 109.5
C2 SN1 C6 126.8 120.0
SN1 C2 C3 108.5 109.4
SN1 C2 H2 109.8 109.4
SN1 C2 H2A 110.0 109.4
SN1 C6 C7 110.0 109.5
SN1 C6 H6 109.3 109.5
SN1 C6 H6A 109.1 109.5
C2 C3 C4 108.8 109.5
C3 C2 H2 109.8 109.5
C3 C2 H2A 110.0 109.5
C2 C3 H3 109.7 109.5
C2 C3 H3A 109.8 109.5
C3 C4 C5 110.2 109.5
C4 C3 H3 109.7 109.5
C4 C3 H3A 109.8 109.5
C3 C4 H4 109.2 109.5
C3 C4 H4A 109.1 109.5
C5 C4 H4 109.2 109.5
C5 C4 H4A 109.1 109.5
C4 C5 H5 109.5 109.5
C4 C5 H5A 109.4 109.5
C4 C5 H5B 109.5 109.4
C6 C7 C8 111.5 109.4
C7 C6 H6 109.3 109.5
C7 C6 H6A 109.2 109.5
C6 C7 H7 108.8 109.5
C6 C7 H7A 108.3 109.5
C7 C8 C9 107.9 109.4
C8 C7 H7 108.8 109.5
C8 C7 H7A 108.3 109.5
C7 C8 H8 110.0 109.5
C7 C8 H8A 110.3 109.5
C9 C8 H8 110.0 109.5
C9 C8 H8A 110.3 109.5
C8 C9 H9 109.5 109.4
C8 C9 H9A 109.5 109.5
C8 C9 H9B 109.4 109.5
C13 C12 H12 108.9 109.5
C13 C12 H12A 108.4 109.5
C12 C13 H13 109.5 109.5
C12 C13 H13A 109.5 109.5
C12 C13 H13B 109.4 109.5
H11 C11 H11A 109.7 109.5
H10 C10 H10A 111.7 109.4
H2 C2 H2A 108.7 109.5
H3 C3 H3A 109.0 109.4
H4 C4 H4A 110.0 109.4
H5 C5 H5A 109.5 109.5
H5 C5 H5B 109.4 109.4
H5A C5 H5B 109.5 109.4
H6 C6 H6A 109.9 109.5
H7 C7 H7A 111.1 109.5
H8 C8 H8A 108.3 109.4
H9 C9 H9A 109.4 109.5
H9 C9 H9B 109.5 109.5
H9A C9 H9B 109.5 109.5
H12 C12 H12A 110.9 109.4
H13 C13 H13A 109.4 109.4
H13 C13 H13B 109.5 109.5
H13A C13 H13B 109.5 109.5

Torsion Angles for TBY

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C10 C11 C12 C13 176.4 180.0
C12 C11 C10 H11 240.0 240.0
C12 C11 C10 H11A 119.9 120.0
C10 C11 C12 H12 296.4 300.0
C10 C11 C12 H12A 57.2 60.0
C11 C10 SN1 C2 269.2 180.0
C11 C10 SN1 C6 41.5 -0.0
SN1 C10 C11 H10 240.0 240.0
SN1 C10 C11 H10A 118.8 120.0
H11 C11 C10 H11A 239.9 240.0
H10 C10 C11 H10A 238.8 240.0
C12 C11 C10 SN1 186.8 180.0
C10 C11 C12 H11 120.0 120.0
C10 C11 C12 H11A 240.1 240.0
C12 C11 C10 H10 306.7 300.0
C12 C11 C10 H10A 67.9 60.0
C13 C12 C11 H12 240.0 240.0
C13 C12 C11 H12A 119.2 120.0
C11 C12 C13 H13 119.0 300.0
C11 C12 C13 H13A 238.9 60.0
C11 C12 C13 H13B 359.0 180.0
H11 C11 C12 H11A 120.1 120.1
H12 C12 C11 H12A 239.2 240.0
SN1 C10 C11 C12 186.8 180.0
SN1 C10 C11 H11 306.7 300.0
SN1 C10 C11 H11A 66.9 60.0
C11 C10 SN1 H10 120.0 120.0
C11 C10 SN1 H10A 241.2 240.0
C2 SN1 C10 C6 227.7 180.0
C10 SN1 C2 C3 17.3 180.0
C10 SN1 C2 H2 137.3 300.0
C10 SN1 C2 H2A 256.9 60.0
C10 SN1 C6 C7 149.5 180.0
C10 SN1 C6 H6 269.5 300.0
C10 SN1 C6 H6A 29.7 60.0
H10 C10 SN1 H10A 121.2 120.0
C10 SN1 C2 C6 113.5 180.0
C2 SN1 C10 H10 149.2 60.0
C2 SN1 C10 H10A 28.0 300.0
C2 SN1 C6 C7 267.8 360.0
C2 SN1 C6 H6 27.8 120.0
C2 SN1 C6 H6A 148.0 240.0
SN1 C2 C3 C4 80.3 180.0
C3 C2 SN1 H2 240.0 240.0
C3 C2 SN1 H2A 120.4 120.0
SN1 C2 C3 H3 200.3 300.0
SN1 C2 C3 H3A 320.0 60.0
H2 C2 SN1 H2A 240.4 240.0
C10 SN1 C6 C2 241.7 180.0
C6 SN1 C10 H10 281.5 240.0
C6 SN1 C10 H10A 160.3 120.0
C6 SN1 C2 C3 263.7 -0.0
C6 SN1 C2 H2 23.8 120.0
C6 SN1 C2 H2A 143.4 240.0
SN1 C6 C7 C8 233.8 180.0
C7 C6 SN1 H6 240.0 240.0
C7 C6 SN1 H6A 119.8 120.0
SN1 C6 C7 H7 353.8 300.0
SN1 C6 C7 H7A 114.6 60.0
H6 C6 SN1 H6A 239.8 240.0
C3 C2 SN1 C6 263.7 -0.0
SN1 C2 C3 H2 120.0 120.0
SN1 C2 C3 H2A 239.6 240.0
C2 C3 C4 C5 185.6 180.0
C4 C3 C2 H3 240.0 240.0
C4 C3 C2 H3A 120.3 120.0
C2 C3 C4 H4 305.6 300.0
C2 C3 C4 H4A 65.9 60.0
H2 C2 C3 H2A 119.6 120.1
H3 C3 C2 H3A 240.3 240.0
C4 C3 C2 H2 320.3 60.0
C4 C3 C2 H2A 200.7 300.0
C2 C3 C4 H3 120.0 120.0
C2 C3 C4 H3A 239.7 240.0
C5 C4 C3 H4 240.0 240.0
C5 C4 C3 H4A 119.7 120.0
C3 C4 C5 H5 315.3 300.0
C3 C4 C5 H5A 75.3 60.0
C3 C4 C5 H5B 195.3 180.0
H3 C3 C4 H3A 119.7 119.9
H4 C4 C3 H4A 239.7 240.1
C5 C4 C3 H3 65.6 60.0
C5 C4 C3 H3A 305.9 300.0
C3 C4 C5 H4 120.0 120.0
C3 C4 C5 H4A 240.3 240.0
H4 C4 C5 H4A 120.3 120.0
H5 C5 C4 H5A 240.0 239.9
H5 C5 C4 H5B 120.0 120.0
H5A C5 C4 H5B 240.0 240.0
SN1 C6 C7 H6 120.0 120.0
SN1 C6 C7 H6A 240.3 240.0
C6 C7 C8 C9 130.6 180.0
C8 C7 C6 H7 240.0 240.0
C8 C7 C6 H7A 119.1 120.0
C6 C7 C8 H8 250.6 300.0
C6 C7 C8 H8A 10.0 60.0
H6 C6 C7 H6A 120.3 120.0
H7 C7 C6 H7A 239.1 240.0
C8 C7 C6 H6 113.8 60.0
C8 C7 C6 H6A 353.5 300.0
C6 C7 C8 H7 120.0 120.0
C6 C7 C8 H7A 240.9 240.0
C9 C8 C7 H8 240.0 240.0
C9 C8 C7 H8A 120.6 120.0
C7 C8 C9 H9 252.7 180.0
C7 C8 C9 H9A 12.6 300.0
C7 C8 C9 H9B 132.6 60.0
H7 C7 C8 H7A 120.9 120.0
H8 C8 C7 H8A 240.6 240.0
C9 C8 C7 H7 10.6 60.0
C9 C8 C7 H7A 249.7 300.0
C7 C8 C9 H8 120.0 120.0
C7 C8 C9 H8A 239.4 240.0
H8 C8 C9 H8A 119.4 120.0
H9 C9 C8 H9A 240.0 240.0
H9 C9 C8 H9B 120.0 120.0
H9A C9 C8 H9B 240.0 240.0
C13 C12 C11 H11 56.4 60.0
C13 C12 C11 H11A 296.3 300.0
C11 C12 C13 H12 120.0 120.0
C11 C12 C13 H12A 240.8 240.0
H12 C12 C13 H12A 120.8 120.0
H13 C13 C12 H13A 240.0 240.0
H13 C13 C12 H13B 120.0 120.0
H13A C13 C12 H13B 240.0 240.0
C10 C11 H11 C12 239.8 240.0
H11 C11 C10 SN1 306.7 300.0
C10 C11 H11 H11A 119.9 120.0
H11 C11 C10 H10 66.7 60.0
H11 C11 C10 H10A 187.9 180.0
H11 C11 C12 C13 56.4 60.0
C12 C11 H11 H11A 240.1 240.0
H11 C11 C12 H12 176.4 180.0
H11 C11 C12 H12A 297.2 300.0
C10 C11 H11A C12 120.1 120.0
H11A C11 C10 SN1 66.9 60.0
C10 C11 H11A H11 240.0 240.0
H11A C11 C10 H10 186.9 180.0
H11A C11 C10 H10A 308.0 300.0
H11A C11 C12 C13 296.3 300.0
C12 C11 H11A H11 119.9 120.0
H11A C11 C12 H12 56.3 60.0
H11A C11 C12 H12A 177.1 180.0
H10 C10 C11 C12 306.7 300.0
C11 C10 H10 SN1 237.7 240.0
H10 C10 C11 H11 66.7 60.0
H10 C10 C11 H11A 186.9 180.0
C11 C10 H10 H10A 118.9 120.0
H10 C10 SN1 C2 149.2 60.0
H10 C10 SN1 C6 281.5 240.0
SN1 C10 H10 H10A 241.1 240.0
H10A C10 C11 C12 67.9 60.0
C11 C10 H10A SN1 121.5 120.0
H10A C10 C11 H11 187.9 180.0
H10A C10 C11 H11A 308.0 300.0
C11 C10 H10A H10 240.8 240.0
H10A C10 SN1 C2 28.0 300.0
H10A C10 SN1 C6 160.3 120.0
SN1 C10 H10A H10 119.2 120.0
H2 C2 SN1 C6 23.8 120.0
SN1 C2 H2 C3 240.8 240.0
SN1 C2 H2 H2A 120.4 120.0
H2 C2 C3 C4 320.3 60.0
C3 C2 H2 H2A 239.6 239.9
H2 C2 C3 H3 80.3 180.0
H2 C2 C3 H3A 200.0 300.0
H2A C2 SN1 C6 143.4 240.0
SN1 C2 H2A C3 119.5 120.0
SN1 C2 H2A H2 239.7 240.0
H2A C2 C3 C4 200.7 300.0
C3 C2 H2A H2 120.3 120.1
H2A C2 C3 H3 320.7 60.0
H2A C2 C3 H3A 80.4 180.0
C2 C3 H3 C4 240.5 240.0
H3 C3 C2 H2 80.3 180.0
H3 C3 C2 H2A 320.7 60.0
C2 C3 H3 H3A 120.3 120.1
H3 C3 C4 C5 65.6 60.0
C4 C3 H3 H3A 239.7 240.1
H3 C3 C4 H4 185.6 180.0
H3 C3 C4 H4A 305.9 299.9
C2 C3 H3A C4 119.7 120.0
H3A C3 C2 H2 200.0 300.0
H3A C3 C2 H2A 80.4 180.0
C2 C3 H3A H3 239.8 239.9
H3A C3 C4 C5 305.9 300.0
C4 C3 H3A H3 120.2 119.9
H3A C3 C4 H4 65.9 60.1
H3A C3 C4 H4A 186.2 180.0
C3 C4 H4 C5 239.4 240.0
H4 C4 C3 H3 185.6 180.0
H4 C4 C3 H3A 65.9 60.1
C3 C4 H4 H4A 119.7 119.9
C5 C4 H4 H4A 240.3 239.9
H4 C4 C5 H5 195.3 180.0
H4 C4 C5 H5A 315.3 300.0
H4 C4 C5 H5B 75.3 60.0
C3 C4 H4A C5 120.4 120.0
H4A C4 C3 H3 305.9 299.9
H4A C4 C3 H3A 186.2 180.0
C3 C4 H4A H4 240.2 240.1
C5 C4 H4A H4 119.8 120.1
H4A C4 C5 H5 75.0 60.0
H4A C4 C5 H5A 195.0 180.0
H4A C4 C5 H5B 315.0 300.0
H5 C5 C4 H4 195.3 180.0
H5 C5 C4 H4A 75.0 60.0
C4 C5 H5 H5A 120.0 120.1
C4 C5 H5 H5B 240.0 240.0
H5A C5 H5 H5B 120.0 120.0
H5A C5 C4 H4 315.3 300.0
H5A C5 C4 H4A 195.0 180.0
C4 C5 H5A H5 240.0 239.9
C4 C5 H5A H5B 120.0 120.0
H5 C5 H5A H5B 240.0 240.0
H5B C5 C4 H4 75.3 60.0
H5B C5 C4 H4A 315.0 300.0
C4 C5 H5B H5 120.0 120.0
C4 C5 H5B H5A 240.0 240.0
H5 C5 H5B H5A 120.0 120.0
SN1 C6 H6 C7 239.5 240.0
SN1 C6 H6 H6A 119.7 120.0
H6 C6 C7 C8 113.8 60.0
C7 C6 H6 H6A 240.2 240.0
H6 C6 C7 H7 233.8 180.0
H6 C6 C7 H7A 354.6 300.0
SN1 C6 H6A C7 120.3 120.0
SN1 C6 H6A H6 240.2 240.0
H6A C6 C7 C8 353.5 300.0
C7 C6 H6A H6 119.9 120.0
H6A C6 C7 H7 113.5 60.0
H6A C6 C7 H7A 234.4 180.0
C6 C7 H7 C8 238.3 240.0
H7 C7 C6 H6 233.8 180.0
H7 C7 C6 H6A 113.5 60.0
C6 C7 H7 H7A 119.1 120.0
H7 C7 C8 C9 10.6 60.0
C8 C7 H7 H7A 240.8 240.0
H7 C7 C8 H8 130.6 180.0
H7 C7 C8 H8A 250.0 300.0
C6 C7 H7A C8 121.1 120.0
H7A C7 C6 H6 354.6 300.0
H7A C7 C6 H6A 234.4 180.0
C6 C7 H7A H7 240.6 240.0
H7A C7 C8 C9 249.7 300.0
C8 C7 H7A H7 119.4 120.0
H7A C7 C8 H8 9.7 60.0
H7A C7 C8 H8A 129.1 180.0
C7 C8 H8 C9 241.2 240.0
H8 C8 C7 H7 130.6 180.0
H8 C8 C7 H7A 9.7 60.0
C7 C8 H8 H8A 120.6 120.1
C9 C8 H8 H8A 239.4 240.0
H8 C8 C9 H9 132.7 60.0
H8 C8 C9 H9A 252.6 180.0
H8 C8 C9 H9B 12.6 300.0
C7 C8 H8A C9 119.2 120.0
H8A C8 C7 H7 250.0 300.0
H8A C8 C7 H7A 129.1 180.0
C7 C8 H8A H8 239.6 239.9
C9 C8 H8A H8 120.4 120.0
H8A C8 C9 H9 13.3 300.0
H8A C8 C9 H9A 133.2 60.0
H8A C8 C9 H9B 253.2 180.0
H9 C9 C8 H8 132.7 60.0
H9 C9 C8 H8A 13.3 300.0
C8 C9 H9 H9A 120.0 120.0
C8 C9 H9 H9B 240.0 240.0
H9A C9 H9 H9B 120.0 120.0
H9A C9 C8 H8 252.6 180.0
H9A C9 C8 H8A 133.2 60.0
C8 C9 H9A H9 240.0 240.1
C8 C9 H9A H9B 120.0 120.0
H9 C9 H9A H9B 240.0 240.0
H9B C9 C8 H8 12.6 300.0
H9B C9 C8 H8A 253.2 180.0
C8 C9 H9B H9 120.0 119.9
C8 C9 H9B H9A 240.0 240.0
H9 C9 H9B H9A 120.0 120.0
C11 C12 H12 C13 238.5 240.0
H12 C12 C11 H11 176.4 180.0
H12 C12 C11 H11A 56.3 60.0
C11 C12 H12 H12A 119.3 120.0
C13 C12 H12 H12A 240.8 240.0
H12 C12 C13 H13 358.9 180.0
H12 C12 C13 H13A 118.9 300.0
H12 C12 C13 H13B 238.9 60.0
C11 C12 H12A C13 121.0 120.0
H12A C12 C11 H11 297.2 300.0
H12A C12 C11 H11A 177.1 180.0
C11 C12 H12A H12 240.5 240.0
C13 C12 H12A H12 119.5 120.0
H12A C12 C13 H13 238.2 60.0
H12A C12 C13 H13A 358.1 180.0
H12A C12 C13 H13B 118.2 300.0
H13 C13 C12 H12 358.9 180.0
H13 C13 C12 H12A 238.2 60.0
C12 C13 H13 H13A 120.0 120.0
C12 C13 H13 H13B 240.0 240.0
H13A C13 H13 H13B 120.0 120.0
H13A C13 C12 H12 118.9 300.0
H13A C13 C12 H12A 358.1 180.0
C12 C13 H13A H13 240.0 240.0
C12 C13 H13A H13B 120.0 120.0
H13 C13 H13A H13B 240.0 240.0
H13B C13 C12 H12 238.9 60.0
H13B C13 C12 H12A 118.2 300.0
C12 C13 H13B H13 120.0 120.0
C12 C13 H13B H13A 240.0 240.0
H13 C13 H13B H13A 120.0 120.0