PDB Chemical Component TRD

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 TRD

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C1 C2 1.504 1.530
C1 H11 1.115 1.090
C1 H12 1.115 1.090
C1 H13 1.116 1.090
C2 C3 1.505 1.530
C2 H21 1.115 1.090
C2 H22 1.114 1.090
C3 C4 1.501 1.530
C3 H31 1.115 1.090
C3 H32 1.116 1.090
C4 C5 1.503 1.530
C4 H41 1.115 1.090
C4 H42 1.115 1.090
C5 C6 1.489 1.530
C5 H51 1.116 1.090
C5 H52 1.116 1.090
C6 C7 1.496 1.530
C6 H61 1.115 1.090
C6 H62 1.114 1.090
C7 C8 1.496 1.530
C7 H71 1.115 1.090
C7 H72 1.115 1.090
C8 C9 1.496 1.530
C8 H81 1.114 1.090
C8 H82 1.115 1.090
C9 C10 1.507 1.530
C9 H91 1.116 1.090
C9 H92 1.115 1.090
C10 C11 1.505 1.530
C10 H101 1.115 1.090
C10 H102 1.115 1.090
C11 C12 1.509 1.530
C11 H111 1.116 1.090
C11 H112 1.114 1.090
C12 C13 1.500 1.530
C12 H121 1.114 1.090
C12 H122 1.115 1.090
C13 H131 1.114 1.090
C13 H132 1.116 1.090
C13 H133 1.115 1.090

Bond Angles for TRD

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 C1 H11 114.6 109.5
C2 C1 H12 110.3 109.5
C2 C1 H13 110.4 109.5
C1 C2 C3 114.6 109.5
C1 C2 H21 110.3 109.5
C1 C2 H22 110.3 109.5
H11 C1 H12 110.3 109.5
H11 C1 H13 110.4 109.5
H12 C1 H13 99.9 109.5
C3 C2 H21 110.3 109.5
C3 C2 H22 110.4 109.5
C2 C3 C4 115.9 109.5
C2 C3 H31 109.9 109.5
C2 C3 H32 109.9 109.5
H21 C2 H22 100.0 109.5
C4 C3 H31 109.9 109.5
C4 C3 H32 109.9 109.5
C3 C4 C5 115.5 109.5
C3 C4 H41 110.0 109.5
C3 C4 H42 110.0 109.5
H31 C3 H32 100.3 109.5
C5 C4 H41 110.0 109.5
C5 C4 H42 110.0 109.5
C4 C5 C6 114.2 109.5
C4 C5 H51 110.5 109.5
C4 C5 H52 110.5 109.5
H41 C4 H42 100.2 109.5
C6 C5 H51 110.5 109.5
C6 C5 H52 110.5 109.5
C5 C6 C7 116.9 109.5
C5 C6 H61 109.5 109.5
C5 C6 H62 109.5 109.5
H51 C5 H52 99.8 109.5
C7 C6 H61 109.5 109.5
C7 C6 H62 109.5 109.5
C6 C7 C8 113.5 109.5
C6 C7 H71 110.8 109.5
C6 C7 H72 110.8 109.5
H61 C6 H62 100.7 109.5
C8 C7 H71 110.8 109.5
C8 C7 H72 110.8 109.5
C7 C8 C9 116.5 109.5
C7 C8 H81 109.7 109.5
C7 C8 H82 109.7 109.5
H71 C7 H72 99.5 109.5
C9 C8 H81 109.7 109.5
C9 C8 H82 109.7 109.5
C8 C9 C10 114.9 109.5
C8 C9 H91 110.2 109.5
C8 C9 H92 110.2 109.5
H81 C8 H82 100.5 109.5
C10 C9 H91 110.2 109.5
C10 C9 H92 110.2 109.5
C9 C10 C11 115.8 109.5
C9 C10 H101 109.9 109.5
C9 C10 H102 109.9 109.5
H91 C9 H92 100.0 109.5
C11 C10 H101 109.9 109.5
C11 C10 H102 109.9 109.5
C10 C11 C12 116.4 109.5
C10 C11 H111 109.7 109.5
C10 C11 H112 109.7 109.5
H101 C10 H102 100.3 109.5
C12 C11 H111 109.7 109.5
C12 C11 H112 109.8 109.5
C11 C12 C13 114.4 109.5
C11 C12 H121 110.4 109.5
C11 C12 H122 110.4 109.5
H111 C11 H112 100.5 109.5
C13 C12 H121 110.5 109.5
C13 C12 H122 110.4 109.5
C12 C13 H131 114.4 109.5
C12 C13 H132 110.4 109.5
C12 C13 H133 110.4 109.5
H121 C12 H122 99.8 109.5
H131 C13 H132 110.4 109.5
H131 C13 H133 110.5 109.5
H132 C13 H133 99.9 109.5

Torsion Angles for TRD

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
H11 C1 C2 H12 234.7 240.0
H11 C1 C2 H13 125.3 120.0
H12 C1 C2 H13 250.6 240.0
C3 C2 C1 H21 234.8 240.0
C3 C2 C1 H22 125.3 120.0
C1 C2 C3 C4 209.8 180.0
C1 C2 C3 H31 335.1 300.0
C1 C2 C3 H32 84.5 60.0
H21 C2 C1 H22 250.5 240.0
C2 C1 H11 H12 125.3 120.0
C2 C1 H11 H13 234.7 240.0
H11 C1 C2 C3 180.0 60.0
H11 C1 C2 H21 305.2 180.0
H11 C1 C2 H22 54.8 300.0
H12 C1 H11 H13 109.4 120.0
C2 C1 H12 H11 232.3 240.0
C2 C1 H12 H13 116.2 120.0
H12 C1 C2 C3 305.3 180.0
H12 C1 C2 H21 70.5 300.0
H12 C1 C2 H22 180.0 60.0
H11 C1 H12 H13 243.8 240.0
C2 C1 H13 H11 127.7 120.0
C2 C1 H13 H12 243.8 240.0
H13 C1 C2 C3 54.7 300.0
H13 C1 C2 H21 179.9 60.0
H13 C1 C2 H22 289.4 180.0
H11 C1 H13 H12 116.2 120.0
C3 C2 C1 H11 180.0 60.0
C3 C2 C1 H12 305.3 180.0
C3 C2 C1 H13 54.7 300.0
C1 C2 C3 H21 125.2 120.0
C1 C2 C3 H22 234.8 240.0
H21 C2 C3 H22 109.5 120.0
C4 C3 C2 H31 234.7 240.0
C4 C3 C2 H32 125.3 120.0
C2 C3 C4 C5 206.5 180.0
C2 C3 C4 H41 331.8 300.0
C2 C3 C4 H42 81.3 60.0
H31 C3 C2 H32 250.6 240.0
H21 C2 C1 H11 305.2 180.0
H21 C2 C1 H12 70.5 300.0
H21 C2 C1 H13 179.9 60.0
C1 C2 H21 C3 232.4 240.0
C1 C2 H21 H22 116.2 120.0
C3 C2 H21 H22 243.8 240.0
H21 C2 C3 C4 84.6 60.0
H21 C2 C3 H31 209.9 180.0
H21 C2 C3 H32 319.3 300.0
H22 C2 C1 H11 54.8 300.0
H22 C2 C1 H12 180.0 60.0
H22 C2 C1 H13 289.4 180.0
C1 C2 H22 C3 127.6 120.0
C1 C2 H22 H21 243.8 240.0
C3 C2 H22 H21 116.2 120.0
H22 C2 C3 C4 335.0 300.0
H22 C2 C3 H31 100.3 60.0
H22 C2 C3 H32 209.7 180.0
C4 C3 C2 H21 84.6 60.0
C4 C3 C2 H22 335.0 300.0
C2 C3 C4 H31 125.3 120.0
C2 C3 C4 H32 234.7 240.0
H31 C3 C4 H32 109.4 120.0
C5 C4 C3 H41 234.7 240.0
C5 C4 C3 H42 125.2 120.0
C3 C4 C5 C6 179.7 180.0
C3 C4 C5 H51 305.0 300.0
C3 C4 C5 H52 54.4 60.0
H41 C4 C3 H42 250.5 240.0
H31 C3 C2 H21 209.9 180.0
H31 C3 C2 H22 100.3 60.0
C2 C3 H31 C4 231.3 240.0
C2 C3 H31 H32 115.7 120.0
C4 C3 H31 H32 244.4 240.0
H31 C3 C4 C5 81.2 60.0
H31 C3 C4 H41 206.4 180.0
H31 C3 C4 H42 315.9 300.0
H32 C3 C2 H21 319.3 300.0
H32 C3 C2 H22 209.7 180.0
C2 C3 H32 C4 128.7 120.0
C2 C3 H32 H31 244.3 240.0
C4 C3 H32 H31 115.7 120.0
H32 C3 C4 C5 331.8 300.0
H32 C3 C4 H41 97.0 60.0
H32 C3 C4 H42 206.5 180.0
C5 C4 C3 H31 81.2 60.0
C5 C4 C3 H32 331.8 300.0
C3 C4 C5 H41 125.3 120.0
C3 C4 C5 H42 234.8 240.0
H41 C4 C5 H42 109.5 120.0
C6 C5 C4 H51 234.7 240.0
C6 C5 C4 H52 125.3 120.0
C4 C5 C6 C7 136.1 180.0
C4 C5 C6 H61 261.4 300.0
C4 C5 C6 H62 10.9 60.0
H51 C5 C4 H52 250.6 240.0
H41 C4 C3 H31 206.4 180.0
H41 C4 C3 H32 97.0 60.0
C3 C4 H41 C5 231.6 240.0
C3 C4 H41 H42 115.8 120.0
C5 C4 H41 H42 244.2 240.0
H41 C4 C5 C6 54.5 60.0
H41 C4 C5 H51 179.7 180.0
H41 C4 C5 H52 289.2 300.0
H42 C4 C3 H31 315.9 300.0
H42 C4 C3 H32 206.5 180.0
C3 C4 H42 C5 128.3 120.0
C3 C4 H42 H41 244.2 240.0
C5 C4 H42 H41 115.8 120.0
H42 C4 C5 C6 305.0 300.0
H42 C4 C5 H51 70.2 60.0
H42 C4 C5 H52 179.7 180.0
C6 C5 C4 H41 54.5 60.0
C6 C5 C4 H42 305.0 300.0
C4 C5 C6 H51 125.3 120.0
C4 C5 C6 H52 234.7 240.0
H51 C5 C6 H52 109.4 120.0
C7 C6 C5 H61 234.8 240.0
C7 C6 C5 H62 125.2 120.0
C5 C6 C7 C8 180.4 180.0
C5 C6 C7 H71 305.8 300.0
C5 C6 C7 H72 55.2 60.0
H61 C6 C5 H62 250.5 240.0
H51 C5 C4 H41 179.7 180.0
H51 C5 C4 H42 70.2 60.0
C4 C5 H51 C6 232.6 240.0
C4 C5 H51 H52 116.3 120.0
C6 C5 H51 H52 243.7 240.0
H51 C5 C6 C7 10.9 60.0
H51 C5 C6 H61 136.1 180.0
H51 C5 C6 H62 245.6 300.0
H52 C5 C4 H41 289.2 300.0
H52 C5 C4 H42 179.7 180.0
C4 C5 H52 C6 127.4 120.0
C4 C5 H52 H51 243.7 240.0
C6 C5 H52 H51 116.3 120.0
H52 C5 C6 C7 261.4 300.0
H52 C5 C6 H61 26.7 60.0
H52 C5 C6 H62 136.2 180.0
C7 C6 C5 H51 10.9 60.0
C7 C6 C5 H52 261.4 300.0
C5 C6 C7 H61 125.2 120.0
C5 C6 C7 H62 234.8 240.0
H61 C6 C7 H62 109.6 120.0
C8 C7 C6 H71 234.7 240.0
C8 C7 C6 H72 125.3 120.0
C6 C7 C8 C9 190.7 180.0
C6 C7 C8 H81 316.0 300.0
C6 C7 C8 H82 65.5 60.0
H71 C7 C6 H72 250.6 240.0
H61 C6 C5 H51 136.1 180.0
H61 C6 C5 H52 26.7 60.0
C5 C6 H61 C7 230.6 240.0
C5 C6 H61 H62 115.3 120.0
C7 C6 H61 H62 244.7 240.0
H61 C6 C7 C8 55.2 60.0
H61 C6 C7 H71 180.5 180.0
H61 C6 C7 H72 289.9 300.0
H62 C6 C5 H51 245.6 300.0
H62 C6 C5 H52 136.2 180.0
C5 C6 H62 C7 129.4 120.0
C5 C6 H62 H61 244.7 240.0
C7 C6 H62 H61 115.3 120.0
H62 C6 C7 C8 305.7 300.0
H62 C6 C7 H71 71.0 60.0
H62 C6 C7 H72 180.4 180.0
C8 C7 C6 H61 55.2 60.0
C8 C7 C6 H62 305.7 300.0
C6 C7 C8 H71 125.3 120.0
C6 C7 C8 H72 234.7 240.0
H71 C7 C8 H72 109.4 120.0
C9 C8 C7 H81 234.8 240.0
C9 C8 C7 H82 125.2 120.0
C7 C8 C9 C10 180.2 180.0
C7 C8 C9 H91 305.4 300.0
C7 C8 C9 H92 54.9 60.0
H81 C8 C7 H82 250.5 240.0
H71 C7 C6 H61 180.5 180.0
H71 C7 C6 H62 71.0 60.0
C6 C7 H71 C8 233.2 240.0
C6 C7 H71 H72 116.6 120.0
C8 C7 H71 H72 243.4 240.0
H71 C7 C8 C9 65.4 60.0
H71 C7 C8 H81 190.6 180.0
H71 C7 C8 H82 300.2 300.0
H72 C7 C6 H61 289.9 300.0
H72 C7 C6 H62 180.4 180.0
C6 C7 H72 C8 126.8 120.0
C6 C7 H72 H71 243.4 240.0
C8 C7 H72 H71 116.6 120.0
H72 C7 C8 C9 316.0 300.0
H72 C7 C8 H81 81.3 60.0
H72 C7 C8 H82 190.8 180.0
C9 C8 C7 H71 65.4 60.0
C9 C8 C7 H72 316.0 300.0
C7 C8 C9 H81 125.2 120.0
C7 C8 C9 H82 234.8 240.0
H81 C8 C9 H82 109.5 120.0
C10 C9 C8 H91 234.7 240.0
C10 C9 C8 H92 125.3 120.0
C8 C9 C10 C11 295.2 180.0
C8 C9 C10 H101 60.5 300.0
C8 C9 C10 H102 170.0 60.0
H91 C9 C8 H92 250.5 240.0
H81 C8 C7 H71 190.6 180.0
H81 C8 C7 H72 81.3 60.0
C7 C8 H81 C9 230.9 240.0
C7 C8 H81 H82 115.5 120.0
C9 C8 H81 H82 244.5 240.0
H81 C8 C9 C10 54.9 60.0
H81 C8 C9 H91 180.2 180.0
H81 C8 C9 H92 289.6 300.0
H82 C8 C7 H71 300.2 300.0
H82 C8 C7 H72 190.8 180.0
C7 C8 H82 C9 129.1 120.0
C7 C8 H82 H81 244.5 240.0
C9 C8 H82 H81 115.5 120.0
H82 C8 C9 C10 305.4 300.0
H82 C8 C9 H91 70.7 60.0
H82 C8 C9 H92 180.1 180.0
C10 C9 C8 H81 54.9 60.0
C10 C9 C8 H82 305.4 300.0
C8 C9 C10 H91 125.3 120.0
C8 C9 C10 H92 234.7 240.0
H91 C9 C10 H92 109.4 120.0
C11 C10 C9 H101 234.7 240.0
C11 C10 C9 H102 125.2 120.0
C9 C10 C11 C12 180.1 180.0
C9 C10 C11 H111 305.3 300.0
C9 C10 C11 H112 54.8 60.0
H101 C10 C9 H102 250.5 240.0
H91 C9 C8 H81 180.2 180.0
H91 C9 C8 H82 70.7 60.0
C8 C9 H91 C10 232.1 240.0
C8 C9 H91 H92 116.1 120.0
C10 C9 H91 H92 244.0 240.0
H91 C9 C10 C11 169.9 60.0
H91 C9 C10 H101 295.2 180.0
H91 C9 C10 H102 44.7 300.0
H92 C9 C8 H81 289.6 300.0
H92 C9 C8 H82 180.1 180.0
C8 C9 H92 C10 127.9 120.0
C8 C9 H92 H91 243.9 240.0
C10 C9 H92 H91 116.0 120.0
H92 C9 C10 C11 60.4 300.0
H92 C9 C10 H101 185.7 60.0
H92 C9 C10 H102 295.2 180.0
C11 C10 C9 H91 169.9 60.0
C11 C10 C9 H92 60.4 300.0
C9 C10 C11 H101 125.3 120.0
C9 C10 C11 H102 234.8 240.0
H101 C10 C11 H102 109.5 120.0
C12 C11 C10 H111 234.8 240.0
C12 C11 C10 H112 125.3 120.0
C10 C11 C12 C13 173.5 180.0
C10 C11 C12 H121 298.8 300.0
C10 C11 C12 H122 48.2 60.0
H111 C11 C10 H112 250.5 240.0
H101 C10 C9 H91 295.2 180.0
H101 C10 C9 H92 185.7 60.0
C9 C10 H101 C11 231.4 240.0
C9 C10 H101 H102 115.7 120.0
C11 C10 H101 H102 244.3 240.0
H101 C10 C11 C12 54.8 60.0
H101 C10 C11 H111 180.1 180.0
H101 C10 C11 H112 289.5 300.0
H102 C10 C9 H91 44.7 300.0
H102 C10 C9 H92 295.2 180.0
C9 C10 H102 C11 128.5 120.0
C9 C10 H102 H101 244.3 240.0
C11 C10 H102 H101 115.8 120.0
H102 C10 C11 C12 305.3 300.0
H102 C10 C11 H111 70.5 60.0
H102 C10 C11 H112 180.0 180.0
C12 C11 C10 H101 54.8 60.0
C12 C11 C10 H102 305.3 300.0
C10 C11 C12 H111 125.2 120.0
C10 C11 C12 H112 234.7 240.0
H111 C11 C12 H112 109.5 120.0
C13 C12 C11 H121 234.7 240.0
C13 C12 C11 H122 125.3 120.0
C11 C12 C13 H131 180.0 180.0
C11 C12 C13 H132 305.3 300.0
C11 C12 C13 H133 54.7 60.0
H121 C12 C11 H122 250.6 240.0
H111 C11 C10 H101 180.1 180.0
H111 C11 C10 H102 70.5 60.0
C10 C11 H111 C12 231.0 240.0
C10 C11 H111 H112 115.4 120.0
C12 C11 H111 H112 244.4 240.0
H111 C11 C12 C13 48.3 60.0
H111 C11 C12 H121 173.6 180.0
H111 C11 C12 H122 283.0 300.0
H112 C11 C10 H101 289.5 300.0
H112 C11 C10 H102 180.0 180.0
C10 C11 H112 C12 129.0 120.0
C10 C11 H112 H111 244.6 240.0
C12 C11 H112 H111 115.5 120.0
H112 C11 C12 C13 298.8 300.0
H112 C11 C12 H121 64.1 60.0
H112 C11 C12 H122 173.5 180.0
C13 C12 C11 H111 48.3 60.0
C13 C12 C11 H112 298.8 300.0
C11 C12 C13 H121 125.3 120.0
C11 C12 C13 H122 234.8 240.0
H121 C12 C13 H122 109.5 120.0
H131 C13 C12 H132 234.8 240.0
H131 C13 C12 H133 125.3 120.0
H132 C13 C12 H133 250.6 240.0
H121 C12 C11 H111 173.6 180.0
H121 C12 C11 H112 64.1 60.0
C11 C12 H121 C13 232.5 240.0
C11 C12 H121 H122 116.2 120.0
C13 C12 H121 H122 243.7 240.0
H121 C12 C13 H131 54.8 60.0
H121 C12 C13 H132 180.0 180.0
H121 C12 C13 H133 289.4 300.0
H122 C12 C11 H111 283.0 300.0
H122 C12 C11 H112 173.5 180.0
C11 C12 H122 C13 127.5 120.0
C11 C12 H122 H121 243.8 240.0
C13 C12 H122 H121 116.3 120.0
H122 C12 C13 H131 305.3 300.0
H122 C12 C13 H132 70.5 60.0
H122 C12 C13 H133 180.0 180.0
H131 C13 C12 H121 54.8 60.0
H131 C13 C12 H122 305.3 300.0
C12 C13 H131 H132 125.2 120.0
C12 C13 H131 H133 234.7 240.0
H132 C13 H131 H133 109.5 120.0
H132 C13 C12 H121 180.0 180.0
H132 C13 C12 H122 70.5 60.0
C12 C13 H132 H131 232.5 240.0
C12 C13 H132 H133 116.2 120.0
H131 C13 H132 H133 243.7 240.0
H133 C13 C12 H121 289.4 300.0
H133 C13 C12 H122 180.0 180.0
C12 C13 H133 H131 127.5 120.0
C12 C13 H133 H132 243.8 240.0
H131 C13 H133 H132 116.3 120.0