PDB Chemical Component TC1

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 TC1

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.480 1.501
P OP2 1.480 1.618
P O5' 1.600 1.619
P OP3   1.616
OP2 HP2 0.950 0.981
O5' C5' 1.425 1.418
C5' C4' 1.536 1.523
C5' H5' 1.090 1.092
C5' H5'' 1.093 1.093
C4' C3' 1.496 1.522
C4' O4' 1.440 1.441
C4' H4' 1.112 1.094
C3' C2' 1.503 1.511
C3' O3' 1.427 1.426
C3' H3' 1.092 1.094
C2' C1' 1.526 1.520
C2' H2' 1.087 1.097
C2' H2'' 1.088 1.095
C1' O4' 1.410 1.434
C1' N1 1.468 1.434
C1' H1' 1.090 1.095
N1 C2 1.438 1.401
N1 C14 1.363 1.376
C2 O2 1.244 1.232
C2 N3 1.402 1.382
N3 C4 1.337 1.312
C4 C13 1.466 1.491
C4 N5 1.392 1.379
C6 N5 1.382 1.401
C6 C11 1.402 1.400
C6 C7 1.404 1.407
C14 C13 1.380 1.336
C14 H14 1.107 1.086
C13 S12 1.686 1.714
N5 H5 1.000 1.016
C11 S12 1.760 1.778
C11 C10 1.395 1.405
C7 C8 1.386 1.393
C7 H7 1.071 1.089
C8 C9 1.393 1.389
C8 H8 1.070 1.085
C9 C10 1.387 1.395
C9 H9 1.069 1.085
C10 H10 1.070 1.088
O3' HO3' 0.950 0.973
OP3 HOP3   0.981

Bond Angles for TC1

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 117.6 115.3
OP1 P O5' 108.1 115.0
OP1 P OP3   115.0
OP2 P O5' 108.0 103.7
OP2 P OP3   103.3
P OP2 HP2 117.6 118.9
O5' P OP3   102.9
P O5' C5' 119.9 118.5
P OP3 HOP3   118.9
O5' C5' C4' 111.0 108.9
O5' C5' H5' 111.3 109.0
O5' C5' H5'' 111.0 108.9
C4' C5' H5' 108.6 110.3
C4' C5' H5'' 107.1 110.3
C5' C4' C3' 114.9 112.9
C5' C4' O4' 116.5 107.9
C5' C4' H4' 106.3 109.5
H5' C5' H5'' 107.7 109.3
C3' C4' O4' 103.7 106.2
C3' C4' H4' 108.0 112.2
C4' C3' C2' 104.5 103.1
C4' C3' O3' 109.9 109.9
C4' C3' H3' 111.7 113.5
O4' C4' H4' 107.0 107.9
C4' O4' C1' 112.3 109.3
C2' C3' O3' 112.2 109.7
C2' C3' H3' 112.6 113.2
C3' C2' C1' 100.8 102.5
C3' C2' H2' 108.8 109.7
C3' C2' H2'' 108.8 114.1
O3' C3' H3' 106.1 107.4
C3' O3' HO3' 110.0 107.3
C1' C2' H2' 112.8 110.6
C1' C2' H2'' 114.8 111.7
C2' C1' O4' 102.5 107.4
C2' C1' N1 113.1 112.8
C2' C1' H1' 109.4 111.5
H2' C2' H2'' 110.2 108.3
O4' C1' N1 111.2 109.3
O4' C1' H1' 110.4 108.0
N1 C1' H1' 110.0 107.8
C1' N1 C2 117.0 119.6
C1' N1 C14 122.9 119.5
C2 N1 C14 120.0 120.9
N1 C2 O2 116.5 121.9
N1 C2 N3 119.5 117.9
N1 C14 C13 121.6 122.3
N1 C14 H14 117.2 115.6
O2 C2 N3 123.9 120.2
C2 N3 C4 119.3 121.8
N3 C4 C13 122.3 120.9
N3 C4 N5 118.2 117.1
C13 C4 N5 119.5 122.0
C4 C13 C14 117.1 116.1
C4 C13 S12 123.9 122.1
C4 N5 C6 127.6 126.3
C4 N5 H5 117.5 118.0
N5 C6 C11 122.2 122.4
N5 C6 C7 118.1 118.7
C6 N5 H5 114.8 115.8
C11 C6 C7 119.7 118.9
C6 C11 S12 122.3 123.5
C6 C11 C10 119.5 119.5
C6 C7 C8 120.1 121.2
C6 C7 H7 120.0 120.1
C13 C14 H14 121.2 122.0
C14 C13 S12 118.9 121.8
C13 S12 C11 104.4 103.8
S12 C11 C10 118.2 117.0
C11 C10 C9 120.6 120.9
C11 C10 H10 119.7 120.8
C8 C7 H7 119.9 118.7
C7 C8 C9 120.2 119.7
C7 C8 H8 119.9 120.2
C9 C8 H8 119.9 120.2
C8 C9 C10 120.0 119.8
C8 C9 H9 120.0 120.2
C10 C9 H9 120.0 120.1
C9 C10 H10 119.7 118.3

Torsion Angles for TC1

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 O5' 237.6 120.6
OP2 P OP1 OP3   239.9
OP1 P OP2 HP2 180.0 48.8
O5' P OP1 OP3   119.3
OP1 P O5' C5' 47.9 180.0
OP1 P OP3 HOP3   312.0
OP1 P OP2 O5' 122.5 233.4
OP1 P OP2 OP3   126.3
O5' P OP2 OP3   252.9
OP2 P O5' C5' 176.0 53.2
OP2 P OP3 HOP3   78.5
OP1 P O5' OP2 231.9 126.8
OP1 P O5' OP3   234.2
OP2 P O5' OP3   107.4
O5' P OP2 HP2 57.5 175.4
O5' P OP3 HOP3   186.2
P O5' C5' C4' 189.6 180.0
P O5' C5' H5' 68.5 300.4
P O5' C5' H5'' 308.6 59.6
OP1 P OP3 OP2   233.5
OP1 P OP3 O5'   125.8
OP2 P OP3 O5'   252.3
OP3 P OP2 HP2   282.5
OP3 P O5' C5'   305.8
HP2 OP2 P O5' 57.5 175.4
HP2 OP2 P OP3   282.5
C5' O5' P OP3   305.8
C4' C5' O5' H5' 121.1 239.6
C4' C5' O5' H5'' 241.0 120.4
O5' C5' C4' C3' 53.0 179.5
O5' C5' C4' O4' 291.5 62.4
O5' C5' C4' H4' 172.4 305.3
H5' C5' O5' H5'' 120.0 240.8
O5' C5' C4' H5' 237.4 119.6
O5' C5' C4' H5'' 121.3 240.5
H5' C5' C4' H5'' 243.9 120.9
C3' C4' C5' O4' 121.5 117.1
C3' C4' C5' H4' 240.6 234.2
C5' C4' C3' C2' 255.5 271.2
C5' C4' C3' O3' 135.0 154.2
C5' C4' C3' H3' 17.5 34.0
O4' C4' C5' H4' 119.1 117.1
C5' C4' O4' C1' 128.4 108.6
O5' C5' H5' C4' 122.4 240.5
O5' C5' H5' H5'' 238.1 119.0
C4' C5' H5' H5'' 115.7 238.5
H5' C5' C4' C3' 175.6 60.0
H5' C5' C4' O4' 54.1 302.9
H5' C5' C4' H4' 295.0 185.7
O5' C5' H5'' C4' 238.7 119.4
O5' C5' H5'' H5' 122.0 241.0
C4' C5' H5'' H5' 243.3 121.5
H5'' C5' C4' C3' 291.7 299.0
H5'' C5' C4' O4' 170.2 181.9
H5'' C5' C4' H4' 51.1 64.8
C3' C4' C5' H5' 175.6 60.0
C3' C4' C5' H5'' 291.7 299.0
C5' C4' C3' O4' 231.7 241.9
C5' C4' C3' H4' 118.5 124.3
O4' C4' C3' H4' 246.7 242.4
C3' C4' O4' C1' 1.1 347.3
C2' C3' C4' O3' 120.5 116.9
C2' C3' C4' H3' 238.0 237.2
C4' C3' C2' C1' 322.0 326.6
C4' C3' C2' H2' 80.8 84.1
C4' C3' C2' H2'' 200.9 205.7
O3' C3' C4' H3' 117.5 120.2
C4' C3' O3' HO3' 180.0 243.2
O4' C4' C5' H5' 54.1 302.9
O4' C4' C5' H5'' 170.2 181.9
C5' C4' O4' C3' 127.3 121.4
C5' C4' O4' H4' 241.3 241.8
C3' C4' O4' H4' 114.0 120.5
O4' C4' C3' C2' 23.8 29.2
O4' C4' C3' O3' 263.3 272.3
O4' C4' C3' H3' 145.8 152.1
C2' C1' O4' C4' 335.0 351.0
C4' O4' C1' N1 213.9 228.3
C4' O4' C1' H1' 91.5 111.3
H4' C4' C5' H5' 295.0 185.7
H4' C4' C5' H5'' 51.1 64.8
C5' C4' H4' C3' 236.2 233.8
C5' C4' H4' O4' 125.1 117.1
C3' C4' H4' O4' 249.0 243.3
H4' C4' C3' C2' 137.1 146.9
H4' C4' C3' O3' 16.5 29.9
H4' C4' C3' H3' 259.1 269.7
H4' C4' O4' C1' 247.1 226.8
C2' C3' C4' O4' 23.8 29.2
C2' C3' C4' H4' 137.1 146.9
C4' C3' C2' O3' 241.0 242.9
C4' C3' C2' H3' 121.4 123.0
O3' C3' C2' H3' 240.5 240.1
C2' C3' O3' HO3' 64.2 130.5
C1' C2' C3' H2' 241.2 242.5
C1' C2' C3' H2'' 121.1 120.8
C3' C2' C1' O4' 38.0 26.9
C3' C2' C1' N1 157.8 147.4
C3' C2' C1' H1' 280.7 268.8
H2' C2' C3' H2'' 239.9 238.3
O3' C3' C4' O4' 263.3 272.3
O3' C3' C4' H4' 16.5 29.9
C4' C3' O3' C2' 115.8 112.7
C4' C3' O3' H3' 239.1 236.1
C2' C3' O3' H3' 123.3 123.4
O3' C3' C2' C1' 81.1 83.6
O3' C3' C2' H2' 199.9 201.1
O3' C3' C2' H2'' 320.0 322.8
H3' C3' C4' O4' 145.8 152.1
H3' C3' C4' H4' 259.1 269.7
C4' C3' H3' C2' 242.8 242.9
C4' C3' H3' O3' 119.8 121.7
C2' C3' H3' O3' 237.0 238.7
H3' C3' C2' C1' 200.6 203.6
H3' C3' C2' H2' 319.4 321.1
H3' C3' C2' H2'' 79.5 82.7
H3' C3' O3' HO3' 300.9 7.1
C4' O4' C1' C2' 335.0 351.0
C1' C2' C3' O3' 81.1 83.6
C1' C2' C3' H3' 200.6 203.6
C3' C2' C1' H2' 115.9 116.9
C3' C2' C1' H2'' 243.3 237.5
H2' C2' C1' H2'' 127.4 120.7
O4' C1' C2' N1 240.2 239.5
O4' C1' C2' H1' 117.2 118.1
N1 C1' C2' H1' 237.0 238.6
C2' C1' N1 C2 137.6 93.5
C2' C1' N1 C14 317.6 273.5
H2' C2' C3' O3' 199.9 201.1
H2' C2' C3' H3' 319.4 321.1
C3' C2' H2' C1' 249.0 247.7
C3' C2' H2' H2'' 119.2 125.1
C1' C2' H2' H2'' 230.1 237.3
H2' C2' C1' O4' 282.1 270.0
H2' C2' C1' N1 41.9 30.6
H2' C2' C1' H1' 164.9 151.9
H2'' C2' C3' O3' 320.0 322.8
H2'' C2' C3' H3' 79.5 82.7
C3' C2' H2'' C1' 112.0 115.6
C3' C2' H2'' H2' 240.8 237.5
C1' C2' H2'' H2' 128.8 122.0
H2'' C2' C1' O4' 154.6 149.4
H2'' C2' C1' N1 274.5 269.9
H2'' C2' C1' H1' 37.4 31.3
C1' O4' C4' H4' 247.1 226.8
O4' C1' C2' H2' 282.1 270.0
O4' C1' C2' H2'' 154.6 149.4
C2' C1' O4' N1 121.1 122.7
C2' C1' O4' H1' 243.5 239.7
N1 C1' O4' H1' 122.4 117.0
O4' C1' N1 C2 252.3 212.9
O4' C1' N1 C14 72.3 32.9
N1 C1' C2' H2' 41.9 30.6
N1 C1' C2' H2'' 274.5 269.9
C2' C1' N1 O4' 245.3 240.6
C2' C1' N1 H1' 122.6 123.5
O4' C1' N1 H1' 237.3 242.9
C2 N1 C1' C14 180.0 180.0
C1' N1 C2 O2 359.2 0.0
C1' N1 C2 N3 178.4 180.0
C1' N1 C14 C13 179.0 179.9
C1' N1 C14 H14 359.8 0.0
H1' C1' C2' H2' 164.9 151.9
H1' C1' C2' H2'' 37.4 31.3
C2' C1' H1' O4' 112.1 117.7
C2' C1' H1' N1 235.2 235.7
O4' C1' H1' N1 123.1 118.0
H1' C1' N1 C2 15.0 330.0
H1' C1' N1 C14 195.0 150.0
C2 N1 C1' H1' 15.0 330.0
C1' N1 C2 C14 180.0 180.0
C2 N1 C14 C13 358.9 359.9
C2 N1 C14 H14 179.8 180.0
O2 C2 N1 N3 180.8 180.0
N1 C2 N3 C4 2.6 360.0
C14 N1 C1' H1' 195.0 150.0
C1' N1 C14 C2 180.0 180.0
C14 N1 C2 O2 179.2 180.0
C14 N1 C2 N3 358.4 0.1
C4 C13 C14 N1 2.6 0.1
C13 C14 N1 H14 179.1 179.9
N1 C14 C13 S12 184.5 180.0
O2 C2 N1 C14 179.2 180.0
N1 C2 O2 N3 179.2 180.0
O2 C2 N3 C4 181.7 180.0
N3 C2 N1 C14 358.4 0.1
N1 C2 N3 O2 180.9 180.0
C2 N3 C4 C13 359.0 360.0
C2 N3 C4 N5 177.7 179.9
C13 C4 N3 N5 181.3 180.0
N3 C4 C13 C14 358.4 0.0
N3 C4 C13 S12 176.4 180.1
N3 C4 N5 C6 180.7 180.1
N3 C4 N5 H5 3.0 0.0
N1 C14 C13 C4 2.6 0.1
N3 C4 C13 N5 178.7 180.0
C13 C4 N5 C6 359.4 0.1
C13 C4 N5 H5 181.7 180.0
C4 C13 C14 H14 181.7 180.0
C14 C13 C4 S12 182.0 179.9
C4 C13 S12 C11 1.7 359.8
N3 C4 N5 C13 181.2 180.0
N5 C4 C13 C14 179.7 180.0
N5 C4 C13 S12 357.7 0.1
C4 N5 C6 C11 3.9 359.9
C4 N5 C6 C7 182.9 179.8
C6 N5 C4 H5 177.7 180.1
C4 N5 C6 H5 182.2 179.9
C11 C6 N5 C7 181.0 180.1
N5 C6 C11 S12 356.0 359.9
N5 C6 C11 C10 178.9 179.9
N5 C6 C7 C8 181.6 180.1
N5 C6 C7 H7 1.5 0.1
N5 C6 C11 C7 179.0 179.9
C11 C6 N5 H5 181.7 180.0
C11 C6 C7 C8 0.7 360.0
C11 C6 C7 H7 180.6 180.0
C13 S12 C11 C6 1.3 0.2
S12 C11 C6 C10 177.1 180.0
C6 C11 C10 C9 359.4 0.1
C6 C11 C10 H10 179.6 180.0
N5 C6 C7 C11 180.9 180.1
C7 C6 N5 H5 0.7 359.9
C7 C6 C11 S12 176.9 180.0
C7 C6 C11 C10 359.9 360.0
C8 C7 C6 H7 180.1 180.0
C6 C7 C8 C9 359.4 0.0
C6 C7 C8 H8 179.6 180.0
N1 C14 C13 H14 180.9 180.1
C14 C13 C4 N5 179.7 180.0
C4 C13 C14 S12 178.1 180.1
C14 C13 S12 C11 179.7 179.9
N1 C14 H14 C13 179.1 179.9
H14 C14 C13 S12 3.5 359.9
S12 C13 C4 N5 357.7 0.1
C4 C13 S12 C14 182.0 179.9
C6 C11 S12 C13 1.3 0.2
S12 C13 C14 H14 3.5 359.9
C13 S12 C11 C10 178.4 180.2
C4 N5 H5 C6 178.0 180.1
H5 N5 C6 C11 181.7 180.0
H5 N5 C6 C7 0.7 359.9
S12 C11 C6 C7 176.9 180.0
C6 C11 S12 C10 182.9 180.0
S12 C11 C10 C9 182.3 180.0
S12 C11 C10 H10 2.4 359.9
C10 C11 C6 C7 359.9 360.0
C6 C11 C10 S12 177.2 180.0
C8 C9 C10 C11 0.7 359.9
C11 C10 C9 H9 180.6 179.9
C9 C10 C11 H10 179.8 180.1
C6 C7 C8 H7 179.9 180.0
C9 C8 C7 H8 179.8 180.0
C7 C8 C9 C10 359.9 0.0
C7 C8 C9 H9 179.9 180.0
C6 C7 H7 C8 180.1 180.0
H7 C7 C8 C9 179.5 180.0
H7 C7 C8 H8 359.7 0.0
C11 C10 C9 C8 0.7 359.9
C9 C8 C7 H7 179.5 180.0
C7 C8 C9 H8 180.2 180.0
C10 C9 C8 H9 179.9 180.0
C8 C9 C10 H10 180.5 180.0
H8 C8 C7 H7 359.7 0.0
C7 C8 H8 C9 179.8 180.0
H8 C8 C9 C10 179.7 180.0
H8 C8 C9 H9 359.8 0.0
C11 C10 C9 H10 180.2 179.9
C10 C9 C8 H8 179.7 180.0
C8 C9 C10 H9 180.1 180.0
H9 C9 C8 H8 359.8 0.0
C8 C9 H9 C10 179.9 180.0
H9 C9 C10 H10 0.5 360.0
C11 C10 H10 C9 179.8 180.1
H10 C10 C9 H9 0.5 360.0
HO3' O3' C3' H3' 300.9 7.1