PDB Chemical Component TGP

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 TGP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
S5' C5' 1.792 1.811
S5' P   2.094
N9 C4 1.374 1.367
N9 C8 1.378 1.375
N9 C1' 1.459 1.459
C4 N3 1.352 1.352
C4 C5 1.379 1.374
N3 C2 1.316 1.316
C2 N2 1.327 1.370
C2 N1 1.369 1.415
N2 H21 1.000 0.994
N2 H22 1.000 0.994
N1 C6 1.394 1.402
N1 H1 1.000 1.016
C6 O6 1.232 1.224
C6 C5 1.401 1.437
C5 N7 1.391 1.363
N7 C8 1.306 1.319
C8 H8 1.080 1.082
C2' C1' 1.521 1.522
C2' C3' 1.516 1.512
C2' H2' 1.100 1.097
C2' H2'' 1.100 1.094
C5' C4' 1.513 1.523
C5' H5' 1.100 1.091
C5' H5'' 1.100 1.092
C4' O4' 1.445 1.443
C4' C3' 1.526 1.525
C4' H4' 1.100 1.095
O4' C1' 1.415 1.439
C1' H1' 1.100 1.095
C3' O3' 1.432 1.425
C3' H3' 1.100 1.093
O3' HO3' 0.951 0.969
OP3 P   1.622
OP3 HOP3   0.981
P OP1   1.505
P OP2   1.623
OP2 HOP2   0.981

Bond Angles for TGP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C5' S5' P   105.1
S5' C5' C4' 110.3 110.4
S5' C5' H5' 109.2 109.1
S5' C5' H5'' 109.0 109.0
S5' P OP3   109.3
S5' P OP1   111.4
S5' P OP2   108.9
C4 N9 C8 106.4 106.6
C4 N9 C1' 126.3 127.3
N9 C4 N3 125.9 126.0
N9 C4 C5 105.4 104.9
C8 N9 C1' 127.2 126.1
N9 C8 N7 113.1 112.5
N9 C8 H8 123.5 122.0
N9 C1' C2' 113.7 114.3
N9 C1' O4' 107.5 110.0
N9 C1' H1' 106.8 105.9
N3 C4 C5 128.7 129.1
C4 N3 C2 111.8 113.0
C4 C5 C6 118.8 119.2
C4 C5 N7 110.9 112.1
N3 C2 N2 119.8 122.0
N3 C2 N1 123.9 122.6
N2 C2 N1 116.3 115.4
C2 N2 H21 110.9 118.3
C2 N2 H22 124.6 118.3
C2 N1 C6 125.1 125.3
C2 N1 H1 117.5 117.4
H21 N2 H22 124.6 123.4
C6 N1 H1 117.5 117.4
N1 C6 O6 120.0 125.4
N1 C6 C5 111.7 110.8
O6 C6 C5 128.3 123.8
C6 C5 N7 130.3 128.7
C5 N7 C8 104.3 103.9
N7 C8 H8 123.5 125.5
C1' C2' C3' 102.4 101.6
C1' C2' H2' 111.9 110.5
C1' C2' H2'' 113.4 111.7
C2' C1' O4' 105.8 106.7
C2' C1' H1' 108.5 111.7
C3' C2' H2' 111.9 110.0
C3' C2' H2'' 113.4 114.2
C2' C3' C4' 102.9 103.2
C2' C3' O3' 109.9 108.4
C2' C3' H3' 113.2 113.7
H2' C2' H2'' 104.2 108.7
C4' C5' H5' 109.2 110.0
C4' C5' H5'' 109.0 109.9
C5' C4' O4' 109.6 108.0
C5' C4' C3' 116.1 112.7
C5' C4' H4' 103.8 109.4
H5' C5' H5'' 110.1 108.4
O4' C4' C3' 106.2 106.8
O4' C4' H4' 114.1 107.7
C4' O4' C1' 110.3 108.7
C3' C4' H4' 107.3 112.0
C4' C3' O3' 108.8 109.6
C4' C3' H3' 114.2 114.0
O4' C1' H1' 114.6 108.1
O3' C3' H3' 107.7 107.8
C3' O3' HO3' 109.5 106.6
P OP3 HOP3   118.7
OP3 P OP1   112.7
OP3 P OP2   101.5
OP1 P OP2   112.7
P OP2 HOP2   118.7

Torsion Angles for TGP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C5' S5' P OP3   174.8
C5' S5' P OP1   300.0
C5' S5' P OP2   64.8
C4' C5' S5' H5' 240.0 239.1
C4' C5' S5' H5'' 119.6 120.9
S5' C5' C4' O4' 272.9 62.6
S5' C5' C4' C3' 33.1 180.4
S5' C5' C4' H4' 150.6 305.6
H5' C5' S5' H5'' 239.6 241.8
P S5' C5' C4'   180.0
P S5' C5' H5'   300.9
P S5' C5' H5''   59.1
S5' P OP3 HOP3   172.3
OP3 P S5' OP1   234.8
OP3 P S5' OP2   110.0
OP1 P S5' OP2   235.2
S5' P OP2 HOP2   187.8
C8 N9 C4 C1' 179.7 180.0
C4 N9 C8 N7 359.6 0.0
C4 N9 C8 H8 179.7 180.0
C4 N9 C1' C2' 92.1 93.4
C4 N9 C1' O4' 208.9 213.5
C4 N9 C1' H1' 332.4 330.0
N3 C4 N9 C5 180.0 180.0
N9 C4 N3 C2 180.2 180.0
N9 C4 C5 C6 179.8 180.0
N9 C4 C5 N7 359.9 0.0
C4 N9 C8 C1' 180.3 180.0
C8 N9 C4 N3 180.3 180.0
C8 N9 C4 C5 0.3 360.0
C8 N9 C1' C2' 272.5 273.4
C8 N9 C1' O4' 29.2 33.5
C8 N9 C1' H1' 152.8 150.0
C5 N7 C8 N9 0.3 0.0
N7 C8 N9 H8 180.0 180.0
C4 N9 C1' C8 179.6 180.0
C1' N9 C4 N3 0.6 360.0
C1' N9 C4 C5 180.6 180.0
C1' N9 C8 N7 179.3 180.0
C1' N9 C8 H8 359.3 360.0
N9 C1' C2' C3' 150.8 154.5
N9 C1' C2' H2' 270.8 37.8
N9 C1' C2' H2'' 28.3 276.7
C2' C1' N9 O4' 243.2 240.0
C2' C1' N9 H1' 119.7 123.5
C4' O4' C1' N9 219.2 218.2
O4' C1' N9 H1' 236.5 243.5
N3 C4 N9 C8 180.3 180.0
N3 C4 N9 C1' 0.6 360.0
N9 C4 N3 C5 180.0 180.0
N3 C4 C5 C6 359.7 360.0
N3 C4 C5 N7 179.9 180.0
C4 N3 C2 N2 180.9 180.0
C4 N3 C2 N1 0.5 0.0
C5 C4 N9 C8 0.3 360.0
C5 C4 N9 C1' 180.6 180.0
N9 C4 C5 N3 180.0 180.0
C5 C4 N3 C2 0.2 360.0
N1 C6 C5 C4 359.7 0.1
O6 C6 C5 C4 179.0 180.0
C6 C5 C4 N7 179.9 180.0
C4 C5 N7 C8 359.9 360.0
C2 N3 C4 C5 0.2 360.0
N2 C2 N3 N1 180.4 180.0
N3 C2 N2 H21 180.0 222.6
N3 C2 N2 H22 0.0 42.7
N3 C2 N1 C6 358.7 0.0
N3 C2 N1 H1 178.8 180.0
N3 C2 N2 N1 179.6 180.0
N2 C2 N1 C6 178.4 180.0
N2 C2 N1 H1 358.4 360.0
H21 N2 C2 H22 180.0 180.0
N3 C2 N1 N2 180.4 180.0
N1 C2 N2 H21 0.4 42.6
N1 C2 N2 H22 180.4 222.6
C6 N1 C2 H1 180.0 180.0
C2 N1 C6 O6 181.6 180.0
C2 N1 C6 C5 1.1 360.0
H21 N2 C2 N1 0.4 42.6
C2 N2 H21 H22 180.0 180.0
H22 N2 C2 N1 180.4 222.6
C2 N2 H22 H21 180.0 180.0
C4 C5 C6 N1 359.7 0.1
C2 N1 C6 H1 180.0 180.0
O6 C6 N1 C5 180.6 180.1
N1 C6 C5 N7 179.5 180.0
C2 N1 H1 C6 180.0 180.0
H1 N1 C6 O6 1.6 0.1
H1 N1 C6 C5 181.0 180.0
C4 C5 C6 O6 179.0 180.0
O6 C6 N1 H1 1.6 0.1
N1 C6 O6 C5 179.3 179.9
O6 C6 C5 N7 358.9 359.9
C4 C5 C6 N7 180.2 180.1
C5 C6 N1 H1 181.0 180.0
N1 C6 C5 O6 180.6 180.1
C6 C5 N7 C8 180.0 180.0
N9 C8 N7 C5 0.3 0.0
C4 C5 N7 C6 179.9 179.9
C5 N7 C8 H8 180.3 180.0
N7 C8 N9 C1' 179.3 180.0
N9 C8 N7 H8 180.0 180.0
H8 C8 N9 C1' 359.3 360.0
N9 C8 H8 N7 180.0 180.0
N9 C1' C2' O4' 117.8 121.8
N9 C1' C2' H1' 241.2 239.7
C3' C2' C1' H2' 240.0 116.7
C3' C2' C1' H2'' 122.5 237.8
C1' C2' C3' C4' 326.2 325.2
C1' C2' C3' O3' 81.9 81.3
C1' C2' C3' H3' 202.4 201.2
H2' C2' C1' H2'' 242.5 121.1
C4' O4' C1' C2' 341.1 342.7
O4' C1' C2' H1' 123.5 117.9
C1' C2' C3' H2' 120.0 243.0
C1' C2' C3' H2'' 237.4 120.4
C3' C2' C1' O4' 33.0 32.7
C3' C2' C1' H1' 269.6 274.8
H2' C2' C3' H2'' 117.4 237.5
C5' C4' C3' C2' 261.6 267.4
O4' C4' C3' C2' 23.6 25.9
C2' C3' C4' H4' 146.0 143.6
C4' C3' C2' O3' 244.3 243.8
C4' C3' C2' H3' 123.8 123.9
O3' C3' C2' H3' 239.5 240.1
C2' C3' O3' HO3' 79.9 294.7
C1' C2' H2' C3' 245.7 111.4
C1' C2' H2' H2'' 122.9 237.1
H2' C2' C1' O4' 153.0 276.0
H2' C2' C1' H1' 29.6 158.1
C3' C2' H2' H2'' 237.2 125.7
H2' C2' C3' C4' 206.2 82.2
H2' C2' C3' O3' 321.9 198.4
H2' C2' C3' H3' 82.4 318.3
C1' C2' H2'' C3' 116.2 245.4
C1' C2' H2'' H2' 238.1 122.1
H2'' C2' C1' O4' 270.5 154.9
H2'' C2' C1' H1' 147.1 37.0
C3' C2' H2'' H2' 121.9 236.7
H2'' C2' C3' C4' 88.7 204.8
H2'' C2' C3' O3' 204.5 320.9
H2'' C2' C3' H3' 324.9 80.8
C4' C5' S5' P   180.0
S5' C5' C4' H5' 120.0 120.4
S5' C5' C4' H5'' 240.3 239.7
C2' C3' C4' C5' 261.6 267.4
H5' C5' C4' H5'' 120.3 119.3
O4' C4' C5' C3' 239.8 242.3
O4' C4' C5' H4' 122.3 117.0
C5' C4' O4' C1' 123.0 116.0
C3' C4' C5' H4' 242.5 234.7
C5' C4' C3' O3' 145.1 152.1
C5' C4' C3' H3' 24.7 31.2
H5' C5' S5' P   300.9
S5' C5' H5' C4' 239.3 238.8
S5' C5' H5' H5'' 119.7 118.6
C4' C5' H5' H5'' 240.4 239.8
H5' C5' C4' O4' 152.9 302.2
H5' C5' C4' C3' 273.1 60.0
H5' C5' C4' H4' 30.6 185.2
H5'' C5' S5' P   59.1
S5' C5' H5'' C4' 120.4 121.1
S5' C5' H5'' H5' 240.2 241.4
C4' C5' H5'' H5' 119.7 120.2
H5'' C5' C4' O4' 32.6 183.0
H5'' C5' C4' C3' 152.8 300.7
H5'' C5' C4' H4' 270.3 66.0
N9 C1' O4' C4' 219.2 218.2
C2' C1' O4' C4' 341.1 342.7
C2' C3' C4' O4' 23.6 25.9
O4' C4' C5' H5' 152.9 302.2
O4' C4' C5' H5'' 32.6 183.0
C5' C4' O4' C3' 126.1 121.5
C5' C4' O4' H4' 244.1 242.0
C3' C4' O4' H4' 118.0 120.5
O4' C4' C3' O3' 267.1 270.6
O4' C4' C3' H3' 146.7 149.7
C4' O4' C1' H1' 100.6 103.1
C4' C3' C2' H2' 206.2 82.2
C4' C3' C2' H2'' 88.7 204.8
C2' C3' C4' O3' 116.5 115.3
C2' C3' C4' H3' 236.9 236.3
C3' C4' C5' H5' 273.1 60.0
C3' C4' C5' H5'' 152.8 300.7
C5' C4' C3' O4' 238.0 241.5
C5' C4' C3' H4' 115.6 123.8
O4' C4' C3' H4' 237.6 242.3
C3' C4' O4' C1' 356.9 354.5
O3' C3' C4' H3' 120.4 120.9
C4' C3' O3' HO3' 191.8 46.6
H4' C4' C5' H5' 30.6 185.2
H4' C4' C5' H5'' 270.3 66.0
C5' C4' H4' O4' 119.2 117.2
C5' C4' H4' C3' 236.6 234.3
O4' C4' H4' C3' 117.4 117.2
H4' C4' O4' C1' 238.9 234.0
H4' C4' C3' O3' 29.5 28.3
H4' C4' C3' H3' 269.1 267.4
N9 C1' O4' C2' 238.1 235.5
N9 C1' O4' H1' 118.6 115.2
O4' C1' C2' C3' 33.0 32.7
O4' C1' C2' H2' 153.0 276.0
O4' C1' C2' H2'' 270.5 154.9
C2' C1' O4' H1' 240.5 239.7
C1' O4' C4' C3' 356.9 354.5
C1' O4' C4' H4' 238.9 234.0
N9 C1' H1' C2' 123.0 125.1
N9 C1' H1' O4' 241.0 242.2
H1' C1' C2' C3' 269.6 274.8
H1' C1' C2' H2' 29.6 158.1
H1' C1' C2' H2'' 147.1 37.0
C2' C1' H1' O4' 118.0 117.1
O3' C3' C2' H2' 321.9 198.4
O3' C3' C2' H2'' 204.5 320.9
C2' C3' O3' C4' 248.1 248.1
C2' C3' O3' H3' 123.7 123.5
O3' C3' C4' H4' 29.5 28.3
C4' C3' O3' H3' 235.6 235.4
H3' C3' C2' H2' 82.4 318.3
H3' C3' C2' H2'' 324.9 80.8
C2' C3' H3' C4' 117.3 117.9
C2' C3' H3' O3' 238.3 239.8
H3' C3' C4' H4' 269.1 267.4
C4' C3' H3' O3' 121.0 121.9
H3' C3' O3' HO3' 316.1 171.2
HO3' O3' C3' H3' 316.1 171.2
S5' P OP3 OP1   124.4
S5' P OP3 OP2   245.1
OP1 P OP3 OP2   120.8
OP3 P OP2 HOP2   72.6
HOP3 OP3 P OP1   48.0
HOP3 OP3 P OP2   287.2
S5' P OP1 OP3   236.8
S5' P OP1 OP2   122.7
OP1 P OP3 HOP3   48.0
OP3 P OP1 OP2   245.9
OP1 P OP2 HOP2   311.8
S5' P OP2 OP3   115.2
S5' P OP2 OP1   236.0
OP2 P OP3 HOP3   287.2
OP3 P OP2 OP1   120.8