PDB Chemical Component TTM

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 TTM

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.481 1.501
P OP2 1.480 1.618
P O5' 1.609 1.619
P OP3   1.616
OP2 HOP2 0.950 0.981
O5' C5' 1.427 1.418
C5' C4' 1.500 1.523
C5' H5' 1.089 1.092
C5' H5'' 1.082 1.093
C4' O4' 1.424 1.441
C4' C3' 1.522 1.522
C4' H4' 1.090 1.094
O4' C1' 1.426 1.434
C1' N1 1.475 1.434
C1' C2' 1.510 1.520
C1' H1' 1.084 1.095
N1 C6 1.359 1.376
N1 C2 1.383 1.402
C6 C5 1.339 1.336
C6 H6 1.088 1.086
C2 O2 1.227 1.235
C2 N3 1.392 1.421
N3 C1Q 1.376 1.459
N3 C4 1.389 1.402
C1Q C2Q 1.428 1.491
C1Q H1Q 1.089 1.094
C1Q H2Q 1.090 1.094
C2Q H2 1.115 1.095
C2Q H3Q 1.092 1.096
C2Q H4Q 1.093 1.096
C4 O4 1.230 1.230
C4 C5 1.444 1.488
C5 C5M 1.519 1.497
C5M H71 1.088 1.089
C5M H72 1.088 1.089
C5M H73 1.090 1.089
C2' C3' 1.515 1.511
C2' H2' 1.089 1.097
C2' H2'' 1.088 1.095
C3' O3' 1.426 1.426
C3' H3' 1.089 1.094
O3' HO3' 0.950 0.973
OP3 HOP3   0.981

Bond Angles for TTM

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.4 115.3
OP1 P O5' 109.0 115.0
OP1 P OP3   115.0
OP2 P O5' 107.5 103.7
OP2 P OP3   103.3
P OP2 HOP2 119.4 118.9
O5' P OP3   102.9
P O5' C5' 121.5 118.5
P OP3 HOP3   118.9
O5' C5' C4' 112.6 108.9
O5' C5' H5' 108.5 109.0
O5' C5' H5'' 111.1 108.9
C4' C5' H5' 110.4 110.3
C4' C5' H5'' 103.9 110.3
C5' C4' O4' 109.0 107.9
C5' C4' C3' 115.9 112.9
C5' C4' H4' 110.4 109.5
H5' C5' H5'' 110.3 109.3
O4' C4' C3' 104.9 106.2
O4' C4' H4' 109.2 107.9
C4' O4' C1' 104.3 109.3
C3' C4' H4' 107.1 112.2
C4' C3' C2' 98.3 103.1
C4' C3' O3' 114.3 109.9
C4' C3' H3' 112.9 113.5
O4' C1' N1 112.3 109.3
O4' C1' C2' 102.3 107.4
O4' C1' H1' 105.0 108.0
N1 C1' C2' 117.2 112.8
N1 C1' H1' 113.1 107.8
C1' N1 C6 120.4 118.8
C1' N1 C2 118.0 118.9
C2' C1' H1' 105.7 111.5
C1' C2' C3' 91.7 102.5
C1' C2' H2' 112.6 110.6
C1' C2' H2'' 111.8 111.7
C6 N1 C2 121.5 122.3
N1 C6 C5 121.1 123.7
N1 C6 H6 118.9 115.6
N1 C2 O2 121.1 123.0
N1 C2 N3 117.2 114.5
C5 C6 H6 120.0 120.7
C6 C5 C4 121.5 118.8
C6 C5 C5M 119.4 123.2
O2 C2 N3 121.7 122.5
C2 N3 C1Q 118.2 116.3
C2 N3 C4 123.7 125.5
C1Q N3 C4 118.1 118.2
N3 C1Q C2Q 114.5 111.2
N3 C1Q H1Q 106.8 107.7
N3 C1Q H2Q 111.9 107.8
N3 C4 O4 120.8 125.1
N3 C4 C5 114.9 115.2
C2Q C1Q H1Q 108.1 110.5
C2Q C1Q H2Q 107.2 110.8
C1Q C2Q H2 114.5 110.9
C1Q C2Q H3Q 100.2 110.9
C1Q C2Q H4Q 97.6 109.8
H1Q C1Q H2Q 108.0 108.8
H2 C2Q H3Q 132.0 109.2
H2 C2Q H4Q 39.1 108.0
H3Q C2Q H4Q 107.2 108.0
O4 C4 C5 124.3 119.7
C4 C5 C5M 119.1 118.0
C5 C5M H71 109.2 109.7
C5 C5M H72 109.6 109.7
C5 C5M H73 109.0 109.7
H71 C5M H72 109.3 109.4
H71 C5M H73 109.7 109.4
H72 C5M H73 110.0 109.0
C3' C2' H2' 114.3 109.7
C3' C2' H2'' 112.4 114.1
C2' C3' O3' 106.5 109.7
C2' C3' H3' 114.7 113.2
H2' C2' H2'' 112.5 108.3
O3' C3' H3' 109.6 107.4
C3' O3' HO3' 114.3 107.3

Torsion Angles for TTM

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 O5' 235.9 120.6
OP2 P OP1 OP3   239.9
OP1 P OP2 HOP2 180.1 48.8
O5' P OP1 OP3   119.3
OP1 P O5' C5' 16.1 179.9
OP1 P OP3 HOP3   312.0
OP1 P OP2 O5' 124.8 233.4
OP1 P OP2 OP3   126.3
O5' P OP2 OP3   252.9
OP2 P O5' C5' 147.0 53.2
OP2 P OP3 HOP3   78.5
OP1 P O5' OP2 229.1 126.8
OP1 P O5' OP3   234.2
OP2 P O5' OP3   107.4
O5' P OP2 HOP2 55.2 175.4
O5' P OP3 HOP3   186.2
P O5' C5' C4' 45.1 180.0
P O5' C5' H5' 167.5 300.4
P O5' C5' H5'' 289.0 59.6
OP1 P OP3 OP2   233.5
OP1 P OP3 O5'   125.8
OP2 P OP3 O5'   252.3
OP3 P OP2 HOP2   282.5
OP3 P O5' C5'   305.8
HOP2 OP2 P O5' 55.2 175.4
HOP2 OP2 P OP3   282.5
C5' O5' P OP3   305.8
C4' C5' O5' H5' 237.5 239.6
C4' C5' O5' H5'' 116.1 120.4
O5' C5' C4' O4' 59.5 62.4
O5' C5' C4' C3' 177.6 179.5
O5' C5' C4' H4' 299.5 305.3
H5' C5' O5' H5'' 238.6 240.8
O5' C5' C4' H5' 121.4 119.6
O5' C5' C4' H5'' 239.6 240.5
H5' C5' C4' H5'' 118.2 120.9
O4' C4' C5' C3' 242.0 242.9
O4' C4' C5' H4' 120.0 117.1
C5' C4' O4' C1' 125.9 108.6
C3' C4' C5' H4' 238.0 234.2
C5' C4' C3' C2' 275.3 271.2
C5' C4' C3' O3' 162.9 154.2
C5' C4' C3' H3' 36.7 34.0
O5' C5' H5' C4' 236.2 240.5
O5' C5' H5' H5'' 121.9 119.0
C4' C5' H5' H5'' 245.8 238.5
H5' C5' C4' O4' 298.1 302.9
H5' C5' C4' C3' 56.2 60.0
H5' C5' C4' H4' 178.1 185.7
O5' C5' H5'' C4' 121.4 119.4
O5' C5' H5'' H5' 239.6 241.0
C4' C5' H5'' H5' 118.3 121.5
H5'' C5' C4' O4' 179.9 181.9
H5'' C5' C4' C3' 297.9 299.0
H5'' C5' C4' H4' 59.9 64.8
O4' C4' C5' H5' 298.1 302.9
O4' C4' C5' H5'' 179.9 181.9
C5' C4' O4' C3' 124.8 121.4
C5' C4' O4' H4' 239.3 241.8
C3' C4' O4' H4' 114.5 120.5
O4' C4' C3' C2' 35.5 29.2
O4' C4' C3' O3' 283.2 272.3
O4' C4' C3' H3' 156.9 152.1
C4' O4' C1' N1 195.4 228.3
C4' O4' C1' C2' 321.9 351.0
C4' O4' C1' H1' 72.1 111.3
C3' C4' C5' H5' 56.2 60.0
C3' C4' C5' H5'' 297.9 299.0
C5' C4' C3' O4' 239.7 241.9
C5' C4' C3' H4' 123.7 124.3
O4' C4' C3' H4' 244.0 242.4
C3' C4' O4' C1' 1.1 347.3
C1' C2' C3' C4' 305.7 326.6
C4' C3' C2' H2' 61.5 84.1
C4' C3' C2' H2'' 191.3 205.7
C2' C3' C4' O3' 112.4 116.9
C2' C3' C4' H3' 238.6 237.2
O3' C3' C4' H3' 126.2 120.2
C4' C3' O3' HO3' 179.9 271.9
H4' C4' C5' H5' 178.1 185.7
H4' C4' C5' H5'' 59.9 64.8
C5' C4' H4' O4' 119.8 117.1
C5' C4' H4' C3' 233.0 233.8
O4' C4' H4' C3' 113.1 116.7
H4' C4' O4' C1' 246.6 226.8
H4' C4' C3' C2' 151.6 146.9
H4' C4' C3' O3' 39.2 29.9
H4' C4' C3' H3' 273.0 269.7
C1' O4' C4' C3' 1.1 347.3
C1' O4' C4' H4' 246.6 226.8
N1 C1' O4' C2' 233.4 237.3
N1 C1' O4' H1' 123.3 117.0
O4' C1' N1 C6 33.5 32.9
O4' C1' N1 C2 214.1 212.9
C2' C1' O4' H1' 249.8 239.7
O4' C1' C2' C3' 58.2 26.9
O4' C1' C2' H2' 300.9 270.0
O4' C1' C2' H2'' 173.1 149.4
O4' C1' N1 C2' 118.1 119.4
O4' C1' N1 H1' 241.4 242.9
C2' C1' N1 H1' 123.3 123.5
N1 C1' C2' C3' 181.5 147.4
N1 C1' C2' H2' 64.2 30.6
N1 C1' C2' H2'' 296.5 269.9
C6 N1 C1' C2 179.4 180.0
C1' N1 C6 C5 180.8 180.0
C1' N1 C6 H6 1.1 360.0
C1' N1 C2 O2 358.5 0.2
C1' N1 C2 N3 179.2 180.1
C4' C3' C2' C1' 305.7 326.6
O4' C1' C2' N1 236.7 239.5
O4' C1' C2' H1' 109.7 118.1
N1 C1' C2' H1' 233.0 238.6
C2' C1' N1 C6 275.4 273.5
C2' C1' N1 C2 96.0 93.5
C3' C2' C1' H2' 117.3 116.9
C3' C2' C1' H2'' 245.0 237.5
C1' C2' C3' O3' 64.2 83.6
C1' C2' C3' H3' 185.6 203.6
H2' C2' C1' H2'' 127.8 120.7
O4' C1' H1' N1 122.8 118.0
O4' C1' H1' C2' 252.2 242.3
N1 C1' H1' C2' 129.4 124.3
H1' C1' N1 C6 152.1 150.0
H1' C1' N1 C2 332.7 330.0
H1' C1' C2' C3' 308.5 268.8
H1' C1' C2' H2' 191.2 151.9
H1' C1' C2' H2'' 63.4 31.3
C6 N1 C1' C2' 275.4 273.5
C6 N1 C1' H1' 152.1 150.0
C1' N1 C6 C2 180.6 180.0
C6 N1 C2 O2 179.1 180.2
C6 N1 C2 N3 359.8 0.1
C5 C6 N1 H6 179.6 180.0
N1 C6 C5 C4 0.0 360.0
N1 C6 C5 C5M 180.2 180.0
C2 N1 C1' C2' 96.0 93.5
C2 N1 C1' H1' 332.7 330.0
C1' N1 C2 C6 179.4 180.0
C2 N1 C6 C5 0.2 0.0
C2 N1 C6 H6 180.5 180.0
O2 C2 N1 N3 179.3 180.1
N1 C2 N3 C1Q 180.2 180.0
N1 C2 N3 C4 0.0 359.8
C5 C6 N1 C2 0.2 0.0
N1 C6 C5 H6 180.4 180.0
N3 C4 C5 C6 359.8 359.9
O4 C4 C5 C6 179.6 179.9
C4 C5 C6 C5M 179.8 180.0
C6 C5 C5M H71 63.4 64.4
C6 C5 C5M H72 303.7 304.2
C6 C5 C5M H73 183.2 184.6
H6 C6 N1 C2 180.5 180.0
N1 C6 H6 C5 179.6 180.0
H6 C6 C5 C4 179.7 180.0
H6 C6 C5 C5M 359.9 0.0
N1 C2 O2 N3 180.7 179.9
O2 C2 N3 C1Q 0.9 359.9
O2 C2 N3 C4 180.8 179.7
N1 C2 N3 O2 179.3 180.1
C1Q N3 C2 C4 180.2 180.2
C2 N3 C1Q C2Q 250.0 89.8
C2 N3 C1Q H1Q 130.3 211.0
C2 N3 C1Q H2Q 12.2 328.3
C2 N3 C4 O4 180.4 180.2
C2 N3 C4 C5 0.2 0.2
C2 N3 C1Q C4 179.8 179.8
C1Q N3 C4 O4 0.2 0.0
C1Q N3 C4 C5 180.0 180.0
C2Q C1Q N3 H1Q 119.7 238.8
C2Q C1Q N3 H2Q 237.8 121.6
N3 C1Q C2Q H2 180.0 298.6
N3 C1Q C2Q H3Q 34.0 60.1
N3 C1Q C2Q H4Q 143.1 179.4
H1Q C1Q N3 H2Q 118.1 242.7
C6 C5 C4 N3 359.8 359.9
C2 N3 C4 C1Q 180.2 180.2
C4 N3 C1Q C2Q 70.1 270.0
C4 N3 C1Q H1Q 310.4 31.2
C4 N3 C1Q H2Q 192.4 148.5
O4 C4 N3 C5 180.2 180.0
N3 C4 C5 C5M 179.6 179.9
C2Q C1Q N3 C4 70.1 270.0
N3 C1Q C2Q H1Q 241.0 119.6
N3 C1Q C2Q H2Q 124.8 240.2
H1Q C1Q C2Q H2Q 243.7 120.6
H2 C2Q C1Q H3Q 146.0 238.5
H2 C2Q C1Q H4Q 36.9 119.3
H3Q C2Q C1Q H4Q 250.9 240.7
H1Q C1Q N3 C4 310.4 31.2
N3 C1Q H1Q C2Q 123.8 238.4
N3 C1Q H1Q H2Q 239.5 116.6
C2Q C1Q H1Q H2Q 115.7 238.2
H1Q C1Q C2Q H2 298.9 179.1
H1Q C1Q C2Q H3Q 153.0 300.5
H1Q C1Q C2Q H4Q 262.0 59.8
H2Q C1Q N3 C4 192.4 148.5
N3 C1Q H2Q C2Q 233.7 121.8
N3 C1Q H2Q H1Q 117.3 243.4
C2Q C1Q H2Q H1Q 243.7 121.6
H2Q C1Q C2Q H2 55.2 58.4
H2Q C1Q C2Q H3Q 269.2 179.9
H2Q C1Q C2Q H4Q 18.3 299.2
H2 C2Q C1Q H1Q 298.9 179.1
H2 C2Q C1Q H2Q 55.2 58.4
C1Q C2Q H2 H3Q 227.8 122.5
C1Q C2Q H2 H4Q 289.2 239.6
H3Q C2Q H2 H4Q 61.5 117.2
H3Q C2Q C1Q H1Q 153.0 300.5
H3Q C2Q C1Q H2Q 269.2 179.9
C1Q C2Q H3Q H2 136.8 237.5
C1Q C2Q H3Q H4Q 101.4 120.4
H2 C2Q H3Q H4Q 324.6 242.8
H4Q C2Q C1Q H1Q 262.0 59.8
H4Q C2Q C1Q H2Q 18.3 299.2
C1Q C2Q H4Q H2 119.9 121.0
C1Q C2Q H4Q H3Q 256.8 239.0
H2 C2Q H4Q H3Q 136.8 118.0
C6 C5 C4 O4 179.6 179.9
N3 C4 O4 C5 179.7 180.0
O4 C4 C5 C5M 359.4 359.9
C4 C5 C6 H6 179.7 180.0
C6 C5 C4 C5M 180.2 180.0
N3 C4 C5 O4 180.3 180.0
C4 C5 C5M H71 243.5 244.4
C4 C5 C5M H72 123.9 124.3
C4 C5 C5M H73 3.4 4.6
C5M C5 C6 H6 359.9 0.0
C6 C5 C5M C4 179.8 180.0
H71 C5M C5 H72 119.7 120.2
H71 C5M C5 H73 240.1 239.8
H72 C5M C5 H73 120.5 119.6
C5 C5M H71 H72 240.1 239.7
C5 C5M H71 H73 119.4 120.3
H72 C5M H71 H73 239.3 240.7
C5 C5M H72 H71 119.6 120.3
C5 C5M H72 H73 240.2 240.0
H71 C5M H72 H73 120.5 119.6
C5 C5M H73 H71 240.5 239.7
C5 C5M H73 H72 120.2 120.1
H71 C5M H73 H72 239.7 240.4
C2' C3' C4' H4' 151.6 146.9
C4' C3' C2' O3' 241.5 242.9
C4' C3' C2' H3' 120.1 123.0
C3' C2' C1' H1' 308.5 268.8
C1' C2' C3' H2' 244.2 242.5
C1' C2' C3' H2'' 114.4 120.8
H2' C2' C3' H2'' 230.3 238.3
O3' C3' C2' H3' 238.5 240.1
C2' C3' O3' HO3' 72.5 159.2
H2' C2' C1' H1' 191.2 151.9
C1' C2' H2' C3' 102.9 112.3
C1' C2' H2' H2'' 232.6 237.3
C3' C2' H2' H2'' 129.7 125.1
H2' C2' C3' O3' 180.0 201.1
H2' C2' C3' H3' 301.5 321.1
H2'' C2' C1' H1' 63.4 31.3
C1' C2' H2'' C3' 258.5 244.4
C1' C2' H2'' H2' 127.9 122.0
C3' C2' H2'' H2' 229.3 237.5
H2'' C2' C3' O3' 309.7 322.8
H2'' C2' C3' H3' 71.2 82.7
O3' C3' C4' H4' 39.2 29.9
C4' C3' O3' C2' 107.4 112.7
C4' C3' O3' H3' 232.1 236.1
O3' C3' C2' H2' 180.0 201.1
O3' C3' C2' H2'' 309.7 322.8
C2' C3' O3' H3' 124.7 123.4
H3' C3' C4' H4' 273.0 269.7
C4' C3' H3' C2' 248.4 242.9
C4' C3' H3' O3' 128.7 121.7
H3' C3' C2' H2' 301.5 321.1
H3' C3' C2' H2'' 71.2 82.7
C2' C3' H3' O3' 240.3 238.7
H3' C3' O3' HO3' 307.9 35.8
HO3' O3' C3' H3' 307.9 35.8