PDB Chemical Component C2L

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 C2L

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
OP3 P   1.617
OP3 HOP3   0.980
P OP1 1.480 1.501
P OP2 1.482 1.618
P O5' 1.608 1.619
OP2 HOP2 0.950 0.980
O5' C5' 1.412 1.416
C5' C4' 1.528 1.523
C5' H5' 1.091 1.092
C5' H5'' 1.090 1.091
C4' O4' 1.417 1.444
C4' C3' 1.526 1.523
C4' H4' 1.092 1.095
O4' C1' 1.424 1.437
C3' O3' 1.423 1.427
C3' C2' 1.528 1.514
C3' H3' 1.089 1.093
O3' CA' 1.419 1.418
C2' O2' 1.426 1.413
C2' C1' 1.523 1.519
C2' H2' 1.086 1.097
O2' HO2' 0.950 0.973
C1' N1 1.481 1.435
C1' H1' 1.068 1.094
N1 C2 1.398 1.415
N1 C6 1.358 1.387
C2 O2 1.228 1.232
C2 N3 1.365 1.382
N3 C4 1.340 1.310
C4 N4 1.336 1.378
C4 C5 1.446 1.498
N4 H41 1.015 0.990
N4 H42 1.008 0.991
C5 C6 1.354 1.335
C5 C7 1.510 1.493
C6 H6 1.069 1.085
CA' CB' 1.528 1.517
CA' HA'1 1.090 1.095
CA' HA'2 1.090 1.094
CB' OC' 1.418 1.422
CB' HB'1 1.091 1.094
CB' HB'2 1.091 1.094
OC' CD' 1.416 1.420
CD' HD'1 1.091 1.093
CD' HD'2 1.090 1.093
CD' HD'3 1.090 1.093
C7 H71 1.091 1.090
C7 H72 1.107 1.091
C7 H73 1.086 1.090

Bond Angles for C2L

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
P OP3 HOP3   119.0
OP3 P OP1   115.3
OP3 P OP2   103.3
OP3 P O5'   103.8
OP1 P OP2 119.6 114.9
OP1 P O5' 108.9 115.0
OP2 P O5' 107.2 102.9
P OP2 HOP2 90.6 119.0
P O5' C5' 121.3 118.5
O5' C5' C4' 110.4 108.6
O5' C5' H5' 109.3 109.2
O5' C5' H5'' 109.6 109.3
C4' C5' H5' 109.7 110.1
C4' C5' H5'' 108.7 110.1
C5' C4' O4' 110.7 108.2
C5' C4' C3' 115.3 113.3
C5' C4' H4' 108.6 109.3
H5' C5' H5'' 109.2 109.6
O4' C4' C3' 105.4 105.9
O4' C4' H4' 108.1 107.7
C4' O4' C1' 108.9 109.2
C3' C4' H4' 108.6 112.2
C4' C3' O3' 113.0 107.9
C4' C3' C2' 99.7 102.1
C4' C3' H3' 110.0 114.5
O4' C1' C2' 107.1 106.5
O4' C1' N1 113.3 109.0
O4' C1' H1' 106.9 108.9
O3' C3' C2' 114.2 110.3
O3' C3' H3' 110.2 107.8
C3' O3' CA' 112.9 111.3
C2' C3' H3' 109.1 114.0
C3' C2' O2' 109.6 112.3
C3' C2' C1' 102.0 102.0
C3' C2' H2' 109.8 110.1
O3' CA' CB' 109.9 109.1
O3' CA' HA'1 110.2 108.1
O3' CA' HA'2 109.8 108.3
O2' C2' C1' 109.1 112.6
O2' C2' H2' 115.1 108.6
C2' O2' HO2' 109.6 107.1
C1' C2' H2' 110.4 111.1
C2' C1' N1 114.0 112.5
C2' C1' H1' 111.2 112.6
N1 C1' H1' 104.2 107.3
C1' N1 C2 119.9 122.0
C1' N1 C6 119.6 118.7
C2 N1 C6 120.4 119.3
N1 C2 O2 121.3 121.0
N1 C2 N3 118.8 118.8
N1 C6 C5 121.9 123.4
N1 C6 H6 114.5 115.3
O2 C2 N3 120.0 120.2
C2 N3 C4 121.3 121.5
N3 C4 N4 117.4 118.6
N3 C4 C5 120.4 121.5
N4 C4 C5 122.2 119.8
C4 N4 H41 119.0 117.9
C4 N4 H42 120.4 117.9
C4 C5 C6 117.2 115.5
C4 C5 C7 123.4 120.6
H41 N4 H42 120.6 124.2
C6 C5 C7 119.4 123.9
C5 C6 H6 123.6 121.4
C5 C7 H71 106.5 109.9
C5 C7 H72 110.3 109.9
C5 C7 H73 109.8 109.9
CB' CA' HA'1 109.3 111.1
CB' CA' HA'2 108.4 110.5
CA' CB' OC' 109.6 109.0
CA' CB' HB'1 109.3 111.1
CA' CB' HB'2 108.7 110.5
HA'1 CA' HA'2 109.2 109.6
OC' CB' HB'1 110.5 108.1
OC' CB' HB'2 109.5 108.3
CB' OC' CD' 112.2 111.5
HB'1 CB' HB'2 109.3 109.7
OC' CD' HD'1 110.1 109.5
OC' CD' HD'2 109.0 109.5
OC' CD' HD'3 110.1 109.0
HD'1 CD' HD'2 108.9 110.1
HD'1 CD' HD'3 109.7 109.3
HD'2 CD' HD'3 109.0 109.4
H71 C7 H72 108.8 109.2
H71 C7 H73 110.2 109.2
H72 C7 H73 111.2 108.7

Torsion Angles for C2L

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP3 OP2   126.2
OP1 P OP3 O5'   233.4
OP2 P OP3 O5'   107.1
OP3 P OP2 HOP2   78.5
OP3 P O5' C5'   53.2
HOP3 OP3 P OP1   48.7
HOP3 OP3 P OP2   282.5
HOP3 OP3 P O5'   175.4
OP1 P OP3 HOP3   48.7
OP3 P OP1 OP2   240.0
OP3 P OP1 O5'   120.7
OP2 P OP1 O5' 236.4 240.7
OP1 P OP2 HOP2 349.6 312.0
OP1 P O5' C5' 40.1 180.1
OP2 P OP3 HOP3   282.5
OP3 P OP2 OP1   126.5
OP3 P OP2 O5'   252.3
OP1 P OP2 O5' 124.4 125.8
OP2 P O5' C5' 170.8 305.8
O5' P OP3 HOP3   175.4
OP3 P O5' OP1   233.1
OP3 P O5' OP2   107.4
OP1 P O5' OP2 229.3 234.2
O5' P OP2 HOP2 225.2 186.2
P O5' C5' C4' 162.8 180.0
P O5' C5' H5' 283.6 300.1
P O5' C5' H5'' 43.2 59.9
HOP2 OP2 P O5' 225.2 186.2
C4' C5' O5' H5' 239.2 239.9
C4' C5' O5' H5'' 119.7 120.1
O5' C5' C4' O4' 294.8 62.4
O5' C5' C4' C3' 54.3 179.5
O5' C5' C4' H4' 176.3 305.4
H5' C5' O5' H5'' 240.4 240.2
O5' C5' C4' H5' 120.5 119.5
O5' C5' C4' H5'' 239.8 240.4
H5' C5' C4' H5'' 119.3 120.9
O4' C4' C5' C3' 240.5 242.9
O4' C4' C5' H4' 118.5 117.0
C5' C4' O4' C1' 151.0 109.0
C3' C4' C5' H4' 238.0 234.1
C5' C4' C3' O3' 76.5 156.8
C5' C4' C3' C2' 198.2 273.1
C5' C4' C3' H3' 312.8 36.8
O5' C5' H5' C4' 238.9 240.8
O5' C5' H5' H5'' 119.8 119.6
C4' C5' H5' H5'' 241.0 238.8
H5' C5' C4' O4' 174.3 302.9
H5' C5' C4' C3' 293.8 60.0
H5' C5' C4' H4' 55.8 185.9
O5' C5' H5'' C4' 120.7 119.2
O5' C5' H5'' H5' 240.3 240.4
C4' C5' H5'' H5' 119.7 121.2
H5'' C5' C4' O4' 55.0 182.0
H5'' C5' C4' C3' 174.5 299.1
H5'' C5' C4' H4' 296.5 65.0
O4' C4' C5' H5' 174.3 302.9
O4' C4' C5' H5'' 55.0 182.0
C5' C4' O4' C3' 125.3 121.7
C5' C4' O4' H4' 241.2 241.9
C3' C4' O4' H4' 115.9 120.2
O4' C4' C3' O3' 198.9 275.3
O4' C4' C3' C2' 320.6 31.5
O4' C4' C3' H3' 75.2 155.2
C4' O4' C1' C2' 359.3 348.7
C4' O4' C1' N1 232.7 227.1
C4' O4' C1' H1' 118.6 110.3
C3' C4' C5' H5' 293.8 60.0
C3' C4' C5' H5'' 174.5 299.1
C5' C4' C3' O4' 237.6 241.6
C5' C4' C3' H4' 122.0 124.4
O4' C4' C3' H4' 244.4 242.8
C3' C4' O4' C1' 25.7 347.2
O3' C3' C4' C2' 238.3 243.7
O3' C3' C4' H3' 123.7 120.1
C4' C3' O3' CA' 181.9 290.8
C2' C3' C4' H3' 245.4 236.3
C4' C3' C2' O2' 281.7 202.0
C4' C3' C2' C1' 37.3 322.9
C4' C3' C2' H2' 154.4 80.9
H4' C4' C5' H5' 55.8 185.9
H4' C4' C5' H5'' 296.5 65.0
C5' C4' H4' O4' 120.1 117.3
C5' C4' H4' C3' 234.0 233.5
O4' C4' H4' C3' 113.8 116.2
H4' C4' O4' C1' 269.7 227.0
H4' C4' C3' O3' 314.5 32.5
H4' C4' C3' C2' 76.2 148.7
H4' C4' C3' H3' 190.8 272.4
C1' O4' C4' C3' 25.7 347.2
C1' O4' C4' H4' 269.7 227.0
C3' C2' C1' O4' 335.9 30.7
O2' C2' C1' O4' 91.8 151.3
O4' C1' C2' H2' 219.2 273.4
C2' C1' O4' N1 126.6 121.6
C2' C1' O4' H1' 240.7 238.4
N1 C1' O4' H1' 114.1 116.8
O4' C1' N1 C2 216.1 212.2
O4' C1' N1 C6 36.2 32.3
O3' C3' C4' H4' 314.5 32.5
C4' C3' O3' C2' 113.1 110.7
C4' C3' O3' H3' 236.4 235.8
C2' C3' O3' H3' 123.3 125.1
O3' C3' C2' O2' 42.6 316.5
O3' C3' C2' C1' 158.2 77.4
O3' C3' C2' H2' 275.3 195.4
C3' O3' CA' CB' 177.8 179.0
C3' O3' CA' HA'1 57.3 300.0
C3' O3' CA' HA'2 296.9 58.8
C2' C3' C4' H4' 76.2 148.7
C4' C3' C2' O3' 239.2 245.5
C4' C3' C2' H3' 115.3 124.0
O4' C1' C2' C3' 335.9 30.7
O3' C3' C2' H3' 236.1 238.5
C2' C3' O3' CA' 68.7 180.0
O2' C2' C3' C1' 244.4 239.2
O2' C2' C3' H2' 127.3 121.1
C3' C2' O2' HO2' 180.0 168.8
C1' C2' C3' H2' 242.9 242.0
C3' C2' C1' N1 102.0 150.0
C3' C2' C1' H1' 219.4 271.5
H3' C3' C4' H4' 190.8 272.4
C4' C3' H3' O3' 125.3 120.1
C4' C3' H3' C2' 251.5 243.0
O3' C3' H3' C2' 126.2 122.8
H3' C3' O3' CA' 305.4 54.9
H3' C3' C2' O2' 166.5 78.0
H3' C3' C2' C1' 282.1 198.9
H3' C3' C2' H2' 39.2 316.9
CA' O3' C3' C2' 68.7 180.0
CA' O3' C3' H3' 305.4 54.9
CB' CA' O3' HA'1 120.5 239.0
CB' CA' O3' HA'2 240.9 120.3
O3' CA' CB' OC' 292.6 299.1
O3' CA' CB' HB'1 53.8 180.0
O3' CA' CB' HB'2 173.0 58.0
HA'1 CA' O3' HA'2 120.4 241.3
O4' C1' C2' O2' 91.8 151.3
O2' C2' C3' H3' 166.5 78.0
C3' C2' O2' C1' 111.0 114.5
C3' C2' O2' H2' 235.7 238.0
C1' C2' O2' H2' 124.7 123.5
O2' C2' C1' N1 217.9 270.6
O2' C2' C1' H1' 335.4 32.1
O4' C1' C2' N1 233.9 240.7
O4' C1' C2' H1' 116.4 119.3
C1' C2' C3' H3' 282.1 198.9
C3' C2' C1' O2' 244.1 239.4
C3' C2' C1' H2' 116.7 117.3
O2' C2' C1' H2' 232.6 237.9
C1' C2' O2' HO2' 69.0 54.3
N1 C1' C2' H1' 242.6 238.6
C2' C1' N1 C2 93.2 94.4
C2' C1' N1 C6 273.3 274.4
H2' C2' C3' H3' 39.2 316.9
C3' C2' H2' O2' 124.2 123.3
C3' C2' H2' C1' 248.3 247.7
O2' C2' H2' C1' 124.0 124.4
H2' C2' O2' HO2' 304.4 290.8
H2' C2' C1' N1 345.3 32.7
H2' C2' C1' H1' 102.7 154.2
HO2' O2' C2' C1' 69.0 54.3
HO2' O2' C2' H2' 304.4 290.8
O4' C1' N1 C2' 122.8 117.9
O4' C1' N1 H1' 244.3 242.3
N1 C1' C2' H2' 345.3 32.7
C2' C1' N1 H1' 121.4 124.4
C2 N1 C1' C6 179.9 180.0
C1' N1 C2 O2 0.2 0.0
C1' N1 C2 N3 180.1 180.0
C1' N1 C6 C5 180.3 180.0
C1' N1 C6 H6 0.4 360.0
O4' C1' H1' C2' 243.4 242.1
O4' C1' H1' N1 120.2 117.8
H1' C1' C2' H2' 102.7 154.2
C2' C1' H1' N1 236.8 235.7
H1' C1' N1 C2 331.8 330.0
H1' C1' N1 C6 151.9 150.0
C2 N1 C1' H1' 331.8 330.0
C1' N1 C2 C6 180.1 180.0
C2 N1 C6 C5 0.4 0.0
C2 N1 C6 H6 180.5 180.0
O2 C2 N1 N3 180.1 180.0
N1 C2 N3 C4 359.7 360.0
C6 N1 C1' H1' 151.9 150.0
C1' N1 C6 C2 179.9 180.0
C6 N1 C2 O2 180.1 180.0
C6 N1 C2 N3 360.0 360.0
C4 C5 C6 N1 359.6 360.0
N1 C6 C5 C7 179.7 180.0
C5 C6 N1 H6 179.8 180.0
O2 C2 N1 C6 180.1 180.0
N1 C2 O2 N3 179.9 180.0
O2 C2 N3 C4 179.6 180.0
N3 C2 N1 C6 360.0 360.0
N1 C2 N3 O2 180.1 180.0
C2 N3 C4 N4 180.4 180.0
C2 N3 C4 C5 0.2 0.1
N4 C4 N3 C5 180.1 180.0
N3 C4 N4 H41 359.9 205.4
N3 C4 N4 H42 180.1 25.5
N3 C4 C5 C6 0.1 360.0
N3 C4 C5 C7 180.0 179.9
N3 C4 N4 C5 179.9 180.0
N4 C4 C5 C6 180.0 180.0
N4 C4 C5 C7 359.8 360.0
H41 N4 C4 H42 179.8 179.9
N1 C6 C5 C4 359.6 360.0
N3 C4 C5 N4 180.1 180.0
C5 C4 N4 H41 180.0 25.3
C5 C4 N4 H42 0.2 205.4
C6 C5 C4 C7 180.2 180.0
C4 C5 C6 H6 179.4 180.0
C4 C5 C7 H71 182.5 198.2
C4 C5 C7 H72 64.6 78.0
C4 C5 C7 H73 301.8 318.4
H41 N4 C4 C5 180.0 25.3
C4 N4 H41 H42 180.2 180.1
H42 N4 C4 C5 0.2 205.4
C4 N4 H42 H41 179.8 179.9
N1 C6 C5 H6 180.2 180.0
C4 C5 C6 C7 179.8 180.0
C6 C5 C7 H71 2.3 18.2
C6 C5 C7 H72 244.5 258.0
C6 C5 C7 H73 121.6 138.4
C4 C5 C7 C6 180.2 180.0
C7 C5 C6 H6 359.6 0.0
H71 C7 C5 H72 117.8 120.2
H71 C7 C5 H73 240.7 239.8
H72 C7 C5 H73 122.8 119.6
N1 C6 H6 C5 179.8 180.0
H6 C6 C5 C7 359.6 0.0
O3' CA' CB' HA'1 239.0 119.1
O3' CA' CB' HA'2 120.0 241.1
HA'1 CA' CB' HA'2 241.0 122.0
OC' CB' CA' HB'1 238.8 119.1
OC' CB' CA' HB'2 119.6 241.1
CA' CB' OC' CD' 180.0 179.0
HB'1 CB' CA' HB'2 240.8 122.0
O3' CA' HA'1 CB' 120.8 240.3
O3' CA' HA'1 HA'2 239.3 117.8
CB' CA' HA'1 HA'2 118.5 237.5
HA'1 CA' CB' OC' 53.7 180.0
HA'1 CA' CB' HB'1 174.9 60.9
HA'1 CA' CB' HB'2 294.1 298.8
O3' CA' HA'2 CB' 240.0 119.4
O3' CA' HA'2 HA'1 120.9 242.2
CB' CA' HA'2 HA'1 240.9 122.8
HA'2 CA' CB' OC' 172.7 58.0
HA'2 CA' CB' HB'1 293.9 298.9
HA'2 CA' CB' HB'2 53.1 176.9
OC' CB' CA' HA'1 53.7 180.0
OC' CB' CA' HA'2 172.7 58.0
CA' CB' OC' HB'1 120.5 239.0
CA' CB' OC' HB'2 240.9 120.2
HB'1 CB' OC' HB'2 120.4 241.2
CB' OC' CD' HD'1 300.0 267.0
CB' OC' CD' HD'2 180.5 146.2
CB' OC' CD' HD'3 61.1 26.6
HB'1 CB' CA' HA'1 174.9 60.9
HB'1 CB' CA' HA'2 293.9 298.9
CA' CB' HB'1 OC' 239.3 119.7
CA' CB' HB'1 HB'2 118.8 237.5
OC' CB' HB'1 HB'2 239.5 117.9
HB'1 CB' OC' CD' 59.6 300.0
HB'2 CB' CA' HA'1 294.1 298.8
HB'2 CB' CA' HA'2 53.1 176.9
CA' CB' HB'2 OC' 119.7 240.7
CA' CB' HB'2 HB'1 240.8 122.9
OC' CB' HB'2 HB'1 121.1 242.2
HB'2 CB' OC' CD' 299.2 58.8
CD' OC' CB' HB'1 59.6 300.0
CD' OC' CB' HB'2 299.2 58.8
HD'1 CD' OC' HD'2 119.5 120.8
HD'1 CD' OC' HD'3 239.0 240.5
HD'2 CD' OC' HD'3 119.5 119.7
OC' CD' HD'1 HD'2 240.5 239.6
OC' CD' HD'1 HD'3 121.3 119.3
HD'2 CD' HD'1 HD'3 240.8 239.8
OC' CD' HD'2 HD'1 120.2 120.4
OC' CD' HD'2 HD'3 239.8 240.6
HD'1 CD' HD'2 HD'3 119.6 120.2
OC' CD' HD'3 HD'1 238.7 240.4
OC' CD' HD'3 HD'2 119.5 119.7
HD'1 CD' HD'3 HD'2 240.9 239.4
C5 C7 H71 H72 241.2 239.4
C5 C7 H71 H73 119.0 120.6
H72 C7 H71 H73 237.9 241.2
C5 C7 H72 H71 116.4 120.6
C5 C7 H72 H73 238.0 239.7
H71 C7 H72 H73 121.6 119.1
C5 C7 H73 H71 243.0 239.4
C5 C7 H73 H72 122.3 120.3
H71 C7 H73 H72 239.3 240.9