PDB Chemical Component U8U

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 U8U

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C2 1.336 1.421
N1 C6 1.459 1.400
N1 C1' 1.456 1.435
C2 S2 1.810 1.683
C2 N3 1.384 1.394
N3 C4 1.383 1.386
N3 HN3 1.000 1.016
C4 O4 1.229 1.227
C4 C5 1.445 1.486
C5 C6 1.355 1.339
C5 C 1.517 1.495
C6 H6 1.080 1.085
C N 1.472 1.435
C HC1 1.100 1.090
C HC2 1.100 1.090
N CA 1.474 1.465
N HN1 1.000 1.026
CA HA1 1.100 1.093
CA HA2 1.100 1.093
CA HA3 1.100 1.094
C1' C2' 1.530 1.519
C1' O4' 1.426 1.437
C1' H1' 1.100 1.094
O2' C2' 1.408 1.413
O2' HO2' 0.950 0.974
C2' C3' 1.529 1.514
C2' H2' 1.100 1.097
O3' C3' 1.431 1.427
O3' HO3' 0.950 0.969
C3' C4' 1.523 1.523
C3' H3' 1.100 1.093
C4' O4' 1.422 1.444
C4' C5' 1.526 1.523
C4' H4' 1.099 1.095
C5' O5' 1.411 1.416
C5' H5' 1.100 1.092
C5' H5'' 1.100 1.091
O5' P 1.610 1.619
P OP1 1.480 1.501
P OP2 1.480 1.617
P OP3   1.618
OP2 HOP2 0.950 0.980
OP3 HOP3   0.980

Bond Angles for U8U

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 118.0 118.4
C2 N1 C1' 123.2 123.5
N1 C2 S2 121.6 125.5
N1 C2 N3 119.4 116.3
C6 N1 C1' 118.8 118.0
N1 C6 C5 121.4 125.2
N1 C6 H6 119.3 114.7
N1 C1' C2' 111.9 112.5
N1 C1' O4' 113.5 109.0
N1 C1' H1' 104.0 107.3
S2 C2 N3 119.0 118.2
C2 N3 C4 126.2 126.9
C2 N3 HN3 116.9 116.6
C4 N3 HN3 116.9 116.6
N3 C4 O4 120.1 123.7
N3 C4 C5 113.9 114.7
O4 C4 C5 126.0 121.6
C4 C5 C6 120.9 118.5
C4 C5 C 119.5 118.0
C6 C5 C 119.6 123.5
C5 C6 H6 119.3 120.0
C5 C N 109.5 107.5
C5 C HC1 109.5 108.8
C5 C HC2 109.4 108.8
N C HC1 109.4 110.8
N C HC2 109.5 110.7
C N CA 113.6 111.7
C N HN1 108.1 110.4
HC1 C HC2 109.5 110.1
CA N HN1 108.1 108.2
N CA HA1 109.4 110.1
N CA HA2 109.4 110.2
N CA HA3 109.5 110.2
HA1 CA HA2 109.5 108.8
HA1 CA HA3 109.5 108.8
HA2 CA HA3 109.5 108.7
C2' C1' O4' 106.4 106.5
C2' C1' H1' 111.4 112.6
C1' C2' O2' 109.6 112.6
C1' C2' C3' 105.1 102.0
C1' C2' H2' 112.5 111.1
O4' C1' H1' 109.8 108.9
C1' O4' C4' 108.4 109.2
C2' O2' HO2' 109.5 107.2
O2' C2' C3' 110.1 112.3
O2' C2' H2' 107.6 108.6
C3' C2' H2' 112.0 110.1
C2' C3' O3' 112.9 110.3
C2' C3' C4' 102.7 102.1
C2' C3' H3' 112.1 114.0
C3' O3' HO3' 109.5 106.4
O3' C3' C4' 110.6 107.9
O3' C3' H3' 104.4 107.8
C4' C3' H3' 114.4 114.5
C3' C4' O4' 104.7 105.9
C3' C4' C5' 115.0 113.3
C3' C4' H4' 109.7 112.2
O4' C4' C5' 111.5 108.2
O4' C4' H4' 113.4 107.7
C5' C4' H4' 102.8 109.3
C4' C5' O5' 111.0 108.6
C4' C5' H5' 108.6 110.1
C4' C5' H5'' 109.0 110.1
O5' C5' H5' 108.6 109.2
O5' C5' H5'' 109.0 109.3
C5' O5' P 120.2 118.5
H5' C5' H5'' 110.6 109.6
O5' P OP1 108.2 115.0
O5' P OP2 107.9 103.8
O5' P OP3   102.9
OP1 P OP2 119.7 115.3
OP1 P OP3   114.9
OP2 P OP3   103.3
P OP2 HOP2 109.5 119.0
P OP3 HOP3   119.0

Torsion Angles for U8U

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C6 N1 C2 C1' 180.9 182.1
C2 N1 C6 C5 3.5 358.5
C2 N1 C6 H6 183.5 178.5
C2 N1 C1' C2' 89.2 96.4
C2 N1 C1' O4' 209.5 214.3
C2 N1 C1' H1' 328.8 332.0
S2 C2 N1 N3 180.5 180.5
N1 C2 N3 C4 359.4 359.4
N1 C2 N3 HN3 179.4 179.5
C2 N1 C6 C1' 179.2 178.1
C6 N1 C2 S2 178.4 182.2
C6 N1 C2 N3 357.8 1.7
C6 N1 C1' C2' 268.3 274.4
C6 N1 C1' O4' 28.7 32.2
C6 N1 C1' H1' 147.9 150.0
C4 C5 C6 N1 357.8 0.2
N1 C6 C5 C 177.8 180.1
C5 C6 N1 H6 180.0 180.0
C2 N1 C1' C6 180.9 182.1
C1' N1 C2 S2 357.5 0.1
C1' N1 C2 N3 177.0 179.6
C1' N1 C6 C5 184.4 180.4
C1' N1 C6 H6 4.4 0.4
C2' C1' N1 O4' 239.6 242.1
C2' C1' N1 H1' 120.4 124.4
N1 C1' C2' O2' 244.9 270.6
N1 C1' C2' C3' 126.6 150.0
N1 C1' C2' H2' 4.6 32.7
O4' C1' N1 H1' 240.8 242.3
N1 C1' O4' C4' 212.4 227.1
S2 C2 N1 C6 178.4 182.2
S2 C2 N1 C1' 357.5 0.1
N1 C2 S2 N3 179.5 179.5
S2 C2 N3 C4 178.9 178.9
S2 C2 N3 HN3 358.9 359.0
N3 C2 N1 C6 357.8 1.7
N3 C2 N1 C1' 177.0 179.6
N1 C2 N3 S2 180.5 180.4
C4 N3 C2 HN3 180.0 179.9
C2 N3 C4 O4 181.3 179.6
C2 N3 C4 C5 1.9 359.3
C2 N3 C4 HN3 180.0 180.1
O4 C4 N3 C5 179.4 180.3
N3 C4 C5 C6 359.5 0.9
N3 C4 C5 C 179.6 181.0
C2 N3 HN3 C4 180.0 179.9
HN3 N3 C4 O4 1.3 359.5
HN3 N3 C4 C5 181.9 179.2
O4 C4 N3 HN3 1.3 359.5
N3 C4 O4 C5 180.7 179.7
O4 C4 C5 C6 180.2 180.6
O4 C4 C5 C 0.2 0.7
N1 C6 C5 C4 357.8 0.2
C5 C4 N3 HN3 181.9 179.2
N3 C4 C5 O4 179.4 180.3
C6 C5 C4 C 179.9 179.9
C4 C5 C6 H6 177.9 180.1
C4 C5 C N 258.3 270.0
C4 C5 C HC1 138.3 149.9
C4 C5 C HC2 18.3 30.0
C5 C6 N1 C1' 184.4 180.4
N1 C6 C5 H6 180.0 180.0
C4 C5 C6 C 180.1 180.1
C6 C5 C N 78.4 90.0
C6 C5 C HC1 318.4 330.0
C6 C5 C HC2 198.4 210.0
C4 C5 C C6 179.9 179.9
C C5 C6 H6 357.8 0.1
N C C5 HC1 120.0 120.1
N C C5 HC2 240.0 240.0
C5 C N CA 177.0 179.5
C5 C N HN1 297.0 300.0
HC1 C C5 HC2 120.0 119.9
H6 C6 N1 C1' 4.4 0.4
N1 C6 H6 C5 180.0 180.0
H6 C6 C5 C 357.8 0.1
C5 C N HC1 240.0 241.2
C5 C N HC2 120.0 118.8
HC1 C N HC2 240.0 237.6
CA N C HN1 240.0 239.6
C N CA HA1 257.8 147.3
C N CA HA2 137.9 27.3
C N CA HA3 17.8 267.3
C5 C HC1 N 120.1 118.0
C5 C HC1 HC2 240.0 240.8
N C HC1 HC2 120.0 122.8
HC1 C N CA 297.0 298.3
HC1 C N HN1 57.0 58.8
C5 C HC2 N 239.9 242.0
C5 C HC2 HC1 120.0 119.2
N C HC2 HC1 240.1 237.2
HC2 C N CA 57.0 60.8
HC2 C N HN1 177.0 181.2
CA N C HC1 297.0 298.3
CA N C HC2 57.0 60.8
C N CA HN1 120.0 121.7
HA1 CA N HA2 120.0 120.0
HA1 CA N HA3 240.0 240.0
HA2 CA N HA3 120.0 120.0
HN1 N C HC1 57.0 58.8
HN1 N C HC2 177.0 181.2
C N HN1 CA 236.6 237.5
HN1 N CA HA1 137.8 25.6
HN1 N CA HA2 17.9 265.6
HN1 N CA HA3 257.8 145.6
HA1 CA N HN1 137.8 25.6
N CA HA1 HA2 240.0 239.2
N CA HA1 HA3 120.0 120.9
HA2 CA HA1 HA3 240.0 241.7
HA2 CA N HN1 17.9 265.6
N CA HA2 HA1 119.9 120.8
N CA HA2 HA3 240.0 239.1
HA1 CA HA2 HA3 120.0 118.3
HA3 CA N HN1 257.8 145.6
N CA HA3 HA1 240.0 239.2
N CA HA3 HA2 120.0 120.8
HA1 CA HA3 HA2 240.0 241.7
N1 C1' C2' O4' 124.5 119.3
N1 C1' C2' H1' 244.1 238.6
O4' C1' C2' H1' 119.6 119.3
C2' C1' O4' C4' 335.9 348.7
C1' C2' O2' HO2' 154.0 322.3
O2' C2' C1' C3' 118.3 120.6
O2' C2' C1' H2' 240.3 237.9
C3' C2' C1' H2' 122.1 117.3
C1' C2' C3' O3' 137.5 77.4
C1' C2' C3' C4' 18.4 322.9
C1' C2' C3' H3' 255.1 198.9
N1 C1' O4' C2' 236.5 238.4
N1 C1' O4' H1' 115.9 116.8
C2' C1' O4' H1' 239.3 238.4
O4' C1' C2' O2' 120.5 151.3
O4' C1' C2' C3' 2.2 30.7
O4' C1' C2' H2' 240.1 273.4
C3' C4' O4' C1' 36.4 347.2
C1' O4' C4' C5' 161.4 109.0
C1' O4' C4' H4' 276.7 227.0
N1 C1' H1' C2' 120.7 124.3
N1 C1' H1' O4' 238.3 242.2
C2' C1' H1' O4' 117.6 117.9
H1' C1' C2' O2' 0.8 32.1
H1' C1' C2' C3' 242.6 271.5
H1' C1' C2' H2' 120.5 154.2
H1' C1' O4' C4' 96.6 110.3
O2' C2' C1' O4' 120.5 151.3
O2' C2' C1' H1' 0.8 32.1
C1' C2' O2' C3' 244.9 245.5
C1' C2' O2' H2' 122.6 123.5
C3' C2' O2' H2' 237.7 238.0
O2' C2' C3' O3' 19.6 316.5
O2' C2' C3' C4' 260.5 202.0
O2' C2' C3' H3' 137.3 78.0
HO2' O2' C2' C3' 269.1 76.8
HO2' O2' C2' H2' 31.4 198.8
C3' C2' C1' O4' 2.2 30.7
C3' C2' C1' H1' 242.6 271.5
C1' C2' C3' O2' 117.9 120.8
C1' C2' C3' H2' 237.6 242.0
C3' C2' O2' HO2' 269.1 76.8
O2' C2' C3' H2' 119.7 121.1
C2' C3' O3' HO3' 83.5 195.5
O3' C3' C2' C4' 119.1 114.5
O3' C3' C2' H3' 242.3 238.5
C4' C3' C2' H3' 123.2 124.0
C2' C3' C4' O4' 327.0 31.5
C2' C3' C4' C5' 204.3 273.1
C2' C3' C4' H4' 89.0 148.7
H2' C2' C1' O4' 240.1 273.4
H2' C2' C1' H1' 120.5 154.2
C1' C2' H2' O2' 239.2 235.6
C1' C2' H2' C3' 118.1 112.3
H2' C2' O2' HO2' 31.4 198.8
O2' C2' H2' C3' 238.8 236.7
H2' C2' C3' O3' 259.9 195.4
H2' C2' C3' C4' 140.8 80.9
H2' C2' C3' H3' 17.5 316.9
O3' C3' C2' H2' 259.9 195.4
C2' C3' O3' C4' 245.6 249.3
C2' C3' O3' H3' 122.1 125.1
C4' C3' O3' H3' 236.5 235.8
O3' C3' C4' O4' 206.2 275.3
O3' C3' C4' C5' 83.5 156.8
O3' C3' C4' H4' 328.3 32.5
HO3' O3' C3' C4' 197.9 306.2
HO3' O3' C3' H3' 321.4 70.4
C1' O4' C4' C3' 36.4 347.2
C4' C3' C2' H2' 140.8 80.9
C2' C3' C4' O3' 120.7 116.3
C2' C3' C4' H3' 238.3 236.3
C4' C3' O3' HO3' 197.9 306.2
O3' C3' C4' H3' 117.5 120.1
O4' C4' C3' C5' 122.7 118.4
O4' C4' C3' H4' 238.0 242.8
C5' C4' C3' H4' 115.2 124.4
C3' C4' C5' O5' 57.9 179.5
C3' C4' C5' H5' 298.5 60.0
C3' C4' C5' H5'' 177.9 299.1
H3' C3' C2' H2' 17.5 316.9
C2' C3' H3' O3' 237.4 237.2
C2' C3' H3' C4' 116.4 117.0
H3' C3' O3' HO3' 321.4 70.4
O3' C3' H3' C4' 239.0 239.9
H3' C3' C4' O4' 88.7 155.2
H3' C3' C4' C5' 326.0 36.8
H3' C3' C4' H4' 210.7 272.4
C4' O4' C1' H1' 96.6 110.3
O4' C4' C3' H3' 88.7 155.2
C3' C4' O4' C5' 235.0 238.3
C3' C4' O4' H4' 119.6 120.2
C5' C4' O4' H4' 244.6 241.9
O4' C4' C5' O5' 298.9 62.4
O4' C4' C5' H5' 179.5 302.9
O4' C4' C5' H5'' 58.9 182.0
C5' C4' C3' H3' 326.0 36.8
C3' C4' C5' O4' 119.0 117.1
C3' C4' C5' H4' 240.8 234.1
O4' C4' C5' H4' 121.8 117.0
O5' C5' C4' H5' 119.4 119.5
O5' C5' C4' H5'' 240.0 240.4
C4' C5' O5' P 181.5 180.0
H5' C5' C4' H5'' 120.6 120.9
H4' C4' C3' H3' 210.7 272.4
C3' C4' H4' O4' 243.3 243.8
C3' C4' H4' C5' 122.8 126.5
O4' C4' H4' C5' 239.5 242.7
H4' C4' C5' O5' 177.1 305.4
H4' C4' C5' H5' 57.7 185.9
H4' C4' C5' H5'' 297.1 65.0
O5' C5' C4' H4' 177.1 305.4
C4' C5' O5' H5' 240.6 239.9
C4' C5' O5' H5'' 120.0 120.1
H5' C5' O5' H5'' 239.4 240.2
C5' O5' P OP1 61.5 180.1
C5' O5' P OP2 290.6 53.2
C5' O5' P OP3   305.8
H5' C5' C4' H4' 57.7 185.9
C4' C5' H5' O5' 120.8 119.2
C4' C5' H5' H5'' 240.4 238.8
O5' C5' H5' H5'' 119.6 119.6
H5' C5' O5' P 300.9 300.1
H5'' C5' C4' H4' 297.1 65.0
C4' C5' H5'' O5' 238.8 240.8
C4' C5' H5'' H5' 119.4 121.2
O5' C5' H5'' H5' 240.6 240.4
H5'' C5' O5' P 61.5 59.9
P O5' C5' H5' 300.9 300.1
P O5' C5' H5'' 61.5 59.9
OP1 P O5' OP2 130.9 126.9
OP1 P O5' OP3   234.2
OP2 P O5' OP3   107.4
O5' P OP2 HOP2 33.5 175.4
O5' P OP3 HOP3   186.2
O5' P OP1 OP2 235.9 239.3
O5' P OP1 OP3   119.3
OP2 P OP1 OP3   240.0
OP1 P OP2 HOP2 269.2 48.7
OP1 P OP3 HOP3   312.0
O5' P OP2 OP1 124.2 126.6
O5' P OP2 OP3   252.9
OP1 P OP2 OP3   126.2
OP2 P OP3 HOP3   78.5
O5' P OP3 OP1   234.2
O5' P OP3 OP2   107.7
OP1 P OP3 OP2   233.5
OP3 P OP2 HOP2   282.5
HOP2 OP2 P OP3   282.5