PDB Chemical Component AVC

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 AVC

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
OP3 P   1.610
OP3 HOP3   0.967
P OP1 1.485 1.481
P OP2 1.486 1.609
P O5' 1.589 1.611
OP2 HOP2 0.950 0.968
O5' C5' 1.413 1.429
C5' C4' 1.501 1.530
C5' H5' 1.100 1.090
C5' H5'' 1.100 1.089
C4' O4' 1.440 1.446
C4' C3' 1.519 1.546
C4' H4' 1.100 1.090
O4' C1' 1.406 1.437
C3' O3' 1.384 1.435
C3' C2' 1.529 1.538
C3' H3' 1.100 1.090
O3' V 1.960 1.871
C2' O2' 1.382 1.459
C2' C1' 1.532 1.547
C2' H2' 1.101 1.090
O2' V 1.961 1.874
C1' N9 1.461 1.465
C1' H1' 1.100 1.090
V O1V 1.636 1.584
V O2V 1.635 1.840
O2V HV 0.950 0.968
N9 C8 1.372 1.363
N9 C4 1.375 1.373
C8 N7 1.313 1.301
C8 H8 1.080 1.081
N7 C5 1.389 1.355
C5 C6 1.410 1.405
C5 C4 1.383 1.405
C6 N6 1.336 1.384
C6 N1 1.350 1.329
N6 H61 1.001 0.969
N6 H62 1.000 0.971
N1 C2 1.340 1.321
C2 N3 1.332 1.315
C2 H2 1.081 1.080
N3 C4 1.344 1.329

Bond Angles for AVC

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
P OP3 HOP3   114.0
OP3 P OP1   109.5
OP3 P OP2   109.5
OP3 P O5'   109.5
OP1 P OP2 119.7 109.5
OP1 P O5' 107.6 109.4
OP2 P O5' 108.3 109.5
P OP2 HOP2 109.5 114.0
P O5' C5' 120.4 123.0
O5' C5' C4' 109.8 109.4
O5' C5' H5' 109.3 109.4
O5' C5' H5'' 109.3 109.5
C4' C5' H5' 109.4 109.5
C4' C5' H5'' 109.3 109.5
C5' C4' O4' 108.2 110.7
C5' C4' C3' 115.8 110.7
C5' C4' H4' 105.1 110.6
H5' C5' H5'' 109.7 109.5
O4' C4' C3' 106.5 103.1
O4' C4' H4' 114.6 110.7
C4' O4' C1' 109.0 107.1
C3' C4' H4' 106.9 110.9
C4' C3' O3' 110.9 110.2
C4' C3' C2' 105.5 102.7
C4' C3' H3' 111.7 109.0
O4' C1' C2' 107.6 107.3
O4' C1' N9 108.7 109.9
O4' C1' H1' 111.4 109.9
O3' C3' C2' 111.1 116.8
O3' C3' H3' 106.2 109.2
C3' O3' V 117.9 101.5
C2' C3' H3' 111.5 108.6
C3' C2' O2' 111.2 112.7
C3' C2' C1' 104.4 103.8
C3' C2' H2' 112.0 110.9
O3' V O2' 80.3 97.8
O3' V O1V 128.3 111.8
O3' V O2V 121.9 111.7
O2' C2' C1' 110.6 106.6
O2' C2' H2' 106.0 110.9
C2' O2' V 118.0 98.8
C1' C2' H2' 112.7 111.8
C2' C1' N9 110.0 109.9
C2' C1' H1' 110.1 109.8
O2' V O1V 100.5 111.7
O2' V O2V 97.6 111.7
N9 C1' H1' 109.1 110.1
C1' N9 C8 128.6 126.3
C1' N9 C4 125.5 126.2
O1V V O2V 109.4 111.5
V O2V HV 109.5 114.0
C8 N9 C4 105.9 107.5
N9 C8 N7 113.6 110.0
N9 C8 H8 123.2 125.0
N9 C4 C5 105.8 105.9
N9 C4 N3 127.3 135.0
N7 C8 H8 123.2 125.0
C8 N7 C5 104.0 109.4
N7 C5 C6 132.5 134.7
N7 C5 C4 110.6 107.1
C6 C5 C4 116.9 118.1
C5 C6 N6 123.8 120.7
C5 C6 N1 117.8 118.4
C5 C4 N3 126.8 119.1
N6 C6 N1 118.5 120.8
C6 N6 H61 109.5 120.1
C6 N6 H62 109.5 120.0
C6 N1 C2 118.5 121.2
H61 N6 H62 109.5 120.0
N1 C2 N3 129.3 122.4
N1 C2 H2 115.3 118.7
N3 C2 H2 115.4 118.9
C2 N3 C4 110.7 120.7

Torsion Angles for AVC

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP3 OP2   240.0
OP1 P OP3 O5'   120.0
OP2 P OP3 O5'   240.0
OP3 P OP2 HOP2   300.0
OP3 P O5' C5'   65.0
HOP3 OP3 P OP1   180.0
HOP3 OP3 P OP2   300.0
HOP3 OP3 P O5'   60.0
OP1 P OP3 HOP3   180.0
OP3 P OP1 OP2   120.0
OP3 P OP1 O5'   240.0
OP2 P OP1 O5' 124.2 120.0
OP1 P OP2 HOP2 8.6 60.0
OP1 P O5' C5' 46.9 305.0
OP2 P OP3 HOP3   300.0
OP3 P OP2 OP1   240.0
OP3 P OP2 O5'   120.0
OP1 P OP2 O5' 236.2 240.0
OP2 P O5' C5' 276.1 185.0
O5' P OP3 HOP3   60.0
OP3 P O5' OP1   120.0
OP3 P O5' OP2   240.0
OP1 P O5' OP2 130.8 120.0
O5' P OP2 HOP2 132.4 180.0
P O5' C5' C4' 221.4 180.0
P O5' C5' H5' 341.4 300.0
P O5' C5' H5'' 101.5 60.0
HOP2 OP2 P O5' 132.4 180.0
C4' C5' O5' H5' 240.0 240.0
C4' C5' O5' H5'' 119.9 120.0
O5' C5' C4' O4' 47.1 66.5
O5' C5' C4' C3' 166.5 180.1
O5' C5' C4' H4' 284.2 303.4
H5' C5' O5' H5'' 239.9 240.0
O5' C5' C4' H5' 120.0 119.9
O5' C5' C4' H5'' 240.1 240.0
H5' C5' C4' H5'' 120.1 120.0
O4' C4' C5' C3' 240.6 246.3
O4' C4' C5' H4' 122.9 123.1
C5' C4' O4' C1' 151.7 158.0
C3' C4' C5' H4' 242.3 236.7
C5' C4' C3' O3' 103.3 78.7
C5' C4' C3' C2' 223.6 203.9
C5' C4' C3' H3' 345.0 318.9
O5' C5' H5' C4' 239.7 240.0
O5' C5' H5' H5'' 119.8 120.0
C4' C5' H5' H5'' 240.2 240.0
H5' C5' C4' O4' 287.1 306.5
H5' C5' C4' C3' 46.5 60.2
H5' C5' C4' H4' 164.2 183.4
O5' C5' H5'' C4' 120.2 120.0
O5' C5' H5'' H5' 240.1 240.0
C4' C5' H5'' H5' 119.9 120.0
H5'' C5' C4' O4' 167.0 186.5
H5'' C5' C4' C3' 286.4 300.2
H5'' C5' C4' H4' 44.1 63.4
O4' C4' C5' H5' 287.1 306.5
O4' C4' C5' H5'' 167.0 186.5
C5' C4' O4' C3' 125.1 118.4
C5' C4' O4' H4' 243.1 237.0
C3' C4' O4' H4' 118.0 118.6
O4' C4' C3' O3' 223.6 197.1
O4' C4' C3' C2' 344.0 322.3
O4' C4' C3' H3' 105.4 77.3
C4' O4' C1' C2' 333.8 334.5
C4' O4' C1' N9 214.7 215.1
C4' O4' C1' H1' 94.5 93.9
C3' C4' C5' H5' 46.5 60.2
C3' C4' C5' H5'' 286.4 300.2
C5' C4' C3' O4' 239.7 241.6
C5' C4' C3' H4' 116.7 123.1
O4' C4' C3' H4' 237.1 241.5
C3' C4' O4' C1' 26.6 39.6
O3' C3' C4' C2' 239.6 234.8
O3' C3' C4' H3' 118.3 119.8
C4' C3' O3' V 106.4 114.2
C2' C3' C4' H3' 238.6 245.0
C4' C3' C2' O2' 241.6 267.2
C4' C3' C2' C1' 0.9 22.1
C4' C3' C2' H2' 123.1 142.3
H4' C4' C5' H5' 164.2 183.4
H4' C4' C5' H5'' 44.1 63.4
C5' C4' H4' O4' 118.7 123.1
C5' C4' H4' C3' 236.4 236.8
O4' C4' H4' C3' 117.7 113.8
H4' C4' O4' C1' 268.6 281.0
H4' C4' C3' O3' 346.6 315.6
H4' C4' C3' C2' 106.9 80.8
H4' C4' C3' H3' 228.3 195.8
C1' O4' C4' C3' 26.6 39.6
C1' O4' C4' H4' 268.6 281.0
C3' C2' C1' O4' 15.0 0.7
O2' C2' C1' O4' 134.7 119.9
O4' C1' C2' H2' 253.2 241.2
C2' C1' O4' N9 119.1 119.4
C2' C1' O4' H1' 239.3 240.6
N9 C1' O4' H1' 120.2 121.2
O4' C1' N9 C8 20.3 23.5
O4' C1' N9 C4 198.3 203.2
O3' C3' C4' H4' 346.6 315.6
C4' C3' O3' C2' 117.0 116.7
C4' C3' O3' H3' 238.5 240.3
C2' C3' O3' H3' 121.4 123.6
O3' C3' C2' O2' 1.9 28.0
O3' C3' C2' C1' 121.2 142.9
O3' C3' C2' H2' 243.4 263.0
C3' O3' V O2' 11.7 343.5
C3' O3' V O1V 275.9 226.4
C3' O3' V O2V 104.6 100.7
C2' C3' C4' H4' 106.9 80.8
C4' C3' C2' O3' 239.7 239.2
C4' C3' C2' H3' 121.5 115.3
O4' C1' C2' C3' 15.0 0.7
O3' C3' C2' H3' 241.7 236.0
C2' C3' O3' V 349.4 357.5
O2' C2' C3' C1' 240.7 245.1
O2' C2' C3' H2' 118.5 124.9
C3' C2' O2' V 7.5 324.6
C1' C2' C3' H2' 237.7 239.8
C3' C2' C1' N9 133.2 120.1
C3' C2' C1' H1' 253.5 241.3
H3' C3' C4' H4' 228.3 195.8
C4' C3' H3' O3' 121.1 120.4
C4' C3' H3' C2' 242.2 248.9
O3' C3' H3' C2' 121.1 128.4
H3' C3' O3' V 228.0 233.9
H3' C3' C2' O2' 120.2 151.9
H3' C3' C2' C1' 239.4 266.8
H3' C3' C2' H2' 1.7 27.0
V O3' C3' C2' 349.4 357.5
V O3' C3' H3' 228.0 233.9
C2' O2' V O3' 349.6 30.2
O2' V O3' O1V 95.8 117.2
O2' V O3' O2V 267.1 242.9
O1V V O3' O2V 171.3 125.7
O3' V O2V HV 62.4 180.0
O4' C1' C2' O2' 134.7 119.9
O2' C2' C3' H3' 120.2 151.9
C3' C2' O2' C1' 115.5 113.2
C3' C2' O2' H2' 238.0 235.1
O3' V O2' C2' 349.6 30.2
C1' C2' O2' H2' 122.5 121.9
O2' C2' C1' N9 253.0 239.3
O2' C2' C1' H1' 13.2 0.5
C2' O2' V O1V 116.9 147.4
C2' O2' V O2V 228.4 273.1
O4' C1' C2' N9 241.7 240.6
O4' C1' C2' H1' 121.5 119.4
C1' C2' C3' H3' 239.4 266.8
C3' C2' C1' O2' 240.3 240.8
C3' C2' C1' H2' 121.8 119.6
O2' C2' C1' H2' 241.5 238.7
C1' C2' O2' V 252.0 211.4
N9 C1' C2' H1' 239.8 238.8
C2' C1' N9 C8 262.7 265.7
C2' C1' N9 C4 80.7 85.4
H2' C2' C3' H3' 1.7 27.0
C3' C2' H2' O2' 121.5 125.9
C3' C2' H2' C1' 242.6 244.7
O2' C2' H2' C1' 121.1 118.8
H2' C2' O2' V 129.5 89.5
H2' C2' C1' N9 11.4 0.6
H2' C2' C1' H1' 131.6 121.8
O3' V O2' O1V 232.6 242.8
O3' V O2' O2V 121.2 117.1
V O2' C2' C1' 252.0 211.4
V O2' C2' H2' 129.5 89.5
O1V V O2' O2V 248.6 234.3
O2' V O2V HV 145.6 288.3
O4' C1' N9 C2' 117.6 117.8
O4' C1' N9 H1' 238.4 238.9
N9 C1' C2' H2' 11.4 0.6
C2' C1' N9 H1' 120.8 121.1
C8 N9 C1' C4 182.0 180.3
C1' N9 C8 N7 177.3 180.0
C1' N9 C8 H8 357.3 360.0
C1' N9 C4 C5 182.6 179.9
C1' N9 C4 N3 1.9 0.8
O4' C1' H1' C2' 240.7 242.2
O4' C1' H1' N9 120.0 121.1
H1' C1' C2' H2' 131.6 121.8
C2' C1' H1' N9 239.2 238.9
H1' C1' N9 C8 141.9 144.7
H1' C1' N9 C4 319.9 324.4
O3' V O1V O2' 85.8 108.4
O3' V O1V O2V 187.8 234.2
O2' V O1V O2V 102.0 125.8
O1V V O2V HV 249.6 54.1
O3' V O2V O2' 276.8 251.6
O3' V O2V O1V 172.8 125.9
O2' V O2V O1V 256.0 234.2
C8 N9 C1' H1' 141.9 144.7
C1' N9 C8 C4 178.3 179.7
C8 N9 C4 C5 1.0 359.6
C8 N9 C4 N3 180.3 180.5
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 0.6 360.0
C4 N9 C1' H1' 319.9 324.4
C1' N9 C4 C8 181.6 180.3
C4 N9 C8 N7 359.0 0.3
C4 N9 C8 H8 179.0 180.2
N7 C5 C4 N9 359.3 0.4
C6 C5 C4 N9 179.2 180.2
C5 C4 N9 N3 180.7 179.1
C2 N3 C4 N9 180.9 179.6
N7 C8 N9 C4 359.0 0.3
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 180.2 180.0
C8 N7 C5 C4 0.1 359.8
H8 C8 N9 C4 179.0 180.2
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 180.6 180.0
N9 C4 C5 N7 359.3 0.4
C5 N7 C8 H8 180.6 180.0
C6 C5 N7 C4 180.1 180.2
N7 C5 C6 N6 359.8 0.0
N7 C5 C6 N1 179.9 180.0
N7 C5 C4 N3 180.0 179.6
N9 C4 C5 C6 179.2 180.2
N7 C5 C6 C4 179.9 179.8
C6 C5 C4 N3 359.9 359.5
N6 C6 C5 N1 179.9 180.0
C5 C6 N6 H61 196.8 0.0
C5 C6 N6 H62 316.9 180.0
C5 C6 N1 C2 0.1 0.1
N9 C4 C5 N3 179.3 180.7
N7 C5 C4 C6 180.1 180.2
C4 C5 C6 N6 179.9 180.3
C4 C5 C6 N1 360.0 0.2
C2 N3 C4 C5 0.1 0.6
N6 C6 C5 C4 179.9 180.3
C5 C6 N6 N1 180.1 180.0
N6 C6 N1 C2 180.2 180.0
H61 N6 C6 H62 240.0 180.1
N1 C6 C5 C4 360.0 0.2
C5 C6 N1 N6 179.9 180.0
N1 C6 N6 H61 16.8 180.1
N1 C6 N6 H62 136.8 0.0
C6 N1 C2 N3 359.9 360.0
C6 N1 C2 H2 179.9 180.0
H61 N6 C6 N1 16.8 180.1
C6 N6 H61 H62 120.0 179.9
H62 N6 C6 N1 136.8 0.0
C6 N6 H62 H61 240.0 180.1
N3 C2 N1 H2 180.0 180.0
N1 C2 N3 C4 0.0 359.7
N9 C4 N3 C2 180.9 179.6
C5 C4 N3 C2 0.1 0.6
N1 C2 N3 H2 180.0 180.0
N1 C2 H2 N3 180.0 180.0
H2 C2 N3 C4 180.0 179.7
N9 C4 N3 C5 180.9 179.0
C4 N3 C2 H2 180.0 179.7