PDB Chemical Component C46

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 C46

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P O1P 1.502 1.610
P O2P 1.491 1.480
P O3P 1.599 1.610
P O5' 1.624 1.609
O1P H1P 0.949 0.967
O3P H3P 0.950 0.966
O5' C5' 1.388 1.428
C5' C4' 1.474 1.530
C5' H5'1 1.115 1.090
C5' H5'2 1.115 1.091
C4' O4' 1.406 1.447
C4' C3' 1.543 1.544
C4' H4' 1.115 1.091
O4' C1' 1.424 1.443
C3' O3' 1.433 1.429
C3' C2' 1.449 1.544
C3' H3' 1.115 1.089
O3' HA 0.950 0.967
C2' C1' 1.505 1.544
C2' H2'1 1.115 1.090
C2' H2'2 1.115 1.091
C1' N1 1.489 1.466
C1' H1' 1.115 1.090
N1 C2 1.384 1.345
N1 C6 1.358 1.364
C2 O2 1.257 1.220
C2 N3 1.363 1.333
N3 C4 1.352 1.324
C4 N4 1.382 1.377
C4 C5 1.425 1.409
N4 O4 1.349 1.418
N4 H4 1.020 0.970
C5 C6 1.314 1.351
C5 CM5 1.549 1.506
C6 H6 1.103 1.079
CM5 C7 1.478 1.532
CM5 HM51 1.114 1.089
CM5 HM52 1.115 1.090
O4 C7 1.406 1.429
C7 H7C1 1.116 1.089
C7 H7C2 1.114 1.090

Bond Angles for C46

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1P P O2P 116.5 109.4
O1P P O3P 108.7 109.5
O1P P O5' 106.0 109.5
P O1P H1P 116.5 106.8
O2P P O3P 110.0 109.5
O2P P O5' 109.9 109.5
O3P P O5' 105.1 109.5
P O3P H3P 108.7 106.8
P O5' C5' 129.3 106.8
O5' C5' C4' 111.8 109.5
O5' C5' H5'1 111.3 109.5
O5' C5' H5'2 111.3 109.5
C4' C5' H5'1 111.3 109.5
C4' C5' H5'2 111.3 109.4
C5' C4' O4' 110.4 110.4
C5' C4' C3' 114.5 110.7
C5' C4' H4' 109.8 110.3
H5'1 C5' H5'2 99.0 109.4
O4' C4' C3' 102.2 104.7
O4' C4' H4' 109.8 110.4
C4' O4' C1' 113.1 105.3
C3' C4' H4' 109.8 110.3
C4' C3' O3' 107.0 110.5
C4' C3' C2' 105.0 104.2
C4' C3' H3' 111.1 110.4
O4' C1' C2' 101.5 104.8
O4' C1' N1 106.9 110.4
O4' C1' H1' 111.3 110.4
O3' C3' C2' 111.3 110.6
O3' C3' H3' 111.1 110.5
C3' O3' HA 107.1 106.8
C2' C3' H3' 111.1 110.5
C3' C2' C1' 102.4 104.1
C3' C2' H2'1 114.9 110.5
C3' C2' H2'2 114.9 110.5
C1' C2' H2'1 114.9 110.5
C1' C2' H2'2 114.9 110.5
C2' C1' N1 113.9 110.4
C2' C1' H1' 111.3 110.4
H2'1 C2' H2'2 95.6 110.6
N1 C1' H1' 111.4 110.3
C1' N1 C2 119.9 119.8
C1' N1 C6 113.6 119.8
C2 N1 C6 126.6 120.4
N1 C2 O2 114.9 119.5
N1 C2 N3 117.5 121.2
N1 C6 C5 115.4 118.9
N1 C6 H6 122.3 120.6
O2 C2 N3 127.6 119.4
C2 N3 C4 117.1 120.4
N3 C4 N4 119.0 121.0
N3 C4 C5 122.9 119.7
N4 C4 C5 118.0 119.3
C4 N4 O4 121.6 119.2
C4 N4 H4 119.2 120.4
C4 C5 C6 120.4 119.3
C4 C5 CM5 120.3 119.7
O4 N4 H4 119.2 120.5
N4 O4 C7 109.2 106.8
C6 C5 CM5 119.0 121.0
C5 C6 H6 122.3 120.5
C5 CM5 C7 98.4 109.1
C5 CM5 HM51 116.5 109.5
C5 CM5 HM52 116.5 109.6
C7 CM5 HM51 116.5 109.5
C7 CM5 HM52 116.5 109.5
CM5 C7 O4 114.0 109.5
CM5 C7 H7C1 110.5 109.5
CM5 C7 H7C2 110.5 109.4
HM51 CM5 HM52 93.9 109.6
O4 C7 H7C1 110.5 109.5
O4 C7 H7C2 110.5 109.5
H7C1 C7 H7C2 99.8 109.5

Torsion Angles for C46

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2P P O1P O3P 124.9 240.0
O2P P O1P O5' 237.5 120.0
O3P P O1P O5' 112.6 240.0
O1P P O3P H3P 180.0 60.0
O1P P O5' C5' 324.1 180.0
O1P P O2P O3P 235.8 120.0
O1P P O2P O5' 120.5 240.0
O2P P O1P H1P 180.0 300.0
O3P P O2P O5' 244.7 120.0
O2P P O3P H3P 51.3 180.0
O2P P O5' C5' 90.7 60.0
O1P P O3P O2P 128.6 240.0
O1P P O3P O5' 246.9 120.0
O3P P O1P H1P 55.1 60.0
O2P P O3P O5' 118.3 240.0
O3P P O5' C5' 209.1 300.0
O1P P O5' O2P 233.4 120.0
O1P P O5' O3P 115.0 240.0
O5' P O1P H1P 302.6 180.0
O2P P O5' O3P 241.7 120.0
O5' P O3P H3P 293.1 300.0
P O5' C5' C4' 229.5 180.0
P O5' C5' H5'1 104.2 60.0
P O5' C5' H5'2 354.7 300.0
H1P O1P P O2P 180.0 300.0
H1P O1P P O3P 55.1 60.0
H1P O1P P O5' 302.6 180.0
H3P O3P P O5' 293.1 300.0
C4' C5' O5' H5'1 125.3 120.1
C4' C5' O5' H5'2 234.7 240.0
O5' C5' C4' O4' 294.3 61.4
O5' C5' C4' C3' 49.0 176.9
O5' C5' C4' H4' 173.0 299.2
H5'1 C5' O5' H5'2 109.5 120.0
O5' C5' C4' H5'1 234.7 239.9
O5' C5' C4' H5'2 125.3 120.0
H5'1 C5' C4' H5'2 250.5 240.1
O4' C4' C5' C3' 245.3 244.5
O4' C4' C5' H4' 121.3 122.2
C5' C4' O4' C1' 127.1 159.5
C3' C4' C5' H4' 235.9 237.7
C5' C4' C3' O3' 142.9 98.5
C5' C4' C3' C2' 261.2 217.3
C5' C4' C3' H3' 21.4 336.0
O5' C5' H5'1 C4' 125.6 120.1
O5' C5' H5'1 H5'2 242.8 240.0
C4' C5' H5'1 H5'2 117.2 119.9
H5'1 C5' C4' O4' 59.6 181.5
H5'1 C5' C4' C3' 174.3 297.0
H5'1 C5' C4' H4' 298.3 59.3
O5' C5' H5'2 C4' 234.4 239.9
O5' C5' H5'2 H5'1 117.2 120.0
C4' C5' H5'2 H5'1 242.8 240.1
H5'2 C5' C4' O4' 169.0 301.4
H5'2 C5' C4' C3' 283.7 56.9
H5'2 C5' C4' H4' 47.8 179.2
O4' C4' C5' H5'1 59.6 181.5
O4' C4' C5' H5'2 169.0 301.4
C5' C4' O4' C3' 122.2 119.2
C5' C4' O4' H4' 238.7 237.9
C3' C4' O4' H4' 116.5 118.7
O4' C4' C3' O3' 262.3 217.5
O4' C4' C3' C2' 20.6 336.2
O4' C4' C3' H3' 140.8 95.0
C4' O4' C1' C2' 332.9 319.6
C4' O4' C1' N1 213.3 200.7
C4' O4' C1' H1' 91.4 78.4
C3' C4' C5' H5'1 174.3 297.0
C3' C4' C5' H5'2 283.7 56.9
C5' C4' C3' O4' 240.6 241.0
C5' C4' C3' H4' 124.1 122.3
O4' C4' C3' H4' 243.5 241.3
C3' C4' O4' C1' 4.8 40.3
O3' C3' C4' C2' 241.7 241.2
O3' C3' C4' H3' 121.5 122.5
C4' C3' O3' HA 180.0 178.1
C2' C3' C4' H3' 239.8 241.3
C4' C3' C2' C1' 323.4 359.9
C4' C3' C2' H2'1 198.2 118.5
C4' C3' C2' H2'2 88.7 241.3
H4' C4' C5' H5'1 298.3 59.3
H4' C4' C5' H5'2 47.8 179.2
C5' C4' H4' O4' 121.6 122.2
C5' C4' H4' C3' 233.3 237.4
O4' C4' H4' C3' 111.6 115.2
H4' C4' O4' C1' 248.3 281.7
H4' C4' C3' O3' 18.8 336.2
H4' C4' C3' C2' 137.1 94.9
H4' C4' C3' H3' 257.3 213.7
C1' O4' C4' C3' 4.8 40.3
C1' O4' C4' H4' 248.3 281.7
C3' C2' C1' O4' 38.5 24.0
O4' C1' C2' H2'1 163.8 265.4
O4' C1' C2' H2'2 273.3 142.6
C2' C1' O4' N1 119.6 118.9
C2' C1' O4' H1' 241.4 241.1
N1 C1' O4' H1' 121.8 122.2
O4' C1' N1 C2 197.0 55.2
O4' C1' N1 C6 18.2 235.4
O3' C3' C4' H4' 18.8 336.2
C4' C3' O3' C2' 114.2 114.8
C4' C3' O3' H3' 238.5 237.5
C2' C3' O3' H3' 124.4 122.7
O3' C3' C2' C1' 78.9 118.6
O3' C3' C2' H2'1 313.6 237.3
O3' C3' C2' H2'2 204.1 0.0
C2' C3' C4' H4' 137.1 94.9
C4' C3' C2' O3' 244.6 241.3
C4' C3' C2' H3' 120.2 118.7
O4' C1' C2' C3' 38.5 24.0
O3' C3' C2' H3' 235.6 237.4
C2' C3' O3' HA 65.8 63.3
C1' C2' C3' H2'1 125.3 241.3
C1' C2' C3' H2'2 234.8 118.6
C3' C2' C1' N1 153.0 143.0
C3' C2' C1' H1' 280.0 265.1
H2'1 C2' C3' H2'2 109.5 237.2
H3' C3' C4' H4' 257.3 213.7
C4' C3' H3' O3' 119.1 122.5
C4' C3' H3' C2' 243.5 245.2
O3' C3' H3' C2' 124.5 122.7
H3' C3' O3' HA 301.5 300.6
H3' C3' C2' C1' 203.2 241.2
H3' C3' C2' H2'1 78.0 359.9
H3' C3' C2' H2'2 328.5 122.6
HA O3' C3' C2' 65.8 63.3
HA O3' C3' H3' 301.5 300.6
O4' C1' C2' N1 245.5 241.1
O4' C1' C2' H1' 118.6 118.9
C1' C2' C3' H3' 203.2 241.2
C3' C2' C1' H2'1 234.8 118.7
C3' C2' C1' H2'2 125.3 241.4
H2'1 C2' C1' H2'2 250.5 122.7
N1 C1' C2' H1' 233.1 237.8
C2' C1' N1 C2 85.7 299.7
C2' C1' N1 C6 266.9 120.0
H2'1 C2' C3' H3' 78.0 359.9
C3' C2' H2'1 C1' 118.4 245.4
C3' C2' H2'1 H2'2 239.2 122.7
C1' C2' H2'1 H2'2 120.8 237.3
H2'1 C2' C1' N1 278.3 24.3
H2'1 C2' C1' H1' 45.2 146.5
H2'2 C2' C3' H3' 328.5 122.6
C3' C2' H2'2 C1' 241.6 114.6
C3' C2' H2'2 H2'1 120.8 237.3
C1' C2' H2'2 H2'1 239.2 122.7
H2'2 C2' C1' N1 27.8 261.6
H2'2 C2' C1' H1' 154.7 23.7
O4' C1' N1 C2' 111.3 115.5
O4' C1' N1 H1' 238.2 237.7
N1 C1' C2' H2'1 278.3 24.3
N1 C1' C2' H2'2 27.8 261.6
C2' C1' N1 H1' 126.9 122.2
C2 N1 C1' C6 178.8 179.7
C1' N1 C2 O2 1.0 0.1
C1' N1 C2 N3 180.3 179.5
C1' N1 C6 C5 179.8 180.2
C1' N1 C6 H6 359.8 0.1
O4' C1' H1' C2' 247.5 244.6
O4' C1' H1' N1 119.2 122.3
H1' C1' C2' H2'1 45.2 146.5
H1' C1' C2' H2'2 154.7 23.7
C2' C1' H1' N1 231.7 237.8
H1' C1' N1 C2 318.8 177.5
H1' C1' N1 C6 140.0 357.8
C2 N1 C1' H1' 318.8 177.5
C1' N1 C2 C6 181.4 180.3
C2 N1 C6 C5 1.1 0.5
C2 N1 C6 H6 181.1 180.3
O2 C2 N1 N3 180.7 180.6
N1 C2 N3 C4 0.4 0.7
C6 N1 C1' H1' 140.0 357.8
C1' N1 C6 C2 178.7 179.7
C6 N1 C2 O2 179.6 179.8
C6 N1 C2 N3 358.9 359.2
C4 C5 C6 N1 359.6 360.0
N1 C6 C5 CM5 174.3 180.2
C5 C6 N1 H6 180.0 180.1
O2 C2 N1 C6 179.6 179.8
N1 C2 O2 N3 179.2 179.4
O2 C2 N3 C4 179.6 180.1
N3 C2 N1 C6 358.9 359.2
N1 C2 N3 O2 180.8 180.6
C2 N3 C4 N4 179.8 179.9
C2 N3 C4 C5 0.2 359.8
N4 C4 N3 C5 179.7 180.1
N3 C4 N4 O4 179.6 163.3
N3 C4 N4 H4 359.7 343.2
N3 C4 C5 C6 359.8 359.9
N3 C4 C5 CM5 185.2 179.7
N3 C4 N4 C5 180.3 179.9
N4 C4 C5 C6 180.2 179.8
N4 C4 C5 CM5 5.5 359.6
O4 N4 C4 H4 180.0 180.0
C4 N4 O4 C7 29.0 51.4
N1 C6 C5 C4 359.6 360.0
N3 C4 C5 N4 179.7 180.1
C5 C4 N4 O4 359.3 343.4
C5 C4 N4 H4 179.4 163.3
C6 C5 C4 CM5 174.7 180.2
C4 C5 C6 H6 179.6 180.1
C4 C5 CM5 C7 325.6 342.7
C4 C5 CM5 HM51 200.3 102.6
C4 C5 CM5 HM52 90.9 222.8
O4 N4 C4 C5 359.3 343.4
C4 N4 O4 H4 180.0 180.0
CM5 C7 O4 N4 291.7 291.4
N4 O4 C7 H7C1 166.5 171.4
N4 O4 C7 H7C2 57.0 51.3
H4 N4 C4 C5 179.4 163.3
C4 N4 H4 O4 180.0 180.0
H4 N4 O4 C7 209.0 231.4
N1 C6 C5 H6 180.0 179.9
C4 C5 C6 CM5 185.3 179.8
C6 C5 CM5 C7 150.8 162.5
C6 C5 CM5 HM51 25.6 282.4
C6 C5 CM5 HM52 276.1 42.6
C4 C5 CM5 C6 174.7 180.2
CM5 C5 C6 H6 354.3 0.3
C7 CM5 C5 HM51 125.2 240.2
C7 CM5 C5 HM52 234.7 119.9
C5 CM5 C7 O4 66.8 52.1
C5 CM5 C7 H7C1 192.0 172.1
C5 CM5 C7 H7C2 301.5 292.1
HM51 CM5 C5 HM52 109.5 239.7
N1 C6 H6 C5 180.0 180.1
H6 C6 C5 CM5 354.3 0.3
N4 O4 C7 CM5 291.7 291.4
C5 CM5 C7 HM51 234.7 119.9
C5 CM5 C7 HM52 125.3 240.1
HM51 CM5 C7 HM52 250.5 120.2
O4 C7 CM5 H7C1 234.8 240.0
O4 C7 CM5 H7C2 125.3 120.0
H7C1 C7 CM5 H7C2 250.5 240.0
C5 CM5 HM51 C7 115.5 240.4
C5 CM5 HM51 HM52 237.7 120.3
C7 CM5 HM51 HM52 122.3 239.8
HM51 CM5 C7 O4 192.0 292.2
HM51 CM5 C7 H7C1 317.3 52.3
HM51 CM5 C7 H7C2 66.7 172.2
C5 CM5 HM52 C7 244.5 119.6
C5 CM5 HM52 HM51 122.3 239.8
C7 CM5 HM52 HM51 237.8 120.1
HM52 CM5 C7 O4 301.5 172.1
HM52 CM5 C7 H7C1 66.7 292.1
HM52 CM5 C7 H7C2 176.2 52.1
C7 O4 N4 H4 209.0 231.4
O4 C7 CM5 HM51 192.0 292.2
O4 C7 CM5 HM52 301.5 172.1
CM5 C7 O4 H7C1 125.2 120.0
CM5 C7 O4 H7C2 234.7 240.0
H7C1 C7 O4 H7C2 109.5 120.0
H7C1 C7 CM5 HM51 317.3 52.3
H7C1 C7 CM5 HM52 66.7 292.1
CM5 C7 H7C1 O4 232.8 240.0
CM5 C7 H7C1 H7C2 116.4 120.0
O4 C7 H7C1 H7C2 243.6 240.0
H7C2 C7 CM5 HM51 66.7 172.2
H7C2 C7 CM5 HM52 176.2 52.1
CM5 C7 H7C2 O4 127.2 120.0
CM5 C7 H7C2 H7C1 243.6 240.0
O4 C7 H7C2 H7C1 116.4 120.0