PDB Chemical Component DUD

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 DUD

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C2 1.380 1.345
N1 C6 1.380 1.368
N1 C1' 1.508 1.464
C2 N3 1.383 1.347
C2 O2 1.217 1.216
N3 C4 1.398 1.348
N3 HN3 1.020 0.970
C4 C5 1.441 1.415
C4 O4 1.222 1.218
C5 C6 1.377 1.351
C5 H5 1.103 1.080
C6 H6 1.103 1.079
C1' C2' 1.554 1.543
C1' O4' 1.432 1.445
C1' H1' 1.115 1.090
C2' C3' 1.536 1.545
C2' H2'1 1.115 1.090
C2' H2'2 1.115 1.090
C3' C4' 1.519 1.545
C3' O3' 1.426 1.429
C3' H3' 1.115 1.090
C4' O4' 1.477 1.446
C4' C5' 1.531 1.529
C4' H4' 1.115 1.090
O3' HO3' 0.950 0.967
C5' O5' 1.440 1.429
C5' H5'1 1.114 1.090
C5' H5'2 1.115 1.090
O5' PA 1.608 1.609
PA O1A 1.483 1.480
PA O2A 1.478 1.609
PA O3A 1.620 1.609
O2A HOA2 0.950 0.965
O3A PB 1.579 1.610
PB O1B 1.512 1.479
PB O2B 1.481 1.610
PB O3B 1.543 1.609
O2B HOB2 0.950 0.967
O3B HOB3 0.950 0.967

Bond Angles for DUD

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 124.0 120.6
C2 N1 C1' 114.7 119.6
N1 C2 N3 117.4 120.9
N1 C2 O2 121.5 119.6
C6 N1 C1' 121.3 119.7
N1 C6 C5 119.0 119.7
N1 C6 H6 120.6 120.2
N1 C1' C2' 109.6 110.4
N1 C1' O4' 106.5 110.5
N1 C1' H1' 110.2 110.3
N3 C2 O2 121.1 119.5
C2 N3 C4 121.4 120.2
C2 N3 HN3 118.8 119.9
C4 N3 HN3 119.9 119.9
N3 C4 C5 119.1 119.4
N3 C4 O4 117.4 120.3
C5 C4 O4 123.4 120.3
C4 C5 C6 119.0 119.1
C4 C5 H5 122.6 120.5
C6 C5 H5 118.3 120.5
C5 C6 H6 120.4 120.1
C2' C1' O4' 106.2 104.8
C2' C1' H1' 110.6 110.4
C1' C2' C3' 103.2 104.1
C1' C2' H2'1 114.5 110.5
C1' C2' H2'2 114.6 110.6
O4' C1' H1' 113.5 110.4
C1' O4' C4' 109.5 105.4
C3' C2' H2'1 114.6 110.5
C3' C2' H2'2 114.6 110.5
C2' C3' C4' 102.0 104.1
C2' C3' O3' 114.5 110.5
C2' C3' H3' 110.9 110.5
H2'1 C2' H2'2 95.9 110.5
C4' C3' O3' 108.4 110.6
C4' C3' H3' 116.7 110.5
C3' C4' O4' 102.8 104.7
C3' C4' C5' 113.1 110.7
C3' C4' H4' 111.5 110.2
O3' C3' H3' 104.7 110.4
C3' O3' HO3' 114.5 106.8
O4' C4' C5' 109.3 110.4
O4' C4' H4' 115.1 110.4
C5' C4' H4' 105.2 110.3
C4' C5' O5' 108.3 109.5
C4' C5' H5'1 112.7 109.5
C4' C5' H5'2 112.6 109.5
O5' C5' H5'1 112.6 109.4
O5' C5' H5'2 112.6 109.4
C5' O5' PA 116.9 106.8
H5'1 C5' H5'2 97.8 109.5
O5' PA O1A 110.7 109.4
O5' PA O2A 107.8 109.5
O5' PA O3A 105.3 109.5
O1A PA O2A 113.9 109.5
O1A PA O3A 112.3 109.5
O2A PA O3A 106.3 109.4
PA O2A HOA2 107.8 106.9
PA O3A PB 136.7 106.8
O3A PB O1B 105.2 109.5
O3A PB O2B 112.0 109.5
O3A PB O3B 101.8 109.5
O1B PB O2B 111.3 109.4
O1B PB O3B 110.7 109.5
O2B PB O3B 115.2 109.4
PB O2B HOB2 111.9 106.8
PB O3B HOB3 101.9 106.8

Torsion Angles for DUD

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C6 N1 C2 C1' 180.4 179.7
C2 N1 C6 C5 358.1 0.3
C2 N1 C6 H6 178.1 180.3
C2 N1 C1' C2' 108.5 299.6
C2 N1 C1' O4' 223.0 55.2
C2 N1 C1' H1' 346.5 177.4
N3 C2 N1 O2 181.4 179.4
N1 C2 N3 C4 359.9 0.6
N1 C2 N3 HN3 179.9 180.3
C2 N1 C6 C1' 179.6 180.3
C6 N1 C2 N3 0.5 359.4
C6 N1 C2 O2 179.0 180.0
C6 N1 C1' C2' 288.1 120.0
C6 N1 C1' O4' 42.6 235.5
C6 N1 C1' H1' 166.1 357.8
C4 C5 C6 N1 2.8 0.0
N1 C6 C5 H5 182.8 179.9
C5 C6 N1 H6 180.0 179.9
C2 N1 C1' C6 180.4 179.7
C1' N1 C2 N3 180.0 179.7
C1' N1 C2 O2 358.6 0.3
C1' N1 C6 C5 178.6 179.9
C1' N1 C6 H6 358.5 360.0
C2' C1' N1 O4' 245.5 244.5
C2' C1' N1 H1' 122.0 122.2
N1 C1' C2' C3' 98.7 143.0
N1 C1' C2' H2'1 224.0 24.3
N1 C1' C2' H2'2 333.5 261.7
O4' C1' N1 H1' 236.5 237.7
N1 C1' O4' C4' 233.7 200.7
N3 C2 N1 C6 0.5 359.4
N3 C2 N1 C1' 180.0 179.7
N1 C2 N3 O2 178.6 180.6
C4 N3 C2 HN3 179.9 180.4
C2 N3 C4 C5 1.2 359.7
C2 N3 C4 O4 178.7 179.7
O2 C2 N1 C6 179.0 180.0
O2 C2 N1 C1' 358.6 0.3
N1 C2 O2 N3 181.5 179.4
O2 C2 N3 C4 181.3 180.0
O2 C2 N3 HN3 1.3 359.6
C4 N3 C2 O2 181.3 180.0
C2 N3 C4 HN3 180.1 179.6
C5 C4 N3 O4 182.5 180.0
N3 C4 C5 C6 357.5 0.0
N3 C4 C5 H5 177.5 180.1
HN3 N3 C2 O2 1.3 359.6
C2 N3 HN3 C4 179.9 180.4
HN3 N3 C4 C5 181.1 180.0
HN3 N3 C4 O4 358.6 0.1
N1 C6 C5 C4 2.8 0.0
C5 C4 N3 HN3 181.1 180.0
N3 C4 C5 O4 177.4 180.0
C6 C5 C4 H5 179.9 179.9
C4 C5 C6 H6 182.9 180.0
O4 C4 N3 HN3 358.6 0.1
N3 C4 O4 C5 182.6 180.0
O4 C4 C5 C6 180.1 180.0
O4 C4 C5 H5 0.2 0.1
C5 C6 N1 C1' 178.6 179.9
N1 C6 C5 H6 180.0 180.1
C6 C5 C4 O4 180.1 180.0
C4 C5 C6 H5 180.1 180.1
H5 C5 C4 O4 0.2 0.1
C4 C5 H5 C6 179.9 179.9
H5 C5 C6 H6 2.8 359.9
H6 C6 N1 C1' 358.5 360.0
N1 C6 H6 C5 180.0 179.9
H6 C6 C5 H5 2.8 359.9
N1 C1' C2' O4' 114.7 119.0
N1 C1' C2' H1' 238.2 237.8
O4' C1' C2' H1' 123.5 118.8
C2' C1' O4' C4' 350.5 319.6
C3' C2' C1' H2'1 234.7 118.7
C3' C2' C1' H2'2 125.3 241.3
C1' C2' C3' C4' 34.2 359.9
C1' C2' C3' O3' 151.1 118.7
C1' C2' C3' H3' 269.3 241.3
H2'1 C2' C1' H2'2 250.5 122.7
N1 C1' O4' C2' 243.2 241.1
N1 C1' O4' H1' 121.5 122.2
C2' C1' O4' H1' 238.3 241.2
O4' C1' C2' C3' 344.0 24.0
O4' C1' C2' H2'1 109.3 265.3
O4' C1' C2' H2'2 218.8 142.6
C3' C4' O4' C1' 31.5 40.3
C1' O4' C4' C5' 151.9 159.5
C1' O4' C4' H4' 270.1 281.6
N1 C1' H1' C2' 121.4 122.2
N1 C1' H1' O4' 240.6 237.6
C2' C1' H1' O4' 119.2 115.4
H1' C1' C2' C3' 220.5 265.1
H1' C1' C2' H2'1 345.8 146.5
H1' C1' C2' H2'2 95.2 23.8
H1' C1' O4' C4' 112.2 78.4
C3' C2' C1' O4' 344.0 24.0
C3' C2' C1' H1' 220.5 265.1
C1' C2' C3' H2'1 125.2 241.3
C1' C2' C3' H2'2 234.8 118.8
H2'1 C2' C3' H2'2 109.5 237.4
C4' C3' C2' O3' 243.2 241.2
C4' C3' C2' H3' 124.9 118.7
C2' C3' C4' O4' 320.0 336.2
C2' C3' C4' C5' 202.2 217.3
C2' C3' C4' H4' 83.8 95.0
O3' C3' C2' H3' 241.7 237.4
C2' C3' O3' HO3' 180.0 63.3
H2'1 C2' C1' O4' 109.3 265.3
H2'1 C2' C1' H1' 345.8 146.5
C1' C2' H2'1 C3' 241.0 114.7
C1' C2' H2'1 H2'2 120.4 237.3
C3' C2' H2'1 H2'2 239.5 122.6
H2'1 C2' C3' C4' 269.0 118.6
H2'1 C2' C3' O3' 25.8 237.3
H2'1 C2' C3' H3' 144.1 359.9
H2'2 C2' C1' O4' 218.8 142.6
H2'2 C2' C1' H1' 95.2 23.8
C1' C2' H2'2 C3' 119.0 245.3
C1' C2' H2'2 H2'1 239.6 122.7
C3' C2' H2'2 H2'1 120.5 237.4
H2'2 C2' C3' C4' 159.5 241.2
H2'2 C2' C3' O3' 276.3 359.9
H2'2 C2' C3' H3' 34.6 122.5
C1' O4' C4' C3' 31.5 40.3
C4' C3' C2' H2'1 269.0 118.6
C4' C3' C2' H2'2 159.5 241.2
C2' C3' C4' O3' 121.2 118.7
C2' C3' C4' H3' 239.0 241.3
O3' C3' C4' H3' 117.9 122.6
C4' C3' O3' HO3' 293.1 178.0
O4' C4' C3' C5' 117.8 119.0
O4' C4' C3' H4' 236.1 241.2
C5' C4' C3' H4' 118.4 122.3
C3' C4' C5' O5' 174.4 176.9
C3' C4' C5' H5'1 299.6 296.9
C3' C4' C5' H5'2 49.2 56.9
O3' C3' C2' H2'1 25.8 237.3
O3' C3' C2' H2'2 276.3 359.9
C2' C3' O3' C4' 246.9 245.2
C2' C3' O3' H3' 121.7 122.6
C4' C3' O3' H3' 234.8 237.4
O3' C3' C4' O4' 198.8 217.5
O3' C3' C4' C5' 81.0 98.5
O3' C3' C4' H4' 322.7 336.2
H3' C3' C2' H2'1 144.1 359.9
H3' C3' C2' H2'2 34.6 122.5
C2' C3' H3' C4' 116.1 114.7
C2' C3' H3' O3' 236.0 237.4
C4' C3' H3' O3' 119.8 122.6
H3' C3' C4' O4' 80.9 94.9
H3' C3' C4' C5' 323.2 336.0
H3' C3' C4' H4' 204.8 213.7
H3' C3' O3' HO3' 58.4 300.6
C4' O4' C1' H1' 112.2 78.4
O4' C4' C3' O3' 198.8 217.5
O4' C4' C3' H3' 80.9 94.9
C3' C4' O4' C5' 239.6 240.8
C3' C4' O4' H4' 121.5 118.6
C5' C4' O4' H4' 241.9 237.8
O4' C4' C5' O5' 60.5 61.4
O4' C4' C5' H5'1 185.8 181.4
O4' C4' C5' H5'2 295.3 301.4
C5' C4' C3' O3' 81.0 98.5
C5' C4' C3' H3' 323.2 336.0
C3' C4' C5' O4' 113.9 115.5
C3' C4' C5' H4' 238.0 237.7
O4' C4' C5' H4' 124.2 122.2
O5' C5' C4' H5'1 234.7 240.0
O5' C5' C4' H5'2 125.2 120.0
C4' C5' O5' PA 158.4 180.0
H5'1 C5' C4' H5'2 250.5 240.0
H4' C4' C3' O3' 322.7 336.2
H4' C4' C3' H3' 204.8 213.7
C3' C4' H4' O4' 243.4 244.8
C3' C4' H4' C5' 123.0 122.5
O4' C4' H4' C5' 239.6 237.8
H4' C4' C5' O5' 296.3 299.2
H4' C4' C5' H5'1 61.6 59.2
H4' C4' C5' H5'2 171.1 179.2
HO3' O3' C3' H3' 58.4 300.6
O5' C5' C4' H4' 296.3 299.2
C4' C5' O5' H5'1 125.3 120.0
C4' C5' O5' H5'2 234.8 240.0
H5'1 C5' O5' H5'2 109.5 120.0
C5' O5' PA O1A 325.5 60.0
C5' O5' PA O2A 200.2 300.0
C5' O5' PA O3A 87.1 180.0
H5'1 C5' C4' H4' 61.6 59.2
C4' C5' H5'1 O5' 237.1 239.9
C4' C5' H5'1 H5'2 118.6 120.0
O5' C5' H5'1 H5'2 241.5 240.1
H5'1 C5' O5' PA 33.1 60.0
H5'2 C5' C4' H4' 171.1 179.2
C4' C5' H5'2 O5' 122.9 120.0
C4' C5' H5'2 H5'1 241.4 240.0
O5' C5' H5'2 H5'1 118.5 119.9
H5'2 C5' O5' PA 283.6 300.0
PA O5' C5' H5'1 33.1 60.0
PA O5' C5' H5'2 283.6 300.0
O1A PA O5' O2A 125.2 120.0
O1A PA O5' O3A 238.4 240.0
O2A PA O5' O3A 113.2 120.0
O5' PA O2A HOA2 180.1 300.0
O5' PA O3A PB 254.1 180.0
O5' PA O1A O2A 238.3 240.0
O5' PA O1A O3A 117.4 120.0
O2A PA O1A O3A 239.1 240.0
O1A PA O2A HOA2 56.8 180.0
O1A PA O3A PB 14.7 300.0
O5' PA O2A O1A 123.3 120.0
O5' PA O2A O3A 247.5 240.0
O1A PA O2A O3A 124.2 120.0
O2A PA O3A PB 139.9 60.0
O5' PA O3A O1A 239.5 240.0
O5' PA O3A O2A 114.2 120.0
O1A PA O3A O2A 234.8 240.0
O3A PA O2A HOA2 292.6 60.0
PA O3A PB O1B 78.7 60.0
PA O3A PB O2B 317.7 180.0
PA O3A PB O3B 194.2 300.0
HOA2 O2A PA O3A 292.6 60.0
O1B PB O3A O2B 121.0 240.0
O1B PB O3A O3B 244.5 120.0
O2B PB O3A O3B 123.5 240.0
O3A PB O2B HOB2 180.1 180.0
O3A PB O3B HOB3 180.0 300.0
O3A PB O1B O2B 238.6 120.0
O3A PB O1B O3B 109.2 240.0
O2B PB O1B O3B 230.6 120.0
O1B PB O2B HOB2 62.7 300.0
O1B PB O3B HOB3 291.4 180.0
O3A PB O2B O1B 117.4 240.0
O3A PB O2B O3B 244.4 120.0
O1B PB O2B O3B 127.0 240.0
O2B PB O3B HOB3 58.7 60.1
O3A PB O3B O1B 248.6 120.0
O3A PB O3B O2B 121.3 240.0
O1B PB O3B O2B 232.7 120.0
O3B PB O2B HOB2 295.7 60.0
HOB2 O2B PB O3B 295.7 60.0