PDB Chemical Component 523

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 523

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C6 1.407 1.286
N1 C1' 1.516 1.471
N1 C2 1.403 1.582
C2 N3 1.337 1.375
C2 O2 1.217 1.222
N3 C4 1.333 1.386
N3 HN3 1.000 1.016
C4 C5 1.421 1.355
C4 N4 1.371 1.371
C5 C5A 1.479 1.501
C5 C6 1.370 1.489
C5A H5A1 1.100 1.087
C5A H5A2 1.100 1.088
C5A H5A3 1.100 1.088
C6 H6 1.080 1.103
N4 HN41 1.000 0.993
N4 HN42 1.000 0.993
C1' O4' 1.432 1.440
C1' C2' 1.536 1.521
C1' H1' 1.100 1.094
C2' C3' 1.549 1.512
C2' H2'1 1.100 1.096
C2' H2'2 1.100 1.098
C3' C4' 1.582 1.519
C3' O3' 1.450 1.413
C3' H3' 1.100 1.096
C4' O4' 1.466 1.438
C4' C5' 1.558 1.518
C4' H4' 1.100 1.096
O3' HO3' 0.950 0.969
C5' O5' 1.447 1.418
C5' H5'1 1.100 1.093
C5' H5'2 1.100 1.095
O5' PA 1.650 1.618
PA O2A 1.616 1.502
PA O1A 1.472 1.618
PA O3A 1.588 1.615
O1A HO1A 0.950 0.981
O3A PB 1.641 1.615
PB O2B 1.575 1.500
PB O3B 1.591 1.616
PB O1B 1.488 1.616
O1B HO1B 0.950 0.982
O3B PG 1.605 1.616
PG O1G 1.516 1.500
PG O3G 1.587 1.616
PG O2G 1.622 1.617
O2G HO2G 0.950 0.981
O3G HO3G 0.950 0.981

Bond Angles for 523

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C6 N1 C1' 118.6 126.5
C2 N1 C6 118.2 115.5
N1 C6 C5 120.2 124.6
N1 C6 H6 119.9 118.2
C2 N1 C1' 123.2 118.0
N1 C1' O4' 108.9 116.0
N1 C1' C2' 111.4 108.8
N1 C1' H1' 107.8 105.8
N1 C2 N3 120.5 117.2
N1 C2 O2 122.0 116.0
N3 C2 O2 117.5 126.8
C2 N3 C4 122.3 124.1
C2 N3 HN3 118.9 118.0
C4 N3 HN3 118.8 117.9
N3 C4 C5 120.1 119.2
N3 C4 N4 119.9 117.5
C5 C4 N4 120.0 123.3
C4 C5 C5A 120.6 126.7
C4 C5 C6 118.7 119.5
C4 N4 HN41 109.5 118.2
C4 N4 HN42 109.4 118.2
C5A C5 C6 120.7 113.9
C5 C5A H5A1 109.5 109.4
C5 C5A H5A2 109.5 109.5
C5 C5A H5A3 109.4 109.5
C5 C6 H6 119.9 117.3
H5A1 C5A H5A2 109.4 109.6
H5A1 C5A H5A3 109.5 109.7
H5A2 C5A H5A3 109.5 109.2
HN41 N4 HN42 109.5 123.5
C2' C1' O4' 107.1 106.5
O4' C1' H1' 112.1 108.5
C1' O4' C4' 111.0 108.8
C2' C1' H1' 109.6 111.2
C1' C2' C3' 105.2 102.3
C1' C2' H2'1 110.9 115.3
C1' C2' H2'2 111.8 110.0
C3' C2' H2'1 110.9 113.0
C3' C2' H2'2 111.8 109.5
C2' C3' C4' 103.5 101.4
C2' C3' O3' 108.7 111.4
C2' C3' H3' 114.0 110.6
H2'1 C2' H2'2 106.2 106.7
C4' C3' O3' 110.1 112.3
C4' C3' H3' 112.6 111.8
C3' C4' O4' 101.9 106.1
C3' C4' C5' 117.1 113.4
C3' C4' H4' 107.7 111.2
O3' C3' H3' 107.8 109.2
C3' O3' HO3' 109.5 106.5
O4' C4' C5' 102.3 109.5
O4' C4' H4' 121.2 107.9
C5' C4' H4' 107.3 108.6
C4' C5' O5' 101.8 109.0
C4' C5' H5'1 112.1 110.6
C4' C5' H5'2 113.7 110.6
O5' C5' H5'1 112.1 108.8
O5' C5' H5'2 113.7 108.7
C5' O5' PA 116.9 119.9
H5'1 C5' H5'2 103.7 109.1
O5' PA O2A 113.0 114.8
O5' PA O1A 110.4 104.4
O5' PA O3A 105.0 104.5
O1A PA O2A 110.7 114.4
O2A PA O3A 107.6 114.2
O1A PA O3A 110.0 103.2
PA O1A HO1A 109.5 118.9
PA O3A PB 116.0 131.3
O3A PB O2B 108.8 115.6
O3A PB O3B 103.2 101.6
O3A PB O1B 119.5 104.2
O2B PB O3B 103.8 115.0
O1B PB O2B 105.6 114.8
O1B PB O3B 114.8 103.9
PB O3B PG 112.3 131.8
PB O1B HO1B 109.5 118.9
O3B PG O1G 111.7 114.7
O3B PG O3G 109.0 103.1
O3B PG O2G 104.7 103.6
O1G PG O3G 109.2 115.1
O1G PG O2G 113.4 115.3
O2G PG O3G 108.8 103.5
PG O3G HO3G 109.5 119.0
PG O2G HO2G 109.5 119.0

Torsion Angles for 523

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 C1' 178.8 180.0
C6 N1 C1' O4' 326.7 29.6
C6 N1 C1' C2' 208.7 269.6
C6 N1 C1' H1' 88.5 150.0
C6 N1 C2 N3 1.9 360.0
C6 N1 C2 O2 180.3 180.0
C4 C5 C6 N1 0.7 360.0
C5A C5 C6 N1 179.9 180.0
C5 C6 N1 H6 180.0 180.1
C2 N1 C1' C6 181.3 180.0
C1' N1 C6 C5 179.8 180.0
C1' N1 C6 H6 359.8 359.9
C1' N1 C2 N3 180.7 180.0
C1' N1 C2 O2 359.1 360.0
C2' C1' N1 O4' 242.1 240.0
O4' C1' N1 H1' 238.2 239.6
N1 C1' O4' C4' 219.6 246.0
C2' C1' N1 H1' 120.3 119.6
N1 C1' C2' C3' 116.6 97.2
N1 C1' C2' H2'1 236.6 334.2
N1 C1' C2' H2'2 355.0 213.5
C6 N1 C2 C1' 181.3 180.0
C2 N1 C6 C5 358.6 0.0
C2 N1 C6 H6 178.6 179.9
C2 N1 C1' O4' 148.0 209.6
C2 N1 C1' C2' 30.0 89.6
C2 N1 C1' H1' 269.8 330.0
N3 C2 N1 O2 181.6 180.0
N1 C2 N3 C4 358.2 0.0
N1 C2 N3 HN3 178.2 180.0
N3 C2 N1 C6 1.9 360.0
N3 C2 N1 C1' 180.7 180.0
N1 C2 N3 O2 178.5 180.0
C4 N3 C2 HN3 180.0 180.0
C2 N3 C4 C5 1.1 0.0
C2 N3 C4 N4 180.4 180.0
O2 C2 N1 C6 180.3 180.0
O2 C2 N1 C1' 359.1 360.0
N1 C2 O2 N3 181.6 180.0
O2 C2 N3 C4 179.7 180.0
O2 C2 N3 HN3 359.7 0.0
C4 N3 C2 O2 179.7 180.0
C2 N3 C4 HN3 180.0 180.0
C5 C4 N3 N4 180.7 180.0
N3 C4 C5 C5A 180.3 180.0
N3 C4 C5 C6 359.4 360.0
N3 C4 N4 HN41 137.6 65.0
N3 C4 N4 HN42 257.5 244.9
HN3 N3 C2 O2 359.7 0.0
C2 N3 HN3 C4 180.0 180.0
HN3 N3 C4 C5 181.1 180.0
HN3 N3 C4 N4 0.4 360.0
N1 C6 C5 C4 0.7 360.0
C5 C4 N3 HN3 181.1 180.0
N3 C4 C5 N4 179.3 180.0
C5 C4 N4 HN41 316.9 244.9
C5 C4 N4 HN42 76.9 64.9
C5A C5 C4 C6 180.9 180.0
C4 C5 C5A H5A1 85.9 163.8
C4 C5 C5A H5A2 205.9 43.7
C4 C5 C5A H5A3 325.9 284.1
C4 C5 C6 H6 180.7 180.1
N4 C4 N3 HN3 0.4 360.0
N3 C4 N4 C5 180.7 180.0
N4 C4 C5 C5A 1.0 360.0
N4 C4 C5 C6 180.1 180.0
HN41 N4 C4 HN42 240.0 180.0
N1 C6 C5 C5A 179.9 180.0
C5A C5 C4 N4 1.0 360.0
C4 C5 C5A C6 179.1 180.0
C5A C5 C6 H6 359.9 0.1
H5A1 C5A C5 H5A2 240.0 120.1
H5A1 C5A C5 H5A3 120.0 239.8
H5A2 C5A C5 H5A3 240.0 119.6
C5 C6 N1 C1' 179.8 180.0
N1 C6 C5 H6 180.0 179.9
C6 C5 C4 N4 180.1 180.0
C4 C5 C6 C5A 180.9 180.0
C6 C5 C5A H5A1 266.8 343.8
C6 C5 C5A H5A2 26.7 223.7
C6 C5 C5A H5A3 146.8 104.1
H5A1 C5A C5 C6 266.8 343.8
C5 C5A H5A1 H5A2 120.0 239.9
C5 C5A H5A1 H5A3 240.0 120.1
H5A2 C5A H5A1 H5A3 120.0 240.2
H5A2 C5A C5 C6 26.7 223.7
C5 C5A H5A2 H5A1 240.0 120.0
C5 C5A H5A2 H5A3 120.0 240.2
H5A1 C5A H5A2 H5A3 240.0 120.1
H5A3 C5A C5 C6 146.8 104.1
C5 C5A H5A3 H5A1 120.0 239.9
C5 C5A H5A3 H5A2 240.0 119.8
H5A1 C5A H5A3 H5A2 120.0 239.9
H6 C6 N1 C1' 359.8 359.9
N1 C6 H6 C5 180.0 180.1
C4 N4 HN41 HN42 120.0 180.0
C4 N4 HN42 HN41 240.0 180.0
N1 C1' O4' C2' 239.4 238.8
N1 C1' O4' H1' 119.2 118.9
C2' C1' O4' H1' 239.8 240.1
O4' C1' C2' C3' 357.6 331.5
O4' C1' C2' H2'1 117.6 208.5
O4' C1' C2' H2'2 236.0 87.8
C3' C4' O4' C1' 32.6 17.2
C1' O4' C4' C5' 154.0 139.9
C1' O4' C4' H4' 273.2 258.0
N1 C1' C2' O4' 119.0 125.7
N1 C1' C2' H1' 240.8 243.8
O4' C1' C2' H1' 121.8 118.1
C2' C1' O4' C4' 340.3 7.2
C3' C2' C1' H2'1 240.0 123.0
C3' C2' C1' H2'2 121.6 243.7
C1' C2' C3' C4' 21.2 37.4
C1' C2' C3' O3' 138.2 157.1
C1' C2' C3' H3' 258.5 278.7
H2'1 C2' C1' H2'2 241.6 120.7
N1 C1' H1' O4' 240.2 234.9
N1 C1' H1' C2' 121.4 118.0
C2' C1' H1' O4' 118.7 116.9
H1' C1' O4' C4' 100.5 127.1
H1' C1' C2' C3' 235.8 213.4
H1' C1' C2' H2'1 355.8 90.4
H1' C1' C2' H2'2 114.2 329.7
C3' C2' C1' O4' 357.6 331.5
C3' C2' C1' H1' 235.8 213.4
C1' C2' C3' H2'1 120.0 235.4
C1' C2' C3' H2'2 238.4 116.7
H2'1 C2' C3' H2'2 118.4 241.3
C4' C3' C2' O3' 243.0 240.3
C4' C3' C2' H3' 122.7 118.7
C2' C3' C4' O4' 328.1 325.6
C2' C3' C4' C5' 217.4 205.4
C2' C3' C4' H4' 96.6 82.7
O3' C3' C2' H3' 239.7 238.4
C2' C3' O3' HO3' 93.0 170.0
H2'1 C2' C1' O4' 117.6 208.5
H2'1 C2' C1' H1' 355.8 90.4
C1' C2' H2'1 C3' 243.4 117.2
C1' C2' H2'1 H2'2 121.7 237.5
C3' C2' H2'1 H2'2 238.3 120.3
H2'1 C2' C3' C4' 261.2 162.0
H2'1 C2' C3' O3' 18.2 281.7
H2'1 C2' C3' H3' 138.5 43.3
H2'2 C2' C1' O4' 236.0 87.8
H2'2 C2' C1' H1' 114.2 329.7
C1' C2' H2'2 C3' 117.7 248.3
C1' C2' H2'2 H2'1 238.9 125.7
C3' C2' H2'2 H2'1 121.1 237.5
H2'2 C2' C3' C4' 142.8 280.7
H2'2 C2' C3' O3' 259.8 40.4
H2'2 C2' C3' H3' 20.1 162.0
C1' O4' C4' C3' 32.6 17.2
C4' C3' C2' H2'1 261.2 162.0
C4' C3' C2' H2'2 142.8 280.7
C2' C3' C4' O3' 116.1 119.0
C2' C3' C4' H3' 236.4 242.2
O3' C3' C4' H3' 120.4 123.2
C4' C3' O3' HO3' 205.7 282.9
O4' C4' C3' C5' 110.6 120.2
O4' C4' C3' H4' 231.4 242.9
C5' C4' C3' H4' 120.8 122.7
C3' C4' C5' O5' 231.8 179.5
C3' C4' C5' H5'1 111.8 59.9
C3' C4' C5' H5'2 354.5 299.0
O3' C3' C2' H2'1 18.2 281.7
O3' C3' C2' H2'2 259.8 40.4
C2' C3' O3' C4' 247.3 247.0
C2' C3' O3' H3' 124.0 122.5
C4' C3' O3' H3' 236.8 235.4
O3' C3' C4' O4' 212.0 206.6
O3' C3' C4' C5' 101.4 86.4
O3' C3' C4' H4' 340.6 323.7
H3' C3' C2' H2'1 138.5 43.3
H3' C3' C2' H2'2 20.1 162.0
C2' C3' H3' C4' 117.5 112.2
C2' C3' H3' O3' 239.2 237.1
C4' C3' H3' O3' 121.7 124.9
H3' C3' C4' O4' 91.6 83.5
H3' C3' C4' C5' 341.0 323.3
H3' C3' C4' H4' 220.2 200.5
H3' C3' O3' HO3' 329.0 47.5
C4' O4' C1' H1' 100.5 127.1
O4' C4' C3' O3' 212.0 206.6
O4' C4' C3' H3' 91.6 83.5
C3' C4' O4' C5' 238.6 237.3
C3' C4' O4' H4' 119.4 119.2
C5' C4' O4' H4' 240.8 242.0
O4' C4' C5' O5' 121.4 61.3
O4' C4' C5' H5'1 1.4 301.7
O4' C4' C5' H5'2 244.1 180.8
C5' C4' C3' O3' 101.4 86.4
C5' C4' C3' H3' 341.0 323.3
C3' C4' C5' O4' 110.4 118.2
C3' C4' C5' H4' 239.0 235.9
O4' C4' C5' H4' 128.6 117.6
O5' C5' C4' H5'1 120.0 119.6
O5' C5' C4' H5'2 237.3 240.5
C4' C5' O5' PA 183.6 240.0
H5'1 C5' C4' H5'2 117.3 120.9
H4' C4' C3' O3' 340.6 323.7
H4' C4' C3' H3' 220.2 200.5
C3' C4' H4' O4' 243.5 244.1
C3' C4' H4' C5' 126.8 125.5
O4' C4' H4' C5' 243.3 241.4
H4' C4' C5' O5' 352.8 303.7
H4' C4' C5' H5'1 232.8 184.1
H4' C4' C5' H5'2 115.5 63.2
HO3' O3' C3' H3' 329.0 47.5
O5' C5' C4' H4' 352.8 303.7
C4' C5' O5' H5'1 240.0 239.3
C4' C5' O5' H5'2 122.7 120.6
H5'1 C5' O5' H5'2 242.7 241.3
C5' O5' PA O2A 168.3 300.0
C5' O5' PA O1A 43.8 174.0
C5' O5' PA O3A 285.2 65.9
H5'1 C5' C4' H4' 232.8 184.1
C4' C5' H5'1 O5' 113.8 119.7
C4' C5' H5'1 H5'2 236.9 238.2
O5' C5' H5'1 H5'2 123.1 118.5
H5'1 C5' O5' PA 303.6 0.7
H5'2 C5' C4' H4' 115.5 63.2
C4' C5' H5'2 O5' 244.1 240.3
C4' C5' H5'2 H5'1 122.0 121.9
O5' C5' H5'2 H5'1 238.0 241.5
H5'2 C5' O5' PA 60.8 119.3
PA O5' C5' H5'1 303.6 0.7
PA O5' C5' H5'2 60.8 119.3
O1A PA O5' O2A 235.5 234.0
O2A PA O5' O3A 243.0 234.1
O1A PA O5' O3A 118.5 108.1
O5' PA O1A HO1A 101.6 80.1
O5' PA O3A PB 163.8 173.7
O5' PA O2A O1A 235.6 239.3
O5' PA O2A O3A 115.4 120.7
O1A PA O2A O3A 239.8 241.4
O2A PA O1A HO1A 335.8 313.8
O2A PA O3A PB 284.4 300.0
O5' PA O1A O2A 125.8 126.3
O5' PA O1A O3A 244.6 251.0
O2A PA O1A O3A 118.8 124.7
O1A PA O3A PB 45.0 64.8
O5' PA O3A O2A 239.4 233.7
O5' PA O3A O1A 118.8 108.9
O1A PA O3A O2A 120.6 124.8
O3A PA O1A HO1A 217.0 189.1
PA O3A PB O2B 317.4 60.0
PA O3A PB O3B 67.2 185.3
PA O3A PB O1B 196.0 293.0
HO1A O1A PA O2A 335.8 313.8
HO1A O1A PA O3A 217.0 189.1
O2B PB O3A O3B 250.2 234.7
O1B PB O3A O2B 238.7 233.0
O1B PB O3A O3B 128.9 107.7
O3A PB O3B PG 223.4 174.3
O3A PB O1B HO1B 182.9 176.2
O3A PB O2B O3B 109.4 118.0
O3A PB O2B O1B 230.5 238.5
O1B PB O2B O3B 238.9 239.5
O2B PB O3B PG 336.8 300.0
O2B PB O1B HO1B 60.0 48.7
O3A PB O3B O2B 246.5 234.3
O3A PB O3B O1B 131.8 108.0
O1B PB O3B O2B 114.8 126.3
O3B PB O1B HO1B 306.3 282.3
PB O3B PG O1G 128.0 300.0
PB O3B PG O3G 7.3 65.9
PB O3B PG O2G 251.1 173.5
O3A PB O1B O2B 122.9 127.5
O3A PB O1B O3B 236.6 254.0
O2B PB O1B O3B 113.7 126.5
O1B PB O3B PG 91.6 66.3
HO1B O1B PB O2B 60.0 48.7
HO1B O1B PB O3B 306.3 282.3
O1G PG O3B O3G 120.7 234.1
O1G PG O3B O2G 237.0 126.5
O2G PG O3B O3G 243.8 107.6
O3B PG O3G HO3G 128.6 186.1
O3B PG O2G HO2G 204.5 174.5
O3B PG O1G O3G 239.4 119.4
O3B PG O1G O2G 118.0 239.8
O2G PG O1G O3G 121.4 239.6
O1G PG O3G HO3G 6.3 311.8
O1G PG O2G HO2G 326.5 48.4
O3B PG O3G O1G 122.3 234.4
O3B PG O3G O2G 246.4 107.6
O1G PG O3G O2G 124.2 233.3
O3G PG O2G HO2G 88.2 281.8
O3B PG O2G O1G 238.0 126.1
O3B PG O2G O3G 116.3 252.7
O1G PG O2G O3G 238.3 126.6
O2G PG O3G HO3G 242.2 78.5
HO2G O2G PG O3G 88.2 281.8