PDB Chemical Component 5BU

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 5BU

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.501 1.501
P OP2 1.476 1.617
P OP3   1.618
P O5' 1.584 1.619
OP2 HOP2 0.951 0.980
OP3 HOP3   0.980
O5' C5' 1.425 1.416
C5' C4' 1.520 1.523
C5' H5' 1.116 1.092
C5' H5'' 1.115 1.091
C4' O4' 1.456 1.444
C4' C3' 1.522 1.523
C4' H4' 1.115 1.095
O4' C1' 1.416 1.437
C3' O3' 1.419 1.427
C3' C2' 1.514 1.514
C3' H3' 1.114 1.093
O3' HO3' 0.950 0.969
C2' O2' 1.410 1.413
C2' C1' 1.526 1.519
C2' H2' 1.114 1.097
O2' HO2' 0.950 0.973
C1' N1 1.468 1.435
C1' H1' 1.115 1.094
N1 C2 1.372 1.413
N1 C6 1.381 1.390
C2 O2 1.223 1.233
C2 N3 1.367 1.400
N3 C4 1.387 1.388
N3 H3 1.019 1.016
C4 O4 1.241 1.228
C4 C5 1.430 1.486
C5 C6 1.318 1.338
C5 BR 1.879 1.863
C6 H6 1.103 1.086

Bond Angles for 5BU

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.9 115.3
OP1 P OP3   114.9
OP1 P O5' 106.2 115.0
OP2 P OP3   103.3
OP2 P O5' 111.3 103.8
P OP2 HOP2 119.9 119.0
OP3 P O5'   102.9
P OP3 HOP3   119.0
P O5' C5' 120.7 118.5
O5' C5' C4' 110.3 108.6
O5' C5' H5' 111.9 109.2
O5' C5' H5'' 111.9 109.3
C4' C5' H5' 111.9 110.1
C4' C5' H5'' 111.9 110.1
C5' C4' O4' 110.7 108.2
C5' C4' C3' 115.9 113.3
C5' C4' H4' 102.4 109.3
H5' C5' H5'' 98.5 109.6
O4' C4' C3' 103.4 105.9
O4' C4' H4' 115.1 107.7
C4' O4' C1' 109.6 109.2
C3' C4' H4' 109.8 112.2
C4' C3' O3' 113.0 107.9
C4' C3' C2' 101.9 102.1
C4' C3' H3' 112.6 114.5
O4' C1' C2' 107.1 106.5
O4' C1' N1 108.9 109.0
O4' C1' H1' 112.8 108.9
O3' C3' C2' 110.8 110.3
O3' C3' H3' 104.0 107.8
C3' O3' HO3' 113.1 106.4
C2' C3' H3' 114.8 114.0
C3' C2' O2' 111.8 112.3
C3' C2' C1' 101.0 102.0
C3' C2' H2' 113.2 110.1
O2' C2' C1' 108.7 112.6
O2' C2' H2' 106.1 108.6
C2' O2' HO2' 111.9 107.1
C1' C2' H2' 116.1 111.1
C2' C1' N1 113.4 112.5
C2' C1' H1' 108.2 112.6
N1 C1' H1' 106.4 107.3
C1' N1 C2 116.8 121.3
C1' N1 C6 121.9 118.6
C2 N1 C6 121.3 120.2
N1 C2 O2 122.2 123.7
N1 C2 N3 115.3 115.1
N1 C6 C5 122.0 124.3
N1 C6 H6 121.3 114.6
O2 C2 N3 122.5 121.1
C2 N3 C4 126.3 127.1
C2 N3 H3 116.1 116.5
C4 N3 H3 117.7 116.5
N3 C4 O4 119.8 123.2
N3 C4 C5 114.4 114.5
O4 C4 C5 125.6 122.3
C4 C5 C6 120.5 118.8
C4 C5 BR 119.7 118.7
C6 C5 BR 119.7 122.5
C5 C6 H6 116.6 121.1

Torsion Angles for 5BU

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 OP3   240.0
OP2 P OP1 O5' 127.1 120.7
OP1 P OP2 HOP2 180.0 48.7
OP3 P OP1 O5'   240.7
OP1 P OP3 HOP3   312.0
OP1 P O5' C5' 181.5 180.1
OP1 P OP2 OP3   126.2
OP1 P OP2 O5' 235.3 233.4
OP3 P OP2 O5'   107.1
OP2 P OP3 HOP3   78.5
OP2 P O5' C5' 49.4 53.2
OP1 P OP3 OP2   233.5
OP1 P OP3 O5'   125.8
OP2 P OP3 O5'   252.3
OP3 P OP2 HOP2   282.5
OP3 P O5' C5'   305.8
OP1 P O5' OP2 132.1 126.9
OP1 P O5' OP3   234.2
OP2 P O5' OP3   107.4
O5' P OP2 HOP2 304.7 175.4
O5' P OP3 HOP3   186.2
P O5' C5' C4' 191.5 180.0
P O5' C5' H5' 316.8 300.1
P O5' C5' H5'' 66.3 59.9
HOP2 OP2 P OP3   282.5
HOP2 OP2 P O5' 304.7 175.4
HOP3 OP3 P O5'   186.2
C4' C5' O5' H5' 234.7 239.9
C4' C5' O5' H5'' 125.3 120.1
O5' C5' C4' O4' 289.7 62.4
O5' C5' C4' C3' 47.1 179.5
O5' C5' C4' H4' 166.6 305.4
H5' C5' O5' H5'' 250.5 240.2
O5' C5' C4' H5' 125.3 119.5
O5' C5' C4' H5'' 234.7 240.4
H5' C5' C4' H5'' 109.5 120.9
O4' C4' C5' C3' 242.7 242.9
O4' C4' C5' H4' 123.2 117.0
C5' C4' O4' C1' 145.7 109.0
C3' C4' C5' H4' 240.5 234.1
C5' C4' C3' O3' 82.0 156.8
C5' C4' C3' C2' 200.9 273.1
C5' C4' C3' H3' 324.4 36.8
O5' C5' H5' C4' 235.6 240.8
O5' C5' H5' H5'' 117.8 119.6
C4' C5' H5' H5'' 242.2 238.8
H5' C5' C4' O4' 164.5 302.9
H5' C5' C4' C3' 281.8 60.0
H5' C5' C4' H4' 41.3 185.9
O5' C5' H5'' C4' 124.4 119.2
O5' C5' H5'' H5' 242.2 240.4
C4' C5' H5'' H5' 117.8 121.2
H5'' C5' C4' O4' 55.0 182.0
H5'' C5' C4' C3' 172.3 299.1
H5'' C5' C4' H4' 291.8 65.0
O4' C4' C5' H5' 164.5 302.9
O4' C4' C5' H5'' 55.0 182.0
C5' C4' O4' C3' 124.8 121.7
C5' C4' O4' H4' 244.5 241.9
C3' C4' O4' H4' 119.8 120.2
O4' C4' C3' O3' 203.3 275.3
O4' C4' C3' C2' 322.2 31.5
O4' C4' C3' H3' 85.7 155.2
C4' O4' C1' C2' 4.4 348.7
C4' O4' C1' N1 241.4 227.1
C4' O4' C1' H1' 123.4 110.3
C3' C4' C5' H5' 281.8 60.0
C3' C4' C5' H5'' 172.3 299.1
C5' C4' C3' O4' 238.7 241.6
C5' C4' C3' H4' 115.4 124.4
O4' C4' C3' H4' 236.7 242.8
C3' C4' O4' C1' 20.9 347.2
O3' C3' C4' C2' 241.1 243.7
O3' C3' C4' H3' 117.5 120.1
C4' C3' O3' HO3' 180.0 15.2
C2' C3' C4' H3' 236.5 236.3
C4' C3' C2' O2' 284.0 202.0
C4' C3' C2' C1' 39.4 322.9
C4' C3' C2' H2' 164.3 80.9
H4' C4' C5' H5' 41.3 185.9
H4' C4' C5' H5'' 291.8 65.0
C5' C4' H4' O4' 120.2 117.3
C5' C4' H4' C3' 236.3 233.5
O4' C4' H4' C3' 116.2 116.2
H4' C4' O4' C1' 261.2 227.0
H4' C4' C3' O3' 326.6 32.5
H4' C4' C3' C2' 85.5 148.7
H4' C4' C3' H3' 209.0 272.4
C1' O4' C4' C3' 20.9 347.2
C1' O4' C4' H4' 261.2 227.0
C3' C2' C1' O4' 332.1 30.7
O2' C2' C1' O4' 89.9 151.3
O4' C1' C2' H2' 209.3 273.4
C2' C1' O4' N1 123.1 121.6
C2' C1' O4' H1' 241.0 238.4
N1 C1' O4' H1' 118.0 116.8
O4' C1' N1 C2 207.7 212.3
O4' C1' N1 C6 26.5 32.2
O3' C3' C4' H4' 326.6 32.5
C4' C3' O3' C2' 113.7 110.7
C4' C3' O3' H3' 237.5 235.8
C2' C3' O3' H3' 123.8 125.1
O3' C3' C2' O2' 44.5 316.5
O3' C3' C2' C1' 159.9 77.4
O3' C3' C2' H2' 284.8 195.4
C2' C3' C4' H4' 85.5 148.7
C4' C3' C2' O3' 239.5 245.5
C4' C3' C2' H3' 122.1 124.0
O4' C1' C2' C3' 332.1 30.7
O3' C3' C2' H3' 242.6 238.5
C2' C3' O3' HO3' 66.3 264.4
O2' C2' C3' C1' 244.5 239.2
O2' C2' C3' H2' 119.7 121.1
C3' C2' O2' HO2' 180.0 168.8
C1' C2' C3' H2' 235.2 242.0
C3' C2' C1' N1 92.4 150.0
C3' C2' C1' H1' 210.2 271.5
H3' C3' C4' H4' 209.0 272.4
C4' C3' H3' O3' 122.7 120.1
C4' C3' H3' C2' 244.0 243.0
O3' C3' H3' C2' 121.2 122.8
H3' C3' O3' HO3' 302.5 139.4
H3' C3' C2' O2' 161.9 78.0
H3' C3' C2' C1' 277.4 198.9
H3' C3' C2' H2' 42.2 316.9
HO3' O3' C3' C2' 66.3 264.4
HO3' O3' C3' H3' 302.5 139.4
O4' C1' C2' O2' 89.9 151.3
O2' C2' C3' H3' 161.9 78.0
C3' C2' O2' C1' 110.7 114.5
C3' C2' O2' H2' 236.2 238.0
C1' C2' O2' H2' 125.5 123.5
O2' C2' C1' N1 210.1 270.6
O2' C2' C1' H1' 328.0 32.1
O4' C1' C2' N1 239.8 240.7
O4' C1' C2' H1' 121.9 119.3
C1' C2' C3' H3' 277.4 198.9
C3' C2' C1' O2' 242.2 239.4
C3' C2' C1' H2' 122.8 117.3
O2' C2' C1' H2' 240.6 237.9
C1' C2' O2' HO2' 69.3 54.3
N1 C1' C2' H1' 242.1 238.6
C2' C1' N1 C2 88.5 94.4
C2' C1' N1 C6 267.3 274.3
H2' C2' C3' H3' 42.2 316.9
C3' C2' H2' O2' 123.0 123.3
C3' C2' H2' C1' 243.8 247.7
O2' C2' H2' C1' 120.9 124.4
H2' C2' O2' HO2' 303.8 290.8
H2' C2' C1' N1 329.5 32.7
H2' C2' C1' H1' 87.4 154.2
HO2' O2' C2' C1' 69.3 54.3
HO2' O2' C2' H2' 303.8 290.8
O4' C1' N1 C2' 119.2 117.9
O4' C1' N1 H1' 238.1 242.3
N1 C1' C2' H2' 329.5 32.7
C2' C1' N1 H1' 118.9 124.4
C2 N1 C1' C6 181.2 180.0
C1' N1 C2 O2 354.6 359.9
C1' N1 C2 N3 175.5 180.0
C1' N1 C6 C5 183.6 180.0
C1' N1 C6 H6 3.6 0.1
O4' C1' H1' C2' 241.7 242.1
O4' C1' H1' N1 119.4 117.8
H1' C1' C2' H2' 87.4 154.2
C2' C1' H1' N1 237.7 235.7
H1' C1' N1 C2 329.6 330.0
H1' C1' N1 C6 148.4 150.0
C2 N1 C1' H1' 329.6 330.0
C1' N1 C2 C6 178.8 180.0
C2 N1 C6 C5 2.4 359.9
C2 N1 C6 H6 182.4 180.0
O2 C2 N1 N3 179.1 179.9
N1 C2 N3 C4 1.7 360.0
N1 C2 N3 H3 181.7 180.0
C6 N1 C1' H1' 148.4 150.0
C1' N1 C6 C2 181.2 180.0
C6 N1 C2 O2 175.8 179.9
C6 N1 C2 N3 356.7 0.0
C4 C5 C6 N1 0.5 0.1
N1 C6 C5 BR 180.7 180.0
C5 C6 N1 H6 180.0 179.9
O2 C2 N1 C6 175.8 179.9
N1 C2 O2 N3 181.0 180.1
O2 C2 N3 C4 182.6 180.1
O2 C2 N3 H3 2.6 0.1
N3 C2 N1 C6 356.7 0.0
N1 C2 N3 O2 179.1 179.9
C4 N3 C2 H3 180.0 180.0
C2 N3 C4 O4 184.1 180.0
C2 N3 C4 C5 0.9 0.0
C2 N3 C4 H3 180.0 180.0
O4 C4 N3 C5 183.2 180.0
N3 C4 C5 C6 358.0 360.0
N3 C4 C5 BR 177.8 180.0
C2 N3 H3 C4 180.0 180.0
H3 N3 C4 O4 4.1 360.0
H3 N3 C4 C5 180.9 180.0
O4 C4 N3 H3 4.1 360.0
N3 C4 O4 C5 176.4 180.0
O4 C4 C5 C6 174.5 180.0
O4 C4 C5 BR 354.3 0.0
N1 C6 C5 C4 0.5 0.1
C5 C4 N3 H3 180.9 180.0
N3 C4 C5 O4 183.4 180.0
C6 C5 C4 BR 180.2 180.0
C4 C5 C6 H6 180.5 179.9
N1 C6 C5 H6 180.0 180.1
C4 C5 C6 BR 179.8 180.0
C4 C5 BR C6 180.2 180.0
BR C5 C6 H6 0.7 359.9
N1 C6 H6 C5 180.0 179.9
H6 C6 C5 BR 0.7 359.9