PDB Chemical Component BGM

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 BGM

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.477 1.480
P OP2 1.468 1.609
P O5' 1.585 1.611
P OP3   1.609
OP2 HOP2 0.949 0.968
O5' C5' 1.436 1.429
C5' C4' 1.515 1.531
C5' H5' 1.100 1.090
C5' H5'' 1.100 1.089
C4' O4' 1.437 1.443
C4' C3' 1.526 1.550
C4' H4' 1.100 1.089
O4' C1' 1.439 1.437
C1' N9 1.450 1.465
C1' C2' 1.513 1.542
C1' H1' 1.100 1.090
N9 C8 1.380 1.365
N9 C4 1.369 1.369
C8 N7 1.304 1.302
C8 BR   1.891
N7 C5 1.388 1.356
C5 C4 1.371 1.399
C5 C6 1.409 1.414
C4 N3 1.345 1.338
N3 C2 1.319 1.315
C2 N2 1.328 1.372
C2 N1 1.372 1.363
N2 H21 1.000 0.969
N2 H22 1.000 0.970
N1 C6 1.386 1.351
N1 H1 1.000 0.970
C6 O6 1.256 1.219
C2' C3' 1.537 1.548
C2' H2' 1.100 1.090
C2' H2'' 1.100 1.090
C3' O3' 1.431 1.429
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.968
OP3 HOP3   0.967

Bond Angles for BGM

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 117.5 109.5
OP1 P O5' 107.1 109.4
OP1 P OP3   109.5
OP2 P O5' 111.9 109.5
OP2 P OP3   109.5
P OP2 HOP2 109.5 114.0
O5' P OP3   109.5
P O5' C5' 118.3 123.0
P OP3 HOP3   114.0
O5' C5' C4' 105.4 109.4
O5' C5' H5' 110.5 109.5
O5' C5' H5'' 110.5 109.5
C4' C5' H5' 110.5 109.4
C4' C5' H5'' 110.5 109.5
C5' C4' O4' 109.2 110.6
C5' C4' C3' 117.6 110.6
C5' C4' H4' 107.8 110.6
H5' C5' H5'' 109.5 109.5
O4' C4' C3' 105.7 103.5
O4' C4' H4' 108.7 110.7
C4' O4' C1' 110.1 107.0
C3' C4' H4' 107.6 110.7
C4' C3' C2' 103.2 102.1
C4' C3' O3' 109.2 110.9
C4' C3' H3' 109.8 110.9
O4' C1' N9 106.0 109.9
O4' C1' C2' 104.5 107.3
O4' C1' H1' 110.4 109.9
N9 C1' C2' 116.0 109.9
N9 C1' H1' 110.2 109.9
C1' N9 C8 131.2 126.2
C1' N9 C4 124.0 126.3
C2' C1' H1' 109.4 110.0
C1' C2' C3' 100.6 104.2
C1' C2' H2' 111.6 110.5
C1' C2' H2'' 111.6 110.5
C8 N9 C4 104.8 107.5
N9 C8 N7 114.8 109.8
N9 C8 BR   125.1
N9 C4 C5 106.2 106.1
N9 C4 N3 125.8 134.2
N7 C8 BR   125.1
C8 N7 C5 102.7 109.3
N7 C5 C4 111.5 107.3
N7 C5 C6 130.0 134.1
C4 C5 C6 118.5 118.6
C5 C4 N3 128.0 119.7
C5 C6 N1 113.3 118.3
C5 C6 O6 127.5 120.9
C4 N3 C2 112.5 121.1
N3 C2 N2 118.4 119.0
N3 C2 N1 124.4 121.9
N2 C2 N1 117.2 119.1
C2 N2 H21 120.0 120.0
C2 N2 H22 120.0 120.0
C2 N1 C6 123.3 120.3
C2 N1 H1 118.3 119.8
H21 N2 H22 120.0 120.0
C6 N1 H1 118.3 119.9
N1 C6 O6 119.3 120.8
C3' C2' H2' 111.6 110.5
C3' C2' H2'' 111.7 110.5
C2' C3' O3' 113.6 110.9
C2' C3' H3' 109.6 110.9
H2' C2' H2'' 109.5 110.5
O3' C3' H3' 111.1 110.8
C3' O3' HO3' 109.5 114.0

Torsion Angles for BGM

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 O5' 233.1 240.0
OP2 P OP1 OP3   120.1
OP1 P OP2 HOP2 360.0 179.9
O5' P OP1 OP3   240.0
OP1 P O5' C5' 167.2 305.0
OP1 P OP3 HOP3   60.1
OP1 P OP2 O5' 124.6 119.9
OP1 P OP2 OP3   240.0
O5' P OP2 OP3   120.0
OP2 P O5' C5' 297.4 64.9
OP2 P OP3 HOP3   300.0
OP1 P O5' OP2 229.8 240.0
OP1 P O5' OP3   120.0
OP2 P O5' OP3   239.9
O5' P OP2 HOP2 235.4 60.0
O5' P OP3 HOP3   180.0
P O5' C5' C4' 179.3 180.0
P O5' C5' H5' 298.6 300.0
P O5' C5' H5'' 59.9 60.1
OP1 P OP3 OP2   120.0
OP1 P OP3 O5'   240.1
OP2 P OP3 O5'   120.1
OP3 P OP2 HOP2   300.0
OP3 P O5' C5'   185.0
HOP2 OP2 P O5' 235.4 60.0
HOP2 OP2 P OP3   300.0
C5' O5' P OP3   185.0
C4' C5' O5' H5' 240.7 240.1
C4' C5' O5' H5'' 119.4 120.0
O5' C5' C4' O4' 159.8 66.5
O5' C5' C4' C3' 280.2 180.5
O5' C5' C4' H4' 41.9 303.5
H5' C5' O5' H5'' 238.7 239.9
O5' C5' C4' H5' 119.3 120.0
O5' C5' C4' H5'' 240.6 240.0
H5' C5' C4' H5'' 121.3 120.0
O4' C4' C5' C3' 239.6 246.0
O4' C4' C5' H4' 117.9 123.0
C5' C4' O4' C1' 129.5 158.5
C3' C4' C5' H4' 238.3 237.0
C5' C4' C3' C2' 260.1 204.5
C5' C4' C3' O3' 139.0 86.3
C5' C4' C3' H3' 16.9 322.7
O5' C5' H5' C4' 243.8 240.1
O5' C5' H5' H5'' 121.9 120.1
C4' C5' H5' H5'' 238.1 240.0
H5' C5' C4' O4' 40.5 306.5
H5' C5' C4' C3' 160.8 60.5
H5' C5' C4' H4' 282.5 183.5
O5' C5' H5'' C4' 116.2 119.9
O5' C5' H5'' H5' 238.1 239.9
C4' C5' H5'' H5' 121.9 120.0
H5'' C5' C4' O4' 279.2 186.5
H5'' C5' C4' C3' 39.6 300.5
H5'' C5' C4' H4' 161.3 63.5
O4' C4' C5' H5' 40.5 306.5
O4' C4' C5' H5'' 279.2 186.5
C5' C4' O4' C3' 127.4 118.5
C5' C4' O4' H4' 242.7 237.1
C3' C4' O4' H4' 115.2 118.6
O4' C4' C3' C2' 22.2 323.0
O4' C4' C3' O3' 261.2 204.7
O4' C4' C3' H3' 139.1 81.2
C4' O4' C1' N9 210.8 214.1
C4' O4' C1' C2' 333.9 333.5
C4' O4' C1' H1' 91.4 93.0
C3' C4' C5' H5' 160.8 60.5
C3' C4' C5' H5'' 39.6 300.5
C5' C4' C3' O4' 237.8 241.5
C5' C4' C3' H4' 121.8 122.9
O4' C4' C3' H4' 244.0 241.4
C3' C4' O4' C1' 2.1 40.1
C1' C2' C3' C4' 323.4 20.9
C4' C3' C2' H2' 204.8 262.2
C4' C3' C2' H2'' 81.9 139.6
C2' C3' C4' O3' 121.1 118.2
C2' C3' C4' H3' 243.2 241.8
O3' C3' C4' H3' 122.1 123.6
C4' C3' O3' HO3' 180.0 180.0
H4' C4' C5' H5' 282.5 183.5
H4' C4' C5' H5'' 161.3 63.5
C5' C4' H4' O4' 118.2 123.0
C5' C4' H4' C3' 232.3 237.1
O4' C4' H4' C3' 114.0 114.1
H4' C4' O4' C1' 246.8 281.5
H4' C4' C3' C2' 138.3 81.6
H4' C4' C3' O3' 17.2 323.3
H4' C4' C3' H3' 255.1 199.8
C1' O4' C4' C3' 2.1 40.1
C1' O4' C4' H4' 246.8 281.5
N9 C1' O4' C2' 236.9 240.6
N9 C1' O4' H1' 119.4 121.1
O4' C1' N9 C8 60.6 43.5
O4' C1' N9 C4 243.9 223.3
C2' C1' O4' H1' 242.5 240.5
O4' C1' C2' C3' 38.4 2.0
O4' C1' C2' H2' 157.0 120.7
O4' C1' C2' H2'' 279.9 243.3
O4' C1' N9 C2' 115.5 117.8
O4' C1' N9 H1' 240.5 238.9
C2' C1' N9 H1' 125.0 121.1
N9 C1' C2' C3' 154.8 121.5
N9 C1' C2' H2' 273.3 240.1
N9 C1' C2' H2'' 36.2 2.8
C8 N9 C1' C4 176.7 180.2
C1' N9 C8 N7 182.6 180.0
C1' N9 C8 BR   0.0
C1' N9 C4 C5 177.7 179.9
C1' N9 C4 N3 358.3 359.9
C4' C3' C2' C1' 323.4 20.9
O4' C1' C2' N9 243.7 240.6
O4' C1' C2' H1' 118.3 119.5
N9 C1' C2' H1' 234.6 239.0
C2' C1' N9 C8 305.1 285.7
C2' C1' N9 C4 128.3 105.5
C3' C2' C1' H2' 241.5 241.3
C3' C2' C1' H2'' 118.6 118.7
C1' C2' C3' O3' 81.5 139.1
C1' C2' C3' H3' 206.4 262.7
H2' C2' C1' H2'' 237.1 237.3
O4' C1' H1' N9 116.8 121.1
O4' C1' H1' C2' 245.5 242.1
N9 C1' H1' C2' 128.7 121.0
H1' C1' N9 C8 180.1 164.6
H1' C1' N9 C4 3.4 344.4
H1' C1' C2' C3' 280.2 242.5
H1' C1' C2' H2' 38.7 1.2
H1' C1' C2' H2'' 161.6 123.8
C8 N9 C1' C2' 305.1 285.7
C8 N9 C1' H1' 180.1 164.6
C1' N9 C8 C4 182.8 179.8
C8 N9 C4 C5 0.3 359.7
C8 N9 C4 N3 180.8 179.7
N7 C8 N9 BR   180.0
N9 C8 N7 C5 360.0 0.0
C4 N9 C1' C2' 128.3 105.5
C4 N9 C1' H1' 3.4 344.4
C1' N9 C4 C8 177.5 180.2
C4 N9 C8 N7 359.8 0.2
C4 N9 C8 BR   180.2
N7 C5 C4 N9 359.7 0.3
N9 C4 C5 C6 180.5 180.2
C5 C4 N9 N3 179.4 179.9
N9 C4 N3 C2 179.8 180.0
N7 C8 N9 C4 359.8 0.2
N9 C8 N7 BR   180.0
C8 N7 C5 C4 0.2 359.8
C8 N7 C5 C6 179.3 180.0
BR C8 N9 C4   180.2
N9 C8 BR N7   180.0
BR C8 N7 C5   180.0
N9 C4 C5 N7 359.7 0.3
C5 N7 C8 BR   180.0
C4 C5 N7 C6 180.9 179.8
N7 C5 C4 N3 179.1 180.3
N7 C5 C6 N1 180.7 179.3
N7 C5 C6 O6 0.9 360.0
N9 C4 C5 N3 180.6 180.1
N7 C5 C4 C6 179.2 180.2
C4 C5 C6 N1 359.7 359.5
C4 C5 C6 O6 180.0 180.2
C5 C4 N3 C2 0.5 0.1
N7 C5 C6 C4 180.9 179.8
C6 C5 C4 N3 359.9 0.1
C2 N1 C6 C5 0.3 0.6
C5 C6 N1 H1 180.3 180.2
N1 C6 C5 O6 179.7 179.3
N9 C4 N3 C5 179.3 179.9
N3 C4 C5 C6 359.9 0.1
C4 N3 C2 N2 181.1 180.0
C4 N3 C2 N1 359.5 360.0
N2 C2 N3 N1 181.6 180.1
N3 C2 N2 H21 0.0 359.9
N3 C2 N2 H22 180.0 180.0
N3 C2 N1 C6 0.1 359.7
N3 C2 N1 H1 180.1 180.0
N3 C2 N2 N1 178.6 179.9
N2 C2 N1 C6 178.6 179.6
N2 C2 N1 H1 358.6 360.0
H21 N2 C2 H22 180.0 179.9
C5 C6 N1 C2 0.3 0.6
N3 C2 N1 N2 181.5 180.1
N1 C2 N2 H21 181.5 179.9
N1 C2 N2 H22 1.5 0.1
C6 N1 C2 H1 180.0 179.6
C2 N1 C6 O6 180.0 179.9
H21 N2 C2 N1 181.5 179.9
C2 N2 H21 H22 180.0 180.1
H22 N2 C2 N1 1.5 0.1
C2 N2 H22 H21 180.0 179.9
C5 C6 N1 O6 180.2 180.7
C2 N1 C6 H1 180.0 180.4
C2 N1 H1 C6 180.0 179.6
H1 N1 C6 O6 0.0 359.5
C5 C6 O6 N1 179.7 179.3
O6 C6 N1 H1 0.0 359.5
C2' C3' C4' H4' 138.3 81.6
C4' C3' C2' O3' 241.9 241.8
C4' C3' C2' H3' 116.9 118.2
C3' C2' C1' H1' 280.2 242.5
C1' C2' C3' H2' 118.5 118.7
C1' C2' C3' H2'' 241.4 241.3
H2' C2' C3' H2'' 122.9 122.7
O3' C3' C2' H3' 235.0 236.4
C2' C3' O3' HO3' 65.5 67.3
H2' C2' C1' H1' 38.7 1.2
C1' C2' H2' C3' 248.2 245.3
C1' C2' H2' H2'' 124.1 122.6
C3' C2' H2' H2'' 235.9 237.4
H2' C2' C3' O3' 322.9 20.4
H2' C2' C3' H3' 87.9 144.0
H2'' C2' C1' H1' 161.6 123.8
C1' C2' H2'' C3' 111.8 114.8
C1' C2' H2'' H2' 235.9 237.4
C3' C2' H2'' H2' 124.1 122.6
H2'' C2' C3' O3' 200.0 257.8
H2'' C2' C3' H3' 325.0 21.4
O3' C3' C4' H4' 17.2 323.3
C4' C3' O3' C2' 114.5 112.7
C4' C3' O3' H3' 238.7 236.4
O3' C3' C2' H2' 322.9 20.4
O3' C3' C2' H2'' 200.0 257.8
C2' C3' O3' H3' 124.2 123.6
H3' C3' C4' H4' 255.1 199.8
C4' C3' H3' C2' 247.3 247.3
C4' C3' H3' O3' 121.0 123.6
H3' C3' C2' H2' 87.9 144.0
H3' C3' C2' H2'' 325.0 21.4
C2' C3' H3' O3' 233.6 236.3
H3' C3' O3' HO3' 301.3 303.6
HO3' O3' C3' H3' 301.3 303.6