PDB Chemical Component B7C

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 B7C

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
OP3 P 1.595 1.609
P OP1 1.487 1.610
P OP2 1.485 1.481
P O5' 1.581 1.610
O5' C5' 1.419 1.428
N1 C6 1.368 1.364
N1 C2 1.400 1.343
N1 C1' 1.471 1.465
C6 C5 1.338 1.360
C2 O2 1.243 1.220
C2 N3 1.357 1.335
N3 C4 1.335 1.316
C4 N4 1.347 1.379
C4 C5 1.429 1.470
N4 C9 1.474 1.477
C5 C7 1.450 1.475
C7 C8 1.333 1.333
C8 C9 1.510 1.510
C2' C1' 1.512 1.544
C2' C3' 1.518 1.545
C5' C4' 1.505 1.530
C4' O4' 1.444 1.444
C4' C3' 1.524 1.545
O4' C1' 1.417 1.444
C3' O3' 1.418 1.429
OP3 HOP3 0.950 0.967
OP1 HOP1 0.950 0.967
C6 H6 1.080 1.080
N4 HN4 1.000 0.970
C7 H7 1.080 1.080
C8 H8 1.080 1.080
C9 H9 1.100 1.089
C9 H9A 1.099 1.090
C2' H2' 1.100 1.090
C2' H2'A 1.100 1.090
C5' H5' 1.100 1.090
C5' H5'A 1.100 1.090
C4' H4' 1.100 1.090
C1' H1' 1.100 1.090
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.967

Bond Angles for B7C

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP3 P OP1 107.7 109.5
OP3 P OP2 108.8 109.4
OP3 P O5' 101.2 109.5
P OP3 HOP3 109.5 114.0
OP1 P OP2 120.1 109.4
OP1 P O5' 108.7 109.5
P OP1 HOP1 109.5 114.0
OP2 P O5' 108.7 109.5
P O5' C5' 119.7 123.0
O5' C5' C4' 109.7 109.5
O5' C5' H5' 109.4 109.5
O5' C5' H5'A 109.4 109.5
C6 N1 C2 120.4 121.4
C6 N1 C1' 121.2 119.3
N1 C6 C5 120.9 118.3
N1 C6 H6 119.6 120.8
C2 N1 C1' 118.4 119.3
N1 C2 O2 118.7 118.8
N1 C2 N3 119.3 122.4
N1 C1' C2' 116.7 110.3
N1 C1' O4' 108.0 110.4
N1 C1' H1' 104.2 110.4
C6 C5 C4 117.7 118.6
C6 C5 C7 122.7 123.3
C5 C6 H6 119.6 120.9
O2 C2 N3 122.0 118.8
C2 N3 C4 119.8 120.0
N3 C4 N4 118.5 123.9
N3 C4 C5 121.9 119.4
N4 C4 C5 119.6 116.7
C4 N4 C9 112.5 116.0
C4 N4 HN4 123.8 122.0
C4 C5 C7 119.3 118.1
N4 C9 C8 109.9 109.1
C9 N4 HN4 123.8 122.0
N4 C9 H9 109.3 109.5
N4 C9 H9A 109.2 109.5
C5 C7 C8 117.7 118.7
C5 C7 H7 121.1 120.6
C7 C8 C9 117.8 120.3
C8 C7 H7 121.2 120.6
C7 C8 H8 121.1 119.9
C9 C8 H8 121.1 119.8
C8 C9 H9 109.3 109.5
C8 C9 H9A 109.2 109.5
C1' C2' C3' 100.8 104.1
C2' C1' O4' 104.7 104.8
C1' C2' H2' 112.5 110.5
C1' C2' H2'A 114.3 110.5
C2' C1' H1' 107.4 110.4
C2' C3' C4' 103.4 104.1
C2' C3' O3' 110.0 110.5
C3' C2' H2' 112.5 110.5
C3' C2' H2'A 114.3 110.5
C2' C3' H3' 112.7 110.5
C5' C4' O4' 111.1 110.4
C5' C4' C3' 113.5 110.4
C4' C5' H5' 109.4 109.5
C4' C5' H5'A 109.3 109.5
C5' C4' H4' 104.5 110.3
O4' C4' C3' 106.1 104.8
C4' O4' C1' 108.8 105.3
O4' C4' H4' 112.2 110.4
C4' C3' O3' 108.5 110.5
C3' C4' H4' 109.6 110.4
C4' C3' H3' 114.1 110.5
O4' C1' H1' 116.3 110.5
O3' C3' H3' 107.9 110.6
C3' O3' HO3' 109.5 114.0
H9 C9 H9A 109.8 109.6
H2' C2' H2'A 103.0 110.5
H5' C5' H5'A 109.6 109.4

Torsion Angles for B7C

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP3 OP2 131.7 240.1
OP1 P OP3 O5' 246.1 120.0
OP3 P OP1 HOP1 353.5 59.9
OP2 P OP3 O5' 114.4 240.0
OP3 P O5' C5' 326.8 295.0
OP3 P OP1 OP2 234.8 120.0
OP3 P OP1 O5' 108.8 239.9
OP1 P OP3 HOP3 218.9 60.0
OP2 P OP1 O5' 234.0 120.0
OP1 P O5' C5' 80.0 175.0
OP3 P OP2 OP1 124.7 240.0
OP3 P OP2 O5' 250.7 120.0
OP2 P OP3 HOP3 87.2 180.0
OP1 P OP2 O5' 126.0 240.0
OP2 P OP1 HOP1 118.6 300.0
OP2 P O5' C5' 212.4 55.0
OP3 P O5' OP1 246.8 120.1
OP3 P O5' OP2 114.4 240.0
O5' P OP3 HOP3 332.8 300.0
OP1 P O5' OP2 227.6 120.0
O5' P OP1 HOP1 244.6 180.0
P O5' C5' C4' 155.8 180.0
P O5' C5' H5' 275.8 300.0
P O5' C5' H5'A 35.9 60.0
O5' C5' C4' O4' 279.3 66.4
O5' C5' C4' C3' 38.7 181.9
C4' C5' O5' H5' 240.0 240.0
C4' C5' O5' H5'A 119.9 120.0
O5' C5' C4' H4' 158.1 304.2
H5' C5' O5' H5'A 239.9 240.0
C2 N1 C6 C1' 178.9 180.4
C6 N1 C2 O2 178.0 179.3
C6 N1 C2 N3 358.1 359.2
C6 N1 C1' C2' 313.6 115.0
C6 N1 C1' O4' 71.1 230.4
C6 N1 C1' H1' 195.3 352.8
N1 C6 C5 C4 359.9 0.5
N1 C6 C5 C7 174.1 180.9
C5 C6 N1 H6 180.0 180.1
C6 N1 C2 C1' 181.1 179.6
C2 N1 C6 C5 1.6 0.3
C2 N1 C6 H6 181.6 180.3
C2 N1 C1' C2' 134.7 294.7
C2 N1 C1' O4' 252.2 50.0
C2 N1 C1' H1' 16.4 172.5
O2 C2 N1 N3 179.9 180.1
N1 C2 N3 C4 0.7 0.4
C6 N1 C1' C2 178.9 180.3
C1' N1 C6 C5 182.8 180.0
C1' N1 C6 H6 2.8 359.9
C1' N1 C2 O2 356.9 359.6
C1' N1 C2 N3 177.0 179.5
N1 C1' C2' C3' 159.5 142.8
C2' C1' N1 O4' 242.5 244.6
N1 C1' C2' H2' 279.5 261.5
N1 C1' C2' H2'A 36.5 24.2
C2' C1' N1 H1' 118.3 122.2
C4' O4' C1' N1 204.6 200.7
O4' C1' N1 H1' 235.8 237.6
C5 C6 N1 C2 1.6 0.3
C5 C6 N1 C1' 182.8 180.0
N1 C6 C5 H6 180.0 179.9
N3 C4 C5 C6 358.8 359.2
N4 C4 C5 C6 177.7 178.9
C4 C5 C6 C7 185.7 179.6
C6 C5 C7 C8 170.0 198.7
C6 C5 C7 H7 350.0 18.7
O2 C2 N1 C1' 356.9 359.6
N1 C2 O2 N3 180.1 179.9
O2 C2 N3 C4 180.8 180.3
N3 C2 N1 C1' 177.0 179.5
N1 C2 N3 O2 179.9 180.1
C2 N3 C4 N4 182.0 180.7
C2 N3 C4 C5 0.9 0.4
C6 C5 C4 N3 358.8 359.2
N4 C4 N3 C5 181.2 180.3
N3 C4 N4 C9 211.6 144.2
N3 C4 N4 HN4 31.6 324.3
N3 C4 C5 C7 184.4 178.8
C6 C5 C4 N4 177.7 178.9
N3 C4 N4 C5 178.9 179.7
N4 C4 C5 C7 3.2 358.5
C4 N4 C9 C8 305.4 53.0
C9 N4 C4 HN4 180.0 179.9
C4 N4 C9 H9 65.4 172.9
C4 N4 C9 H9A 185.6 293.1
C6 C5 C4 C7 174.5 180.4
C4 C5 C6 H6 179.9 180.5
N3 C4 C5 N4 181.2 180.3
C5 C4 N4 C9 32.7 324.5
C5 C4 N4 HN4 212.7 144.5
C4 C5 C7 C8 344.2 19.1
C4 C5 C7 H7 164.2 199.1
C9 N4 C4 C5 32.7 324.5
C4 N4 C9 HN4 180.0 180.1
C7 C8 C9 N4 43.5 324.6
N4 C9 C8 H8 223.5 144.6
C8 C9 N4 H9 240.0 240.1
C8 C9 N4 H9A 119.8 119.9
H9 C9 N4 H9A 239.8 239.8
C6 C5 C7 C4 185.8 179.6
C7 C5 C6 H6 354.1 1.0
C5 C7 C8 C9 351.0 1.1
C8 C7 C5 H7 180.0 180.0
C5 C7 C8 H8 171.0 181.1
N4 C9 C8 C7 43.5 324.6
C5 C7 C8 H7 180.0 180.0
C9 C8 C7 H8 180.0 180.1
C7 C8 C9 H9 283.5 204.7
C7 C8 C9 H9A 163.3 84.5
C8 C9 N4 HN4 125.3 233.0
N4 C9 C8 H9 120.0 119.9
N4 C9 C8 H9A 240.2 240.1
C9 C8 C7 H7 171.0 181.1
C7 C8 C9 H8 180.0 179.9
H9 C9 C8 H9A 120.2 120.3
N1 C1' C2' O4' 119.3 118.8
N1 C1' C2' H1' 243.5 237.8
C1' C2' C3' C4' 325.4 359.9
C1' C2' C3' O3' 81.2 118.6
C3' C2' C1' H2' 240.0 241.4
C3' C2' C1' H2'A 123.0 118.7
C1' C2' C3' H3' 201.7 241.4
C4' O4' C1' C2' 329.6 319.5
O4' C1' C2' H1' 124.2 119.0
H2' C2' C1' H2'A 243.0 237.3
C3' C2' C1' O4' 40.2 24.0
C1' C2' C3' H2' 120.0 118.7
C1' C2' C3' H2'A 237.0 241.3
C3' C2' C1' H1' 276.0 265.1
C5' C4' C3' C2' 255.6 217.2
O4' C4' C3' C2' 17.8 336.1
C4' C3' C2' O3' 244.2 241.3
C2' C3' C4' H4' 139.2 94.9
C4' C3' C2' H3' 123.7 118.6
O3' C3' C2' H3' 239.5 237.3
C2' C3' O3' HO3' 35.4 61.5
H2' C2' C3' H2'A 117.0 122.6
O5' C5' C4' H5' 120.0 120.0
O5' C5' C4' H5'A 240.1 239.9
C2' C3' C4' C5' 255.6 217.2
O4' C4' C5' C3' 240.6 244.6
C5' C4' O4' C1' 131.4 159.4
O4' C4' C5' H4' 121.2 122.3
C5' C4' C3' O3' 138.8 98.5
C3' C4' C5' H4' 240.6 237.7
C5' C4' C3' H3' 18.4 335.8
H5' C5' C4' H5'A 120.1 119.9
N1 C1' O4' C4' 204.6 200.7
C2' C1' O4' C4' 329.6 319.5
C2' C3' C4' O4' 17.8 336.1
C5' C4' O4' C3' 123.8 118.9
O4' C4' C5' H5' 159.3 306.4
O4' C4' C5' H5'A 39.2 186.5
C5' C4' O4' H4' 243.4 237.8
O4' C4' C3' O3' 261.0 217.4
C3' C4' O4' H4' 119.7 118.9
O4' C4' C3' H3' 140.6 94.6
C4' O4' C1' H1' 88.0 78.3
C2' C3' C4' O3' 116.8 118.7
C4' C3' C2' H2' 205.5 241.3
C4' C3' C2' H2'A 88.5 118.6
C2' C3' C4' H3' 237.2 241.4
C5' C4' C3' O4' 237.8 241.1
C3' C4' C5' H5' 278.7 61.8
C3' C4' C5' H5'A 158.6 301.9
C5' C4' C3' H4' 116.5 122.3
C3' C4' O4' C1' 7.7 40.5
O4' C4' C3' H4' 238.7 241.1
O3' C3' C4' H3' 120.4 122.7
C4' C3' O3' HO3' 147.9 176.2
N1 C1' O4' C2' 235.0 241.2
N1 C1' O4' H1' 116.6 122.3
O4' C1' C2' C3' 40.2 24.0
O4' C1' C2' H2' 160.2 142.6
O4' C1' C2' H2'A 277.2 265.3
C2' C1' O4' H1' 241.6 241.1
C1' O4' C4' C3' 7.7 40.5
C1' O4' C4' H4' 248.0 281.6
C2' C3' O3' C4' 247.5 245.3
O3' C3' C2' H2' 321.2 360.0
O3' C3' C2' H2'A 204.2 237.3
C2' C3' O3' H3' 123.3 122.7
O3' C3' C4' H4' 22.3 336.2
C4' C3' O3' H3' 235.8 237.3
HOP3 OP3 P OP1 218.9 60.0
HOP3 OP3 P OP2 87.2 180.0
HOP3 OP3 P O5' 332.8 300.0
HOP1 OP1 P OP2 118.6 300.0
HOP1 OP1 P O5' 244.6 180.0
H6 C6 N1 C2 181.6 180.3
H6 C6 N1 C1' 2.8 359.9
N1 C6 H6 C5 180.0 180.1
H6 C6 C5 C4 179.9 180.5
H6 C6 C5 C7 354.1 1.0
HN4 N4 C4 C5 212.7 144.5
C4 N4 HN4 C9 180.0 179.9
HN4 N4 C9 C8 125.3 233.0
HN4 N4 C9 H9 245.3 352.8
HN4 N4 C9 H9A 5.5 113.1
C5 C7 H7 C8 180.0 180.0
H7 C7 C8 C9 171.0 181.1
H7 C7 C8 H8 351.0 1.1
C7 C8 H8 C9 180.0 180.1
H8 C8 C7 H7 351.0 1.1
H8 C8 C9 H9 103.5 24.8
H8 C8 C9 H9A 343.3 264.5
N4 C9 H9 C8 239.6 240.4
H9 C9 N4 HN4 245.3 352.8
N4 C9 H9 H9A 119.8 120.2
H9 C9 C8 H8 103.5 24.8
C8 C9 H9 H9A 240.2 239.8
N4 C9 H9A C8 120.3 119.6
H9A C9 N4 HN4 5.5 113.1
N4 C9 H9A H9 240.1 239.8
H9A C9 C8 H8 343.3 264.5
C8 C9 H9A H9 119.9 120.2
C1' C2' H2' C3' 247.0 245.4
H2' C2' C1' O4' 160.2 142.6
C1' C2' H2' H2'A 123.5 122.7
H2' C2' C1' H1' 36.0 23.7
H2' C2' C3' C4' 205.5 241.3
H2' C2' C3' O3' 321.2 360.0
C3' C2' H2' H2'A 236.5 237.4
H2' C2' C3' H3' 81.7 122.7
C1' C2' H2'A C3' 115.4 114.7
H2'A C2' C1' O4' 277.2 265.3
C1' C2' H2'A H2' 237.7 237.3
H2'A C2' C1' H1' 153.0 146.4
H2'A C2' C3' C4' 88.5 118.6
H2'A C2' C3' O3' 204.2 237.3
C3' C2' H2'A H2' 122.3 122.6
H2'A C2' C3' H3' 324.7 0.1
O5' C5' H5' C4' 239.8 240.0
O5' C5' H5' H5'A 119.9 120.0
H5' C5' C4' O4' 159.3 306.4
H5' C5' C4' C3' 278.7 61.8
C4' C5' H5' H5'A 240.1 240.1
H5' C5' C4' H4' 38.1 184.2
O5' C5' H5'A C4' 120.1 120.0
O5' C5' H5'A H5' 240.1 240.0
H5'A C5' C4' O4' 39.2 186.5
H5'A C5' C4' C3' 158.6 301.9
C4' C5' H5'A H5' 120.0 119.9
H5'A C5' C4' H4' 278.0 64.2
C5' C4' H4' O4' 120.4 122.3
C5' C4' H4' C3' 238.0 237.7
H4' C4' C5' H5' 38.1 184.2
H4' C4' C5' H5'A 278.0 64.2
O4' C4' H4' C3' 117.6 115.4
H4' C4' O4' C1' 248.0 281.6
H4' C4' C3' O3' 22.3 336.2
H4' C4' C3' H3' 261.9 213.5
N1 C1' H1' C2' 124.4 122.2
N1 C1' H1' O4' 241.3 237.6
H1' C1' C2' C3' 276.0 265.1
C2' C1' H1' O4' 116.9 115.4
H1' C1' C2' H2' 36.0 23.7
H1' C1' C2' H2'A 153.0 146.4
C2' C3' H3' C4' 117.5 114.6
C2' C3' H3' O3' 238.3 237.3
H3' C3' C2' H2' 81.7 122.7
H3' C3' C2' H2'A 324.7 0.1
C4' C3' H3' O3' 120.8 122.7
H3' C3' C4' H4' 261.9 213.5
H3' C3' O3' HO3' 272.1 298.8
HO3' O3' C3' H3' 272.1 298.8