PDB Chemical Component FDM

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 FDM

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C6 1.386 1.368
N1 C2 1.410 1.344
N1 C1' 1.441 1.465
C6 C5 1.332 1.349
C6 HC61 1.104 1.080
C2 O2 1.254 1.216
C2 N3 1.341 1.346
N3 C4 1.412 1.349
N3 HN31 1.020 0.970
C4 O4 1.303 1.218
C4 C5 1.469 1.415
C5 C7 1.539 1.506
C7 HC71 1.116 1.090
C7 HC72 1.115 1.089
C7 HC73 1.115 1.090
O4' C1' 1.389 1.443
O4' C4' 1.447 1.439
F C3' 1.397 1.400
C1' C2' 1.541 1.549
C1' H1'1 1.114 1.091
C2' C3' 1.515 1.547
C2' H2'1 1.115 1.091
C2' H2'2 1.116 1.091
C3' C4' 1.556 1.540
C3' H3'1 1.115 1.090
C4' C5' 1.592 1.530
C4' H4'1 1.114 1.090
O5' C5' 1.430 1.428
O5' P1 1.710 1.609
C5' H5'1 1.115 1.089
C5' H5'2 1.114 1.090
P1 OP2 1.576 1.610
P1 OP1 1.427 1.480
P1 OP3 1.472 1.610
OP2 HP31 0.951 0.966
OP3 HP21 0.951 0.966

Bond Angles for FDM

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C6 N1 C2 124.4 120.6
C6 N1 C1' 114.3 119.7
N1 C6 C5 118.9 119.7
N1 C6 HC61 122.5 120.1
C2 N1 C1' 121.0 119.7
N1 C2 O2 120.5 119.5
N1 C2 N3 116.7 121.0
N1 C1' O4' 112.0 110.6
N1 C1' C2' 119.7 110.7
N1 C1' H1'1 98.6 110.5
C5 C6 HC61 118.6 120.2
C6 C5 C4 119.5 119.1
C6 C5 C7 125.5 120.5
O2 C2 N3 122.7 119.5
C2 N3 C4 122.1 120.2
C2 N3 HN31 116.3 119.9
C4 N3 HN31 121.6 119.9
N3 C4 O4 118.6 120.3
N3 C4 C5 118.3 119.4
O4 C4 C5 123.1 120.3
C4 C5 C7 114.9 120.4
C5 C7 HC71 125.6 109.5
C5 C7 HC72 106.6 109.5
C5 C7 HC73 106.6 109.5
HC71 C7 HC72 106.5 109.4
HC71 C7 HC73 106.5 109.4
HC72 C7 HC73 103.0 109.5
C1' O4' C4' 110.3 106.9
O4' C1' C2' 105.3 103.6
O4' C1' H1'1 115.0 110.6
O4' C4' C3' 106.2 107.4
O4' C4' C5' 121.2 110.1
O4' C4' H4'1 107.1 109.7
F C3' C2' 114.0 110.5
F C3' C4' 108.2 110.6
F C3' H3'1 105.3 110.4
C2' C1' H1'1 106.3 110.6
C1' C2' C3' 102.1 102.1
C1' C2' H2'1 115.1 110.9
C1' C2' H2'2 115.0 110.8
C3' C2' H2'1 115.1 110.9
C3' C2' H2'2 115.0 110.9
C2' C3' C4' 102.6 104.2
C2' C3' H3'1 110.7 110.5
H2'1 C2' H2'2 95.4 110.8
C4' C3' H3'1 116.2 110.5
C3' C4' C5' 117.6 109.9
C3' C4' H4'1 111.8 109.9
C5' C4' H4'1 91.5 109.8
C4' C5' O5' 100.4 109.5
C4' C5' H5'1 115.7 109.4
C4' C5' H5'2 115.7 109.4
C5' O5' P1 111.6 106.8
O5' C5' H5'1 115.7 109.5
O5' C5' H5'2 115.7 109.5
O5' P1 OP2 100.1 109.5
O5' P1 OP1 103.0 109.4
O5' P1 OP3 112.5 109.5
H5'1 C5' H5'2 94.7 109.5
OP2 P1 OP1 112.4 109.4
OP2 P1 OP3 102.6 109.4
P1 OP2 HP31 100.0 106.9
OP1 P1 OP3 123.9 109.5
P1 OP3 HP21 112.6 106.8

Torsion Angles for FDM

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 C1' 173.6 179.9
C6 N1 C2 O2 180.3 180.0
C6 N1 C2 N3 3.9 0.0
C6 N1 C1' O4' 56.8 236.4
C6 N1 C1' C2' 292.8 122.1
C6 N1 C1' H1'1 178.3 359.2
C5 C6 N1 HC61 180.0 180.0
N1 C6 C5 C4 3.1 0.3
N1 C6 C5 C7 180.4 180.0
C6 N1 C2 C1' 186.8 180.1
C2 N1 C6 C5 356.8 359.9
C2 N1 C6 HC61 176.8 180.0
C2 N1 C1' O4' 243.0 56.5
C2 N1 C1' C2' 119.0 302.2
C2 N1 C1' H1'1 4.5 179.3
O2 C2 N1 N3 176.5 180.0
N1 C2 N3 C4 355.5 359.8
N1 C2 N3 HN31 175.5 180.0
C6 N1 C1' C2 173.9 179.9
C1' N1 C6 C5 183.2 180.0
C1' N1 C6 HC61 3.2 0.1
C1' N1 C2 O2 353.5 360.0
C1' N1 C2 N3 177.1 180.0
N1 C1' O4' C4' 200.9 201.6
O4' C1' N1 C2' 124.0 114.3
O4' C1' N1 H1'1 238.5 237.2
C2' C1' N1 H1'1 114.5 122.9
N1 C1' C2' C3' 164.3 155.5
N1 C1' C2' H2'1 289.6 273.8
N1 C1' C2' H2'2 39.0 37.3
C5 C6 N1 C2 356.8 359.9
C5 C6 N1 C1' 183.2 180.0
N1 C6 C5 HC61 180.0 180.0
N3 C4 C5 C6 356.2 359.5
O4 C4 C5 C6 177.3 180.0
C4 C5 C6 C7 182.7 180.3
C6 C5 C7 HC71 180.0 180.0
C6 C5 C7 HC72 305.3 300.0
C6 C5 C7 HC73 54.7 60.0
HC61 C6 N1 C2 176.8 180.0
HC61 C6 N1 C1' 3.2 0.1
N1 C6 HC61 C5 180.0 180.0
HC61 C6 C5 C4 183.1 180.2
HC61 C6 C5 C7 0.4 360.0
O2 C2 N1 C1' 353.5 360.0
N1 C2 O2 N3 183.8 180.0
O2 C2 N3 C4 179.1 179.8
O2 C2 N3 HN31 359.1 360.0
N3 C2 N1 C1' 177.1 180.0
N1 C2 N3 O2 176.4 180.0
C4 N3 C2 HN31 180.0 179.8
C2 N3 C4 O4 183.6 180.0
C2 N3 C4 C5 4.6 0.4
C6 C5 C4 N3 356.2 359.5
C2 N3 C4 HN31 180.0 180.2
O4 C4 N3 C5 179.0 179.6
N3 C4 C5 C7 178.6 179.8
C2 N3 HN31 C4 180.0 179.8
HN31 N3 C4 O4 3.6 359.8
HN31 N3 C4 C5 184.6 180.2
C6 C5 C4 O4 177.3 180.0
O4 C4 N3 HN31 3.6 359.8
N3 C4 O4 C5 181.1 180.4
O4 C4 C5 C7 359.7 0.2
C4 C5 C6 HC61 183.1 180.2
C6 C5 C4 C7 177.6 179.7
C5 C4 N3 HN31 184.6 180.2
N3 C4 C5 O4 178.9 179.6
C4 C5 C7 HC71 357.4 359.7
C4 C5 C7 HC72 122.7 119.7
C4 C5 C7 HC73 232.2 239.7
C7 C5 C6 HC61 0.4 360.0
C6 C5 C7 C4 182.6 180.3
HC71 C7 C5 HC72 234.7 240.0
HC71 C7 C5 HC73 125.3 120.0
HC72 C7 C5 HC73 250.5 240.0
C5 C7 HC71 HC72 125.3 120.0
C5 C7 HC71 HC73 234.7 240.0
HC72 C7 HC71 HC73 109.4 120.0
C5 C7 HC72 HC71 223.8 239.9
C5 C7 HC72 HC73 112.0 120.0
HC71 C7 HC72 HC73 248.2 240.0
C5 C7 HC73 HC71 136.2 120.1
C5 C7 HC73 HC72 248.0 240.0
HC71 C7 HC73 HC72 111.9 119.9
N1 C1' O4' C2' 228.3 241.3
N1 C1' O4' H1'1 111.6 122.8
C1' O4' C4' C3' 6.6 26.2
C1' O4' C4' C5' 144.4 145.9
C1' O4' C4' H4'1 247.0 266.8
C2' C1' O4' H1'1 243.3 241.4
O4' C1' C2' C3' 37.1 36.9
O4' C1' C2' H2'1 162.4 155.2
O4' C1' C2' H2'2 271.8 278.7
C4' O4' C1' C2' 332.7 320.2
C4' O4' C1' H1'1 89.4 78.8
F C3' C4' O4' 256.1 239.4
C2' C3' C4' O4' 17.0 358.1
O4' C4' C3' H3'1 137.9 116.8
C3' C4' O4' C5' 222.2 240.3
C3' C4' O4' H4'1 119.6 119.4
C5' C4' O4' H4'1 257.4 239.1
O4' C4' C5' O5' 287.7 61.9
O4' C4' C5' H5'1 53.0 181.9
O4' C4' C5' H5'2 162.5 301.9
O4' C4' C3' F 256.1 239.4
C1' C2' C3' F 85.2 97.9
F C3' C2' H2'1 319.9 339.7
F C3' C2' H2'2 210.5 216.1
C2' C3' F C4' 246.5 245.2
C2' C3' F H3'1 121.5 122.6
C4' C3' F H3'1 235.1 237.4
F C3' C4' C5' 116.5 119.7
F C3' C4' H4'1 12.6 358.7
N1 C1' C2' O4' 127.2 118.6
N1 C1' C2' H1'1 249.7 237.2
C2' C1' O4' C4' 332.7 320.2
O4' C1' C2' H1'1 122.5 118.6
F C3' C2' C1' 85.2 97.9
C3' C2' C1' H2'1 234.7 241.7
C3' C2' C1' H2'2 125.3 118.2
C1' C2' C3' C4' 328.4 339.1
C1' C2' C3' H3'1 203.8 220.4
H2'1 C2' C1' H2'2 250.6 236.4
N1 C1' H1'1 O4' 240.7 237.2
N1 C1' H1'1 C2' 124.6 122.9
H1'1 C1' O4' C4' 89.4 78.8
O4' C1' H1'1 C2' 243.9 245.8
H1'1 C1' C2' C3' 274.6 278.3
H1'1 C1' C2' H2'1 39.9 36.6
H1'1 C1' C2' H2'2 149.4 160.2
O4' C4' C3' C2' 17.0 358.1
F C3' C2' C4' 116.8 118.8
F C3' C2' H3'1 241.4 237.5
C3' C2' C1' H1'1 274.6 278.3
C1' C2' C3' H2'1 125.3 118.2
C1' C2' C3' H2'2 234.8 241.8
H2'1 C2' C3' H2'2 109.5 123.6
C4' C3' C2' H3'1 124.7 118.7
C2' C3' C4' C5' 237.4 238.4
C2' C3' C4' H4'1 133.5 117.4
H2'1 C2' C1' H1'1 39.9 36.6
C1' C2' H2'1 C3' 241.8 247.2
C1' C2' H2'1 H2'2 120.9 123.6
C3' C2' H2'1 H2'2 239.1 236.3
H2'1 C2' C3' C4' 203.1 220.9
H2'1 C2' C3' H3'1 78.5 102.2
H2'2 C2' C1' H1'1 149.4 160.2
C1' C2' H2'2 C3' 118.2 112.7
C1' C2' H2'2 H2'1 239.1 236.4
C3' C2' H2'2 H2'1 120.9 123.7
H2'2 C2' C3' C4' 93.7 97.3
H2'2 C2' C3' H3'1 329.0 338.6
O4' C4' C3' C5' 139.5 119.7
O4' C4' C3' H4'1 243.5 240.7
F C3' C4' C2' 239.1 241.3
F C3' C4' H3'1 118.2 122.6
C4' C3' C2' H2'1 203.1 220.9
C4' C3' C2' H2'2 93.7 97.3
C2' C3' C4' H3'1 239.1 241.3
C5' C4' C3' H4'1 104.0 121.0
C3' C4' C5' O5' 61.0 180.0
C3' C4' C5' H5'1 186.2 300.0
C3' C4' C5' H5'2 295.7 60.0
F C3' H3'1 C2' 123.7 122.5
F C3' H3'1 C4' 240.2 237.3
H3'1 C3' C2' H2'1 78.5 102.2
H3'1 C3' C2' H2'2 329.0 338.6
C2' C3' H3'1 C4' 116.5 114.8
H3'1 C3' C4' C5' 358.3 357.1
H3'1 C3' C4' H4'1 254.4 236.1
O4' C4' C5' C3' 226.8 241.9
O4' C4' C5' H4'1 111.1 120.9
C5' C4' C3' H3'1 358.3 357.1
C3' C4' C5' H4'1 244.3 238.9
C4' C5' O5' P1 216.0 180.0
O5' C5' C4' H5'1 234.8 240.0
O5' C5' C4' H5'2 125.3 120.0
H5'1 C5' C4' H5'2 250.5 240.0
O4' C4' H4'1 C3' 115.9 117.8
O4' C4' H4'1 C5' 236.6 238.9
H4'1 C4' C3' H3'1 254.4 236.1
C3' C4' H4'1 C5' 120.7 121.1
H4'1 C4' C5' O5' 176.7 301.1
H4'1 C4' C5' H5'1 301.9 61.1
H4'1 C4' C5' H5'2 51.4 181.0
O5' C5' C4' H4'1 176.7 301.1
C4' C5' O5' H5'1 125.3 120.0
C4' C5' O5' H5'2 234.7 240.0
C5' O5' P1 OP2 76.9 180.0
C5' O5' P1 OP1 192.9 60.0
C5' O5' P1 OP3 328.6 300.0
H5'1 C5' O5' H5'2 109.4 120.0
P1 O5' C5' H5'1 90.7 60.0
P1 O5' C5' H5'2 341.3 300.0
OP2 P1 O5' OP1 244.0 120.0
OP2 P1 O5' OP3 108.3 240.0
O5' P1 OP2 HP31 180.0 180.0
OP1 P1 O5' OP3 224.3 120.0
O5' P1 OP3 HP21 180.0 299.9
H5'1 C5' C4' H4'1 301.9 61.1
C4' C5' H5'1 O5' 243.0 240.0
C4' C5' H5'1 H5'2 121.5 119.9
H5'1 C5' O5' P1 90.7 60.0
O5' C5' H5'1 H5'2 238.5 240.0
H5'2 C5' C4' H4'1 51.4 181.0
C4' C5' H5'2 O5' 117.0 120.0
C4' C5' H5'2 H5'1 238.5 240.1
H5'2 C5' O5' P1 341.3 300.0
O5' C5' H5'2 H5'1 121.5 120.0
O5' P1 OP2 OP1 108.7 240.0
O5' P1 OP2 OP3 244.0 120.0
OP1 P1 OP2 OP3 135.3 240.0
OP2 P1 OP3 HP21 73.4 60.0
O5' P1 OP1 OP2 253.2 120.0
O5' P1 OP1 OP3 129.0 240.0
OP2 P1 OP1 OP3 235.8 120.0
OP1 P1 OP2 HP31 71.3 300.0
OP1 P1 OP3 HP21 305.0 179.9
O5' P1 OP3 OP2 106.7 239.9
O5' P1 OP3 OP1 235.1 120.0
OP2 P1 OP3 OP1 128.4 240.0
OP3 P1 OP2 HP31 296.0 60.0
HP31 OP2 P1 OP1 71.3 300.0
HP31 OP2 P1 OP3 296.0 60.0