PDB Chemical Component FDY

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 FDY

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O2 C2 1.238 1.216
C2 N3 1.324 1.346
C2 N1 1.350 1.345
N3 C4 1.368 1.348
C2' C1' 1.309 1.545
C2' C3' 1.489 1.544
C1' N1 1.435 1.465
C1' O4' 1.594 1.445
N1 C6 1.349 1.368
O3' C3' 1.417 1.429
C4 O4 1.202 1.218
C4 C5 1.420 1.416
C3' C4' 1.559 1.545
O4' C4' 1.240 1.444
C6 C5 1.421 1.350
C4' C5' 1.552 1.530
C5 C7 1.555 1.507
O2B PB 1.536 1.480
C5' O5' 1.488 1.429
O5' PA 1.620 1.610
PB O3A 1.543 1.610
PB O1B 1.513 1.610
PB C3B 1.887 1.822
F2B C3B 1.333 1.399
O3A PA 1.600 1.610
C3B PG 1.793 1.823
PA O2A 1.495 1.480
PA O1A 1.498 1.610
O3G PG 1.523 1.480
PG O1G 1.514 1.610
PG O2G 1.472 1.610
C6 H1 1.080 1.080
C7 H2 1.100 1.090
C7 H3 1.100 1.090
C7 H4 1.100 1.090
N3 H5 1.000 0.970
C1' H6 1.100 1.089
C2' H7 1.100 1.090
C2' H8 1.100 1.090
C3' H9 1.100 1.090
O3' H10 0.950 0.966
C4' H11 1.100 1.090
C5' H12 1.101 1.090
C5' H13 1.100 1.089
O1A H14 0.950 0.967
O1B H15 0.950 0.967
C3B H16 1.100 1.090
O2G H17 0.950 0.967
O1G H18 0.950 0.967

Bond Angles for FDY

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O2 C2 N1 119.0 119.6
N3 C2 N1 121.6 120.9
C2 N3 C4 121.1 120.3
C2 N3 H5 119.4 119.8
C2 N1 C6 120.6 120.6
C2' C1' O4' 105.6 104.8
C2' C1' H6 112.2 110.5
C2' C3' C4' 100.6 104.1
C3' C2' H7 110.0 110.5
C3' C2' H8 110.0 110.5
C2' C3' H9 108.7 110.5
C1' O4' C4' 108.4 105.3
O4' C1' H6 108.1 110.4
N1 C6 H1 119.7 120.2
O3' C3' C4' 111.5 110.5
O3' C3' H9 109.7 110.6
C5 C4 O4 119.5 120.3
C4 C5 C7 122.6 120.5
C3' C4' O4' 104.4 104.8
C3' C4' C5' 109.1 110.4
C4' C3' H9 107.9 110.5
C3' C4' H11 109.1 110.4
O4' C4' C5' 110.4 110.4
O4' C4' H11 114.3 110.4
C6 C5 C7 121.2 120.4
C4' C5' O5' 104.1 109.5
C5' C4' H11 109.2 110.4
C4' C5' H12 110.8 109.5
C4' C5' H13 110.8 109.5
C5 C7 H2 109.5 109.5
C5 C7 H3 109.5 109.5
C5 C7 H4 109.5 109.4
O2B PB O1B 110.4 109.5
O2B PB C3B 108.8 109.5
C5' O5' PA 118.6 123.0
O5' C5' H12 110.8 109.5
O5' C5' H13 110.8 109.5
O5' PA O2A 107.7 109.5
O5' PA O1A 111.2 109.5
O1B PB C3B 110.8 109.5
PB O1B H15 109.5 114.1
PB C3B PG 109.9 109.5
PB C3B H16 106.0 109.5
F2B C3B PG 112.4 109.4
F2B C3B H16 113.1 109.5
C3B PG O1G 107.9 109.5
C3B PG O2G 110.4 109.5
PG C3B H16 106.9 109.4
O1A PA O2A 110.9 109.5
PA O1A H14 109.5 114.0
O3G PG O1G 108.3 109.5
O3G PG O2G 110.9 109.4
O2G PG O1G 110.2 109.5
PG O1G H18 109.5 114.0
PG O2G H17 109.5 114.0
H2 C7 H3 109.5 109.5
H2 C7 H4 109.5 109.5
H3 C7 H4 109.5 109.5
H7 C2' H8 109.5 110.5
H12 C5' H13 109.4 109.5

Torsion Angles for FDY

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
N3 C2 O2 N1 180.4 179.7
O2 C2 N3 H5 1.5 0.2
O2 C2 N1 C6 179.0 179.7
O2 C2 N3 N1 179.6 180.3
N3 C2 N1 C6 358.6 0.0
N1 C2 N3 C4 1.9 0.0
N1 C2 N3 H5 181.9 179.9
C2 N1 C6 H1 180.8 180.0
C4 N3 C2 N1 1.9 0.0
C2 N3 C4 H5 180.0 179.9
C2' C1' O4' C4' 351.0 319.4
O4' C1' C2' H6 117.6 118.9
C3' C2' C1' O4' 343.6 24.0
C3' C2' C1' H6 226.1 265.1
O3' C3' C2' C4' 121.3 118.7
O3' C3' C2' H9 234.5 237.3
C2' C3' C4' O4' 322.6 336.0
C2' C3' C4' C5' 204.5 217.2
C4' C3' C2' H9 113.2 118.6
C2' C3' C4' H11 85.2 94.8
H7 C2' C3' H8 120.7 122.7
C1' N1 C6 H1 357.6 0.1
C2' C1' O4' H6 239.7 241.0
C3' C4' O4' C1' 28.3 40.5
C1' O4' C4' C5' 145.5 159.4
C1' O4' C4' H11 269.2 281.7
C2' C3' O3' C4' 244.5 245.3
O3' C3' C2' H7 33.3 0.0
O3' C3' C2' H8 272.6 237.3
C2' C3' O3' H9 125.0 122.7
O3' C3' C4' O4' 197.0 217.4
O3' C3' C4' C5' 78.9 98.5
C4' C3' O3' H9 240.5 237.4
O3' C3' C4' H11 319.6 336.2
C2 N3 C4 O4 179.0 179.9
O4 C4 C5 C7 359.6 0.1
C2 N3 C4 C5 358.3 359.9
C6 C5 C4 C7 180.7 180.0
C4 C5 C7 H2 180.0 360.0
C4 C5 C7 H3 300.0 120.0
C4 C5 C7 H4 60.0 240.0
C4' C3' C2' H7 271.9 241.4
C4' C3' C2' H8 151.3 118.7
C2' C3' C4' H9 246.2 241.3
C1' O4' C4' C3' 28.3 40.5
O3' C3' C4' H9 120.6 122.7
O4' C4' C3' C5' 118.1 118.8
O4' C4' C3' H11 237.4 241.2
C3' C4' C5' O5' 56.9 185.0
C5' C4' C3' H11 119.3 122.3
C3' C4' C5' H12 176.1 305.0
C3' C4' C5' H13 297.7 65.0
C4' O4' C1' H6 111.3 78.4
C3' C4' O4' C5' 242.8 241.2
O4' C4' C3' H9 76.4 94.7
C3' C4' O4' H11 119.2 118.8
O4' C4' C5' O5' 302.7 69.6
C5' C4' O4' H11 236.4 237.6
O4' C4' C5' H12 61.8 189.6
O4' C4' C5' H13 183.5 309.7
C2 N1 C6 C5 0.8 359.9
C6 C5 C4 O4 180.3 180.0
C4 C5 C6 C7 179.3 180.0
C6 C5 C7 H2 359.3 180.0
C6 C5 C7 H3 119.3 300.0
C6 C5 C7 H4 239.3 60.0
C3' C4' C5' O4' 114.2 115.4
C5' C4' C3' H9 318.3 335.8
C3' C4' C5' H11 240.8 237.7
O4' C4' C5' H11 126.5 122.3
C4' C5' O5' PA 219.9 180.0
O5' C5' C4' H12 240.8 240.0
O5' C5' C4' H13 119.2 120.0
H12 C5' C4' H13 238.3 240.0
C7 C5 C4 O4 359.6 0.1
H2 C7 C5 H3 240.0 240.0
H2 C7 C5 H4 120.0 120.0
H3 C7 C5 H4 240.0 240.0
O1B PB O2B C3B 238.2 240.0
O2B PB O1B H15 360.0 180.0
O2B PB C3B PG 217.8 300.0
O2B PB C3B H16 102.6 180.0
O5' C5' C4' H11 176.1 307.3
C4' C5' O5' H12 119.2 120.0
C4' C5' O5' H13 240.8 240.0
C5' O5' PA O2A 189.3 305.0
C5' O5' PA O1A 311.1 65.0
H12 C5' O5' H13 121.7 120.0
PA O5' C5' H12 100.8 60.0
PA O5' C5' H13 339.1 300.0
O1A PA O5' O2A 121.7 120.0
O5' PA O1A H14 240.1 60.0
O2B PB O1B C3B 120.6 120.1
O1B PB C3B PG 339.4 60.0
O1B PB C3B H16 224.2 300.1
O2B PB C3B O1B 238.4 239.9
C3B PB O1B H15 239.4 59.9
F2B C3B PB PG 123.1 120.0
F2B C3B PB H16 238.4 239.9
PB C3B PG O1G 317.1 180.0
PB C3B PG O2G 196.5 60.0
PG C3B PB H16 115.2 120.0
PB C3B F2B PG 238.4 240.0
PB C3B F2B H16 117.2 120.1
F2B C3B PG O1G 196.4 60.0
F2B C3B PG O2G 75.8 300.0
PG C3B F2B H16 238.8 240.1
O3A PA O1A H14 117.8 300.0
PB C3B PG H16 245.4 240.0
F2B C3B PG H16 124.6 120.0
O3G PG C3B O1G 117.4 120.0
O3G PG C3B O2G 238.0 240.0
O2G PG C3B O1G 239.5 240.0
C3B PG O1G H18 117.9 180.0
C3B PG O2G H17 239.1 60.1
O5' PA O2A O1A 122.0 120.0
O2A PA O1A H14 360.0 180.0
O5' PA O1A O2A 240.1 240.0
C3B PG O3G O1G 242.8 240.0
C3B PG O3G O2G 121.7 120.0
O3G PG C3B H16 189.2 60.0
O2G PG O3G O1G 121.1 120.0
O3G PG O1G H18 0.0 59.9
O3G PG O2G H17 0.0 180.1
C3B PG O1G O2G 239.4 240.0
O1G PG C3B H16 71.7 300.0
O3G PG O1G O2G 121.5 120.0
O1G PG O2G H17 119.9 300.1
C3B PG O2G O1G 119.1 120.0
O2G PG C3B H16 311.2 180.0
O3G PG O2G O1G 240.1 240.0
O2G PG O1G H18 238.5 300.0
H1 C6 C5 C7 0.0 360.0
C5 C7 H2 H3 120.0 120.0
C5 C7 H2 H4 240.0 240.0
H3 C7 H2 H4 120.0 120.0
C5 C7 H3 H2 240.0 240.0
C5 C7 H3 H4 120.0 120.0
H2 C7 H3 H4 240.0 240.0
C5 C7 H4 H2 120.0 120.0
C5 C7 H4 H3 240.0 240.0
H2 C7 H4 H3 120.0 120.0
H5 N3 C2 N1 181.9 179.9
C2 N3 H5 C4 180.0 180.1
C2' C1' H6 O4' 116.0 115.4
H6 C1' O4' C4' 111.3 78.4
H7 C2' C1' O4' 103.3 142.7
H7 C2' C1' H6 345.7 23.8
H7 C2' C3' C4' 271.9 241.4
C3' C2' H7 H8 239.0 237.3
H7 C2' C3' H9 158.8 122.8
H8 C2' C1' O4' 224.0 265.3
H8 C2' C1' H6 106.4 146.4
H8 C2' C3' C4' 151.3 118.7
C3' C2' H8 H7 121.0 122.7
H8 C2' C3' H9 38.1 0.1
C2' C3' H9 C4' 108.3 114.6
H9 C3' C2' H7 158.8 122.8
H9 C3' C2' H8 38.1 0.1
O3' C3' H9 C4' 238.3 237.3
H9 C3' C4' O4' 76.4 94.7
H9 C3' C4' C5' 318.3 335.8
H9 C3' C4' H11 199.1 213.5
H10 O3' C3' C4' 254.1 176.1
H10 O3' C3' H9 13.6 298.8
C3' C4' H11 O4' 243.5 244.6
C3' C4' H11 C5' 119.2 122.3
H11 C4' C3' H9 199.1 213.5
O4' C4' H11 C5' 235.7 237.7
H11 C4' C5' O5' 176.1 307.3
H11 C4' C5' H12 295.3 67.3
H11 C4' C5' H13 57.0 187.3
C4' C5' H12 O5' 245.0 240.0
H12 C5' C4' H11 295.3 67.3
C4' C5' H12 H13 122.5 120.0
H12 C5' O5' PA 100.8 60.0
O5' C5' H12 H13 237.5 240.0
C4' C5' H13 O5' 115.0 120.0
H13 C5' C4' H11 57.0 187.3
C4' C5' H13 H12 237.5 240.0
H13 C5' O5' PA 339.1 300.0
O5' C5' H13 H12 122.5 120.0
H14 O1A PA O2A 360.0 180.0
H15 O1B PB C3B 239.4 59.9
PB C3B H16 PG 117.2 120.0
F2B C3B H16 PG 235.8 240.1
H16 C3B PG O1G 71.7 300.0
H16 C3B PG O2G 311.2 180.0
H17 O2G PG O1G 119.9 300.1