PDB Chemical Component GFF

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 GFF

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P1 O5' 1.597 1.619
P1 O1A 1.479 1.617
P1 O2A 1.488 1.500
P1 O3A 1.515 1.614
O1A H1A 0.950 0.980
O3A P2 1.513 1.615
O5' C5' 1.425 1.417
P2 O1B 1.490 1.617
P2 O2B 1.483 1.500
P2 C3B 1.874 1.737
O1B H1B 0.950 0.981
C3B F1B 1.367 1.352
C3B F2B 1.367 1.353
C3B P3 1.880 1.740
P3 O1G 1.487 1.616
P3 O2G 1.494 1.501
P3 O3G 1.483 1.616
O1G H1G 0.950 0.981
O3G H3G 0.950 0.981
C5' C4' 1.510 1.523
C5' H5'1 1.100 1.094
C5' H5'2 1.100 1.095
C4' C3' 1.521 1.525
C4' O4' 1.438 1.443
C4' H4' 1.100 1.095
O4' C1' 1.425 1.439
C1' N9 1.460 1.459
C1' C2' 1.531 1.522
C1' H1' 1.100 1.095
N9 C8 1.375 1.375
N9 C4 1.372 1.367
C4 C5 1.380 1.374
C4 N3 1.348 1.352
N3 C2 1.320 1.316
C2 N2 1.352 1.370
C2 N1 1.381 1.415
N2 HN21 1.000 0.994
N2 HN22 1.000 0.993
N1 C6 1.394 1.402
N1 HN1 1.000 1.016
C6 O6 1.237 1.224
C6 C5 1.415 1.437
C5 N7 1.388 1.363
N7 C8 1.307 1.319
C8 H8 1.080 1.082
C2' C3' 1.516 1.512
C2' H2'1 1.100 1.097
C2' H2'2 1.100 1.094
C3' O3' 1.431 1.425
C3' H3' 1.100 1.093
O3' H1 0.951 0.970

Bond Angles for GFF

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1A P1 O5' 106.5 103.5
O2A P1 O5' 107.1 115.2
O3A P1 O5' 106.4 103.1
P1 O5' C5' 120.6 118.4
O1A P1 O2A 119.0 114.8
O1A P1 O3A 107.3 103.0
P1 O1A H1A 109.5 119.0
O2A P1 O3A 109.9 115.5
P1 O3A P2 130.5 132.1
O3A P2 O1B 106.4 101.0
O3A P2 O2B 113.5 115.3
O3A P2 C3B 105.8 104.7
O5' C5' C4' 110.6 109.0
O5' C5' H5'1 109.1 108.8
O5' C5' H5'2 108.9 108.8
O1B P2 O2B 119.3 114.7
O1B P2 C3B 103.9 103.8
P2 O1B H1B 109.5 118.9
O2B P2 C3B 106.6 115.6
P2 C3B F1B 107.5 101.7
P2 C3B F2B 107.5 101.4
P2 C3B P3 114.3 139.8
F1B C3B F2B 108.7 107.1
F1B C3B P3 110.2 101.7
F2B C3B P3 108.5 102.2
C3B P3 O1G 108.2 103.6
C3B P3 O2G 107.2 114.7
C3B P3 O3G 104.3 104.5
O1G P3 O2G 119.3 114.5
O1G P3 O3G 109.0 103.2
P3 O1G H1G 109.5 118.9
O2G P3 O3G 107.9 114.8
P3 O3G H3G 109.5 118.9
C4' C5' H5'1 109.1 110.5
C4' C5' H5'2 108.9 110.5
C5' C4' C3' 115.2 112.7
C5' C4' O4' 109.7 108.0
C5' C4' H4' 103.8 109.4
H5'1 C5' H5'2 110.3 109.1
O4' C4' C3' 104.1 106.8
C3' C4' H4' 109.5 112.0
C4' C3' C2' 101.3 103.2
C4' C3' O3' 110.6 109.6
C4' C3' H3' 114.8 114.0
O4' C4' H4' 115.0 107.7
C4' O4' C1' 109.1 108.7
O4' C1' N9 108.4 110.0
O4' C1' C2' 107.0 106.7
O4' C1' H1' 112.8 108.1
N9 C1' C2' 112.6 114.3
N9 C1' H1' 107.4 105.9
C1' N9 C8 127.9 126.1
C1' N9 C4 125.7 127.3
C2' C1' H1' 108.7 111.7
C1' C2' C3' 102.4 101.6
C1' C2' H2'1 111.9 110.5
C1' C2' H2'2 113.4 111.7
C4 N9 C8 106.4 106.6
N9 C8 N7 113.1 112.5
N9 C8 H8 123.4 122.0
N9 C4 C5 105.4 104.9
N9 C4 N3 125.7 126.0
N3 C4 C5 128.9 129.1
C4 C5 C6 118.8 119.2
C4 C5 N7 110.8 112.1
C4 N3 C2 112.0 113.0
N3 C2 N2 119.4 122.0
N3 C2 N1 123.7 122.6
N2 C2 N1 116.9 115.4
C2 N2 HN21 109.5 118.3
C2 N2 HN22 109.5 118.3
C2 N1 C6 125.1 125.3
C2 N1 HN1 117.5 117.4
HN21 N2 HN22 109.4 123.5
C6 N1 HN1 117.5 117.4
N1 C6 O6 120.0 125.4
N1 C6 C5 111.5 110.8
O6 C6 C5 128.4 123.8
C6 C5 N7 130.4 128.7
C5 N7 C8 104.2 103.9
N7 C8 H8 123.4 125.5
C3' C2' H2'1 111.9 110.0
C3' C2' H2'2 113.4 114.2
C2' C3' O3' 111.8 108.4
C2' C3' H3' 113.7 113.7
H2'1 C2' H2'2 104.2 108.7
O3' C3' H3' 104.9 107.8
C3' O3' H1 109.5 106.5

Torsion Angles for GFF

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O1A P1 O5' O2A 128.3 126.1
O1A P1 O5' O3A 245.8 252.9
O5' P1 O1A H1A 233.7 185.1
O2A P1 O5' O3A 117.5 126.8
O5' P1 O3A P2 253.9 186.6
P1 O5' C5' C4' 235.5 180.0
P1 O5' C5' H5'1 355.5 300.6
P1 O5' C5' H5'2 116.0 59.4
O2A P1 O1A O5' 121.0 126.4
O3A P1 O1A O5' 246.4 252.8
O1A P1 O5' C5' 308.1 306.1
O2A P1 O1A O3A 234.6 233.6
O1A P1 O3A P2 7.6 294.1
O1A P1 O2A O5' 239.3 239.9
O3A P1 O2A O5' 115.2 120.2
O2A P1 O5' C5' 179.8 180.0
O1A P1 O2A O3A 124.2 119.7
O2A P1 O1A H1A 354.7 311.5
O2A P1 O3A P2 138.3 60.0
O1A P1 O3A O5' 113.7 107.5
O2A P1 O3A O5' 244.4 233.4
O3A P1 O5' C5' 62.4 53.2
O1A P1 O3A O2A 229.3 234.1
O3A P1 O1A H1A 120.1 77.9
P1 O3A P2 O1B 147.8 72.4
P1 O3A P2 O2B 14.6 308.2
P1 O3A P2 C3B 258.0 180.0
H1A O1A P1 O5' 233.7 185.1
H1A O1A P1 O2A 354.7 311.5
H1A O1A P1 O3A 120.1 77.9
P2 O3A P1 O5' 253.9 186.6
O1B P2 O3A O2B 133.2 124.2
O1B P2 O3A C3B 249.9 252.4
O3A P2 O1B H1B 312.8 239.6
O2B P2 O3A C3B 116.6 128.2
O3A P2 C3B F1B 219.9 188.0
O3A P2 C3B F2B 336.8 77.5
O3A P2 C3B P3 97.2 312.6
C4' C5' O5' H5'1 240.0 239.4
C4' C5' O5' H5'2 119.6 120.6
O5' C5' C4' C3' 59.4 179.6
O5' C5' C4' O4' 302.4 61.8
O5' C5' C4' H4' 179.1 304.8
H5'1 C5' O5' H5'2 239.5 241.2
O3A P2 O1B O2B 230.0 235.4
O3A P2 O1B C3B 111.5 108.3
O2B P2 O1B C3B 241.5 232.9
O1B P2 C3B F1B 331.8 293.5
O1B P2 C3B F2B 88.7 183.0
O1B P2 C3B P3 209.1 58.0
O3A P2 O2B O1B 126.7 116.7
O3A P2 O2B C3B 243.8 237.5
O1B P2 O2B C3B 117.1 120.8
O2B P2 O1B H1B 82.8 4.2
O2B P2 C3B F1B 98.8 60.0
O2B P2 C3B F2B 215.6 309.6
O2B P2 C3B P3 336.1 184.6
O3A P2 C3B O1B 248.1 254.5
O3A P2 C3B O2B 121.2 128.0
O1B P2 C3B O2B 233.1 233.5
C3B P2 O1B H1B 201.4 131.4
F1B C3B P2 F2B 243.2 110.4
F1B C3B P2 P3 122.7 235.4
F2B C3B P2 P3 239.5 125.0
P2 C3B P3 O1G 335.7 301.0
P2 C3B P3 O2G 205.9 175.4
P2 C3B P3 O3G 91.6 48.8
H1B O1B P2 O2B 82.8 4.2
H1B O1B P2 C3B 201.4 131.4
P2 C3B F1B F2B 116.1 254.0
P2 C3B F1B P3 234.8 147.2
F2B C3B F1B P3 118.7 253.2
F1B C3B P3 O1G 214.5 65.6
F1B C3B P3 O2G 84.7 300.0
F1B C3B P3 O3G 330.4 173.4
P2 C3B F2B F1B 243.9 106.2
P2 C3B F2B P3 124.1 212.7
F1B C3B F2B P3 240.2 106.5
F2B C3B P3 O1G 95.6 176.3
F2B C3B P3 O2G 325.8 50.7
F2B C3B P3 O3G 211.6 284.1
P2 C3B P3 F1B 121.2 235.4
P2 C3B P3 F2B 240.1 124.8
F1B C3B P3 F2B 118.8 249.4
O1G P3 C3B O2G 129.8 125.6
O1G P3 C3B O3G 244.1 252.2
C3B P3 O1G H1G 195.3 183.1
O2G P3 C3B O3G 114.3 126.6
C3B P3 O3G H3G 175.2 177.5
C3B P3 O1G O2G 237.3 234.2
C3B P3 O1G O3G 112.8 108.8
O2G P3 O1G O3G 235.5 234.5
O1G P3 O3G H3G 290.6 285.6
C3B P3 O2G O1G 123.3 119.7
C3B P3 O2G O3G 248.2 238.9
O1G P3 O2G O3G 125.0 119.2
O2G P3 O1G H1G 318.0 308.9
O2G P3 O3G H3G 61.5 51.0
C3B P3 O3G O1G 244.6 251.9
C3B P3 O3G O2G 113.7 126.6
O1G P3 O3G O2G 229.1 234.7
O3G P3 O1G H1G 82.5 74.4
H1G O1G P3 O2G 318.0 308.9
H1G O1G P3 O3G 82.5 74.4
O5' C5' C4' H5'1 120.0 119.5
O5' C5' C4' H5'2 240.4 240.5
H5'1 C5' C4' H5'2 120.4 120.9
O4' C4' C5' C3' 243.1 242.3
C3' C4' C5' H4' 240.3 234.7
C5' C4' C3' C2' 200.5 267.4
C5' C4' C3' O3' 81.9 152.1
C5' C4' C3' H3' 323.4 31.2
O4' C4' C5' H4' 123.4 117.0
C5' C4' O4' C1' 151.3 116.0
O5' C5' H5'1 C4' 239.1 240.3
O5' C5' H5'1 H5'2 119.6 118.6
C4' C5' H5'1 H5'2 240.5 238.3
H5'1 C5' C4' C3' 299.4 60.0
H5'1 C5' C4' O4' 182.4 302.3
H5'1 C5' C4' H4' 59.0 185.3
O5' C5' H5'2 C4' 120.6 119.6
O5' C5' H5'2 H5'1 240.3 241.4
C4' C5' H5'2 H5'1 119.7 121.8
H5'2 C5' C4' C3' 178.9 299.1
H5'2 C5' C4' O4' 62.0 181.3
H5'2 C5' C4' H4' 298.6 64.3
C3' C4' C5' H5'1 299.4 60.0
C3' C4' C5' H5'2 178.9 299.1
C5' C4' C3' O4' 239.9 241.5
C5' C4' C3' H4' 116.5 123.8
O4' C4' C3' H4' 236.6 242.3
C3' C4' O4' C1' 27.5 354.5
C1' C2' C3' C4' 35.9 325.2
C4' C3' C2' H2'1 275.9 82.2
C4' C3' C2' H2'2 158.5 204.8
C2' C3' C4' O3' 118.6 115.3
C2' C3' C4' H3' 237.1 236.3
O3' C3' C4' H3' 118.5 120.9
C4' C3' O3' H1 105.7 195.6
O4' C4' C5' H5'1 182.4 302.3
O4' C4' C5' H5'2 62.0 181.3
C5' C4' O4' C3' 123.7 121.5
C5' C4' O4' H4' 243.5 242.0
C3' C4' O4' H4' 119.7 120.5
O4' C4' C3' C2' 320.6 25.9
O4' C4' C3' O3' 201.9 270.6
O4' C4' C3' H3' 83.5 149.7
C4' O4' C1' N9 234.1 218.2
C4' O4' C1' C2' 355.8 342.7
C4' O4' C1' H1' 115.3 103.1
H4' C4' C5' H5'1 59.0 185.3
H4' C4' C5' H5'2 298.6 64.3
C5' C4' H4' C3' 236.5 234.3
C5' C4' H4' O4' 119.8 117.2
O4' C4' H4' C3' 116.7 117.2
H4' C4' C3' C2' 84.0 143.6
H4' C4' C3' O3' 325.3 28.3
H4' C4' C3' H3' 206.9 267.4
H4' C4' O4' C1' 267.8 234.0
C1' O4' C4' C3' 27.5 354.5
C1' O4' C4' H4' 267.8 234.0
N9 C1' O4' C2' 238.3 235.5
N9 C1' O4' H1' 118.8 115.2
O4' C1' N9 C8 36.4 33.5
O4' C1' N9 C4 213.8 213.5
C2' C1' O4' H1' 240.4 239.7
O4' C1' C2' C3' 339.3 32.7
O4' C1' C2' H2'1 99.3 276.0
O4' C1' C2' H2'2 216.7 154.9
O4' C1' N9 C2' 118.2 120.0
O4' C1' N9 H1' 237.8 243.5
C2' C1' N9 H1' 119.6 123.5
N9 C1' C2' C3' 98.3 154.5
N9 C1' C2' H2'1 218.3 37.8
N9 C1' C2' H2'2 335.8 276.7
C4 N9 C1' C8 177.3 180.0
C1' N9 C8 N7 176.2 180.0
C1' N9 C8 H8 356.2 360.0
C1' N9 C4 C5 184.2 180.0
C1' N9 C4 N3 3.1 360.0
C4' C3' C2' C1' 35.9 325.2
O4' C1' C2' N9 241.0 238.2
O4' C1' C2' H1' 122.2 117.9
N9 C1' C2' H1' 241.2 239.7
C2' C1' N9 C8 278.2 273.4
C2' C1' N9 C4 95.5 93.4
C3' C2' C1' H2'1 240.0 116.7
C3' C2' C1' H2'2 122.5 237.8
C1' C2' C3' O3' 153.7 81.3
C1' C2' C3' H3' 272.2 201.2
H2'1 C2' C1' H2'2 242.5 121.1
O4' C1' H1' N9 119.4 117.8
O4' C1' H1' C2' 241.4 242.9
N9 C1' H1' C2' 122.0 125.1
H1' C1' N9 C8 158.6 150.0
H1' C1' N9 C4 335.9 330.0
H1' C1' C2' C3' 217.1 274.8
H1' C1' C2' H2'1 337.1 158.1
H1' C1' C2' H2'2 94.6 37.0
C8 N9 C1' C2' 278.2 273.4
C8 N9 C1' H1' 158.6 150.0
C1' N9 C8 C4 177.7 180.0
C8 N9 C4 C5 2.1 360.0
C8 N9 C4 N3 180.9 180.0
C5 N7 C8 N9 0.4 0.0
N7 C8 N9 H8 180.0 180.0
C4 N9 C1' C2' 95.5 93.4
C4 N9 C1' H1' 335.9 330.0
C1' N9 C4 C8 182.2 180.0
C4 N9 C8 N7 358.4 0.0
C4 N9 C8 H8 178.4 180.0
N3 C4 N9 C5 178.8 180.0
N9 C4 C5 C6 177.4 180.0
N9 C4 C5 N7 358.0 0.0
N9 C4 N3 C2 181.2 180.0
C5 C4 N9 C8 2.1 360.0
N9 C4 C5 N3 178.8 180.0
C5 C4 N3 C2 359.8 360.0
N1 C6 C5 C4 1.5 0.1
O6 C6 C5 C4 182.2 180.0
C6 C5 C4 N7 179.4 180.0
C4 C5 N7 C8 1.0 360.0
N3 C4 N9 C8 180.9 180.0
N9 C4 N3 C5 181.4 180.0
N3 C4 C5 C6 358.7 360.0
N3 C4 C5 N7 179.3 180.0
C4 N3 C2 N2 182.1 180.0
C4 N3 C2 N1 1.4 0.0
C2 N3 C4 C5 359.8 360.0
N2 C2 N3 N1 180.7 180.0
N3 C2 N2 HN21 94.9 337.1
N3 C2 N2 HN22 214.9 157.1
N3 C2 N1 C6 358.8 0.0
N3 C2 N1 HN1 178.9 180.0
N3 C2 N2 N1 179.4 180.0
N2 C2 N1 C6 178.2 180.0
N2 C2 N1 HN1 358.2 360.0
HN21 N2 C2 HN22 240.0 180.0
N3 C2 N1 N2 180.7 180.0
N1 C2 N2 HN21 275.6 157.1
N1 C2 N2 HN22 35.6 337.1
C6 N1 C2 HN1 180.0 180.0
C2 N1 C6 O6 178.9 180.0
C2 N1 C6 C5 359.6 360.0
HN21 N2 C2 N1 275.6 157.1
C2 N2 HN21 HN22 120.0 180.0
HN22 N2 C2 N1 35.6 337.1
C2 N2 HN22 HN21 240.0 180.0
C4 C5 C6 N1 1.5 0.1
C2 N1 C6 HN1 180.0 180.0
O6 C6 N1 C5 179.3 180.1
N1 C6 C5 N7 180.8 180.0
C2 N1 HN1 C6 180.0 180.0
HN1 N1 C6 O6 358.9 0.1
HN1 N1 C6 C5 179.5 180.0
C4 C5 C6 O6 182.2 180.0
O6 C6 N1 HN1 358.9 0.1
N1 C6 O6 C5 180.8 179.9
O6 C6 C5 N7 1.5 359.9
C4 C5 C6 N7 180.7 180.1
C5 C6 N1 HN1 179.5 180.0
N1 C6 C5 O6 179.3 180.1
C6 C5 N7 C8 181.7 180.0
N9 C8 N7 C5 0.4 0.0
C4 C5 N7 C6 179.3 179.9
C5 N7 C8 H8 180.4 180.0
N9 C8 N7 H8 180.0 180.0
N9 C8 H8 N7 180.0 180.0
C2' C3' C4' H4' 84.0 143.6
C4' C3' C2' O3' 242.2 243.8
C4' C3' C2' H3' 123.7 123.9
C3' C2' C1' H1' 217.1 274.8
C1' C2' C3' H2'1 120.0 243.0
C1' C2' C3' H2'2 237.5 120.4
H2'1 C2' C3' H2'2 117.5 237.5
O3' C3' C2' H3' 241.5 240.1
C2' C3' O3' H1 353.6 83.7
H2'1 C2' C1' H1' 337.1 158.1
C1' C2' H2'1 C3' 245.7 111.4
C1' C2' H2'1 H2'2 122.9 237.1
C3' C2' H2'1 H2'2 237.1 125.7
H2'1 C2' C3' O3' 33.7 198.4
H2'1 C2' C3' H3' 152.3 318.3
H2'2 C2' C1' H1' 94.6 37.0
C1' C2' H2'2 C3' 116.2 245.4
C1' C2' H2'2 H2'1 238.1 122.1
C3' C2' H2'2 H2'1 121.9 236.7
H2'2 C2' C3' O3' 276.3 320.9
H2'2 C2' C3' H3' 34.8 80.8
O3' C3' C4' H4' 325.3 28.3
C4' C3' O3' C2' 112.1 111.9
C4' C3' O3' H3' 235.7 235.4
O3' C3' C2' H2'1 33.7 198.4
O3' C3' C2' H2'2 276.3 320.9
C2' C3' O3' H3' 123.6 123.5
H3' C3' C4' H4' 206.9 267.4
C4' C3' H3' C2' 244.0 242.1
C4' C3' H3' O3' 121.6 121.9
H3' C3' C2' H2'1 152.3 318.3
H3' C3' C2' H2'2 34.8 80.8
C2' C3' H3' O3' 237.6 239.8
H3' C3' O3' H1 230.0 320.2
H1 O3' C3' H3' 230.0 320.2