PDB Chemical Component GCP

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 GCP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
PG O1G 1.494 1.480
PG O2G 1.484 1.610
PG O3G 1.488 1.610
PG C3B 1.806 1.822
O2G HOG2 0.950 0.967
O3G HOG3 0.950 0.967
C3B PB 1.793 1.824
C3B H3B1 1.114 1.090
C3B H3B2 1.115 1.090
PB O1B 1.486 1.479
PB O2B 1.469 1.610
PB O3A 1.623 1.610
O2B HOB2 0.950 0.967
O3A PA 1.638 1.609
PA O1A 1.488 1.480
PA O2A 1.490 1.610
PA O5' 1.620 1.610
O2A HOA2 0.951 0.966
O5' C5' 1.459 1.428
C5' C4' 1.514 1.529
C5' H5'2 1.087 1.090
C5' H5'1 1.091 1.089
C4' O4' 1.405 1.445
C4' C3' 1.496 1.545
C4' H4' 1.091 1.090
O4' C1' 1.412 1.444
C3' O3' 1.445 1.429
C3' C2' 1.508 1.547
C3' H3' 1.092 1.090
O3' HO3' 0.964 0.966
C2' O2' 1.428 1.429
C2' C1' 1.561 1.544
C2' H2' 1.091 1.090
O2' HO2' 0.962 0.967
C1' N9 1.387 1.464
C1' H1' 1.092 1.090
N9 C8 1.360 1.365
N9 C4 1.420 1.368
C8 N7 1.314 1.301
C8 H8 1.090 1.080
N7 C5 1.405 1.355
C5 C6 1.419 1.415
C5 C4 1.389 1.399
C6 O6 1.229 1.219
C6 N1 1.391 1.350
N1 C2 1.386 1.363
N1 HN1 1.012 0.970
C2 N2 1.338 1.372
C2 N3 1.363 1.315
N2 HN21 0.983 0.969
N2 HN22 0.981 0.971
N3 C4 1.388 1.337

Bond Angles for GCP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1G PG O2G 113.3 109.5
O1G PG O3G 114.1 109.4
O1G PG C3B 107.1 109.5
O2G PG O3G 114.9 109.4
O2G PG C3B 104.7 109.5
PG O2G HOG2 113.3 106.9
O3G PG C3B 101.1 109.5
PG O3G HOG3 114.0 106.8
PG C3B PB 138.3 109.5
PG C3B H3B1 102.5 109.5
PG C3B H3B2 102.5 109.5
PB C3B H3B1 102.4 109.4
PB C3B H3B2 102.3 109.5
C3B PB O1B 109.8 109.5
C3B PB O2B 99.2 109.4
C3B PB O3A 115.7 109.4
H3B1 C3B H3B2 105.8 109.5
O1B PB O2B 118.1 109.5
O1B PB O3A 109.6 109.5
O2B PB O3A 104.4 109.5
PB O2B HOB2 99.2 106.8
PB O3A PA 132.2 106.8
O3A PA O1A 112.0 109.5
O3A PA O2A 104.5 109.5
O3A PA O5' 116.1 109.5
O1A PA O2A 119.8 109.4
O1A PA O5' 99.1 109.5
O2A PA O5' 105.7 109.5
PA O2A HOA2 104.5 106.8
PA O5' C5' 128.3 106.8
O5' C5' C4' 113.2 109.5
O5' C5' H5'2 107.6 109.5
O5' C5' H5'1 109.0 109.5
C4' C5' H5'2 106.6 109.5
C4' C5' H5'1 109.4 109.4
C5' C4' O4' 110.8 110.4
C5' C4' C3' 109.7 110.5
C5' C4' H4' 110.8 110.4
H5'2 C5' H5'1 111.0 109.5
O4' C4' C3' 102.9 104.8
O4' C4' H4' 110.8 110.4
C4' O4' C1' 111.3 105.3
C3' C4' H4' 111.5 110.4
C4' C3' O3' 107.7 110.5
C4' C3' C2' 102.6 104.1
C4' C3' H3' 111.0 110.5
O4' C1' C2' 94.4 104.9
O4' C1' N9 100.1 110.4
O4' C1' H1' 111.8 110.4
O3' C3' C2' 119.5 110.6
O3' C3' H3' 110.4 110.5
C3' O3' HO3' 108.9 106.8
C2' C3' H3' 105.4 110.6
C3' C2' O2' 100.2 110.5
C3' C2' C1' 107.9 104.0
C3' C2' H2' 109.0 110.5
O2' C2' C1' 114.5 110.8
O2' C2' H2' 113.3 110.5
C2' O2' HO2' 107.9 106.8
C1' C2' H2' 111.1 110.4
C2' C1' N9 124.0 110.4
C2' C1' H1' 111.9 110.3
N9 C1' H1' 111.8 110.3
C1' N9 C8 124.3 126.2
C1' N9 C4 131.2 126.3
C8 N9 C4 102.4 107.5
N9 C8 N7 118.8 109.8
N9 C8 H8 121.2 125.1
N9 C4 C5 106.2 106.1
N9 C4 N3 129.2 134.2
N7 C8 H8 120.0 125.1
C8 N7 C5 101.1 109.3
N7 C5 C6 128.4 134.1
N7 C5 C4 111.5 107.3
C6 C5 C4 120.0 118.6
C5 C6 O6 127.2 120.8
C5 C6 N1 113.1 118.3
C5 C4 N3 124.6 119.7
O6 C6 N1 119.7 120.9
C6 N1 C2 126.4 120.4
C6 N1 HN1 119.7 119.8
C2 N1 HN1 113.9 119.8
N1 C2 N2 117.6 119.1
N1 C2 N3 119.7 121.8
N2 C2 N3 122.7 119.1
C2 N2 HN21 119.9 120.0
C2 N2 HN22 121.3 120.0
C2 N3 C4 116.1 121.2
HN21 N2 HN22 118.6 120.0

Torsion Angles for GCP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2G PG O1G O3G 134.0 119.9
O2G PG O1G C3B 245.0 239.9
O1G PG O2G HOG2 180.0 300.1
O3G PG O1G C3B 111.0 120.0
O1G PG O3G HOG3 180.0 179.9
O1G PG C3B PB 286.8 60.0
O1G PG C3B H3B1 52.0 300.0
O1G PG C3B H3B2 161.5 180.0
O1G PG O2G O3G 226.4 240.1
O1G PG O2G C3B 116.4 120.1
O3G PG O2G C3B 250.0 240.0
O2G PG O3G HOG3 46.7 60.0
O2G PG C3B PB 47.4 180.0
O2G PG C3B H3B1 172.6 60.0
O2G PG C3B H3B2 282.2 300.0
O1G PG O3G O2G 133.3 119.9
O1G PG O3G C3B 245.4 240.0
O2G PG O3G C3B 112.1 120.0
O3G PG O2G HOG2 313.6 60.0
O3G PG C3B PB 167.1 300.0
O3G PG C3B H3B1 292.4 180.0
O3G PG C3B H3B2 41.9 60.0
O1G PG C3B O2G 239.4 240.0
O1G PG C3B O3G 119.7 120.0
O2G PG C3B O3G 240.3 240.0
C3B PG O2G HOG2 63.6 180.0
C3B PG O3G HOG3 294.6 300.0
PB C3B PG H3B1 234.7 119.9
PB C3B PG H3B2 125.2 240.0
PG C3B PB O1B 39.7 300.0
PG C3B PB O2B 164.2 60.0
PG C3B PB O3A 275.1 180.0
H3B1 C3B PG H3B2 250.5 120.0
HOG2 O2G PG O3G 313.6 60.0
HOG2 O2G PG C3B 63.6 180.0
HOG3 O3G PG C3B 294.6 300.0
PG C3B PB H3B1 125.3 240.0
PG C3B PB H3B2 234.7 120.0
H3B1 C3B PB H3B2 109.4 240.0
O1B PB C3B O2B 235.6 240.0
O1B PB C3B O3A 124.6 120.0
O2B PB C3B O3A 249.1 240.0
C3B PB O2B HOB2 180.0 60.0
C3B PB O3A PA 219.2 180.0
PG C3B H3B1 PB 213.8 120.0
PG C3B H3B1 H3B2 107.0 239.9
PB C3B H3B1 H3B2 253.2 120.0
H3B1 C3B PB O1B 274.4 60.0
H3B1 C3B PB O2B 38.9 180.0
H3B1 C3B PB O3A 149.8 300.0
PG C3B H3B2 PB 146.2 240.0
PG C3B H3B2 H3B1 253.0 120.0
PB C3B H3B2 H3B1 106.8 240.0
H3B2 C3B PB O1B 165.0 180.0
H3B2 C3B PB O2B 289.4 300.0
H3B2 C3B PB O3A 40.3 60.0
O1B PB C3B H3B1 274.4 60.0
O1B PB C3B H3B2 165.0 180.0
C3B PB O1B O2B 112.6 120.0
C3B PB O1B O3A 231.9 240.0
O2B PB O1B O3A 119.3 120.0
O1B PB O2B HOB2 298.4 180.0
O1B PB O3A PA 94.4 60.0
O2B PB C3B H3B1 38.9 180.0
O2B PB C3B H3B2 289.4 300.0
C3B PB O2B O1B 241.6 240.0
C3B PB O2B O3A 119.7 119.9
O1B PB O2B O3A 238.1 240.0
O2B PB O3A PA 327.0 300.0
O3A PB C3B H3B1 149.8 300.0
O3A PB C3B H3B2 40.3 60.0
C3B PB O3A O1B 124.8 120.0
C3B PB O3A O2B 252.2 240.1
O1B PB O3A O2B 127.4 120.0
O3A PB O2B HOB2 60.3 300.0
PB O3A PA O1A 9.2 300.1
PB O3A PA O2A 140.3 60.0
PB O3A PA O5' 256.4 180.0
HOB2 O2B PB O3A 60.3 300.0
O1A PA O3A O2A 228.9 240.0
O1A PA O3A O5' 112.8 120.0
O2A PA O3A O5' 243.9 240.0
O3A PA O2A HOA2 180.0 60.0
O3A PA O5' C5' 322.8 180.0
O3A PA O1A O2A 122.8 120.0
O3A PA O1A O5' 236.9 239.9
O2A PA O1A O5' 114.1 120.0
O1A PA O2A HOA2 306.4 180.0
O1A PA O5' C5' 202.8 60.0
O3A PA O2A O1A 233.6 240.0
O3A PA O2A O5' 123.1 120.1
O1A PA O2A O5' 249.5 240.0
O2A PA O5' C5' 78.2 300.0
O3A PA O5' O1A 120.0 120.0
O3A PA O5' O2A 244.6 240.0
O1A PA O5' O2A 124.6 119.9
O5' PA O2A HOA2 56.9 300.0
PA O5' C5' C4' 214.4 180.0
PA O5' C5' H5'2 331.9 300.0
PA O5' C5' H5'1 92.4 60.0
HOA2 O2A PA O5' 56.9 300.0
C4' C5' O5' H5'2 242.5 240.0
C4' C5' O5' H5'1 122.0 120.0
O5' C5' C4' O4' 286.5 61.5
O5' C5' C4' C3' 39.4 176.9
O5' C5' C4' H4' 163.0 299.2
H5'2 C5' O5' H5'1 239.5 240.0
O5' C5' C4' H5'2 118.1 120.0
O5' C5' C4' H5'1 238.2 240.0
H5'2 C5' C4' H5'1 120.2 120.0
O4' C4' C5' C3' 247.1 244.6
O4' C4' C5' H4' 123.5 122.2
C5' C4' O4' C1' 161.1 159.5
C3' C4' C5' H4' 236.4 237.7
C5' C4' C3' O3' 97.4 98.3
C5' C4' C3' C2' 224.2 217.1
C5' C4' C3' H3' 336.4 335.8
O5' C5' H5'2 C4' 238.3 240.0
O5' C5' H5'2 H5'1 119.2 120.0
C4' C5' H5'2 H5'1 240.9 240.0
H5'2 C5' C4' O4' 168.5 301.5
H5'2 C5' C4' C3' 281.4 56.9
H5'2 C5' C4' H4' 44.9 179.3
O5' C5' H5'1 C4' 124.3 120.0
O5' C5' H5'1 H5'2 241.7 240.0
C4' C5' H5'1 H5'2 117.4 120.0
H5'1 C5' C4' O4' 48.3 181.5
H5'1 C5' C4' C3' 161.2 296.9
H5'1 C5' C4' H4' 284.8 59.2
O4' C4' C5' H5'2 168.5 301.5
O4' C4' C5' H5'1 48.3 181.5
C5' C4' O4' C3' 117.2 119.0
C5' C4' O4' H4' 236.5 237.8
C3' C4' O4' H4' 119.3 118.8
O4' C4' C3' O3' 215.4 217.2
O4' C4' C3' C2' 342.2 335.9
O4' C4' C3' H3' 94.4 94.7
C4' O4' C1' C2' 313.6 319.6
C4' O4' C1' N9 187.8 200.6
C4' O4' C1' H1' 69.3 78.4
C3' C4' C5' H5'2 281.4 56.9
C3' C4' C5' H5'1 161.2 296.9
C5' C4' C3' O4' 242.0 241.1
C5' C4' C3' H4' 123.2 122.3
O4' C4' C3' H4' 241.2 241.2
C3' C4' O4' C1' 43.9 40.5
O3' C3' C4' C2' 233.1 241.3
O3' C3' C4' H3' 121.0 122.6
C4' C3' O3' HO3' 30.4 180.0
C2' C3' C4' H3' 247.9 241.3
C4' C3' C2' O2' 230.9 241.2
C4' C3' C2' C1' 350.9 0.1
C4' C3' C2' H2' 111.7 118.6
H4' C4' C5' H5'2 44.9 179.3
H4' C4' C5' H5'1 284.8 59.2
C5' C4' H4' O4' 123.5 122.2
C5' C4' H4' C3' 237.5 237.6
O4' C4' H4' C3' 114.0 115.3
H4' C4' O4' C1' 284.6 281.7
H4' C4' C3' O3' 334.2 336.0
H4' C4' C3' C2' 101.1 94.7
H4' C4' C3' H3' 213.2 213.4
C1' O4' C4' C3' 43.9 40.5
C1' O4' C4' H4' 284.6 281.7
C3' C2' C1' O4' 31.6 23.8
O2' C2' C1' O4' 142.1 142.6
O4' C1' C2' H2' 272.1 265.3
C2' C1' O4' N9 125.7 118.9
C2' C1' O4' H1' 244.3 241.2
N9 C1' O4' H1' 118.5 122.3
O4' C1' N9 C8 38.2 27.0
O4' C1' N9 C4 237.5 207.0
O3' C3' C4' H4' 334.2 336.0
C4' C3' O3' C2' 116.3 114.7
C4' C3' O3' H3' 238.7 237.4
C2' C3' O3' H3' 122.4 122.8
O3' C3' C2' O2' 349.8 359.9
O3' C3' C2' C1' 109.8 118.8
O3' C3' C2' H2' 230.6 237.3
C2' C3' C4' H4' 101.1 94.7
C4' C3' C2' O3' 241.1 241.3
C4' C3' C2' H3' 116.2 118.6
O4' C1' C2' C3' 31.6 23.8
O3' C3' C2' H3' 235.1 237.3
C2' C3' O3' HO3' 274.2 65.3
O2' C2' C3' C1' 240.0 241.0
O2' C2' C3' H2' 119.2 122.5
C3' C2' O2' HO2' 281.1 298.6
C1' C2' C3' H2' 239.2 241.5
C3' C2' C1' N9 136.9 142.8
C3' C2' C1' H1' 276.0 265.0
H3' C3' C4' H4' 213.2 213.4
C4' C3' H3' O3' 119.3 122.6
C4' C3' H3' C2' 249.7 245.3
O3' C3' H3' C2' 130.3 122.8
H3' C3' O3' HO3' 151.7 302.6
H3' C3' C2' O2' 114.7 122.6
H3' C3' C2' C1' 234.7 241.5
H3' C3' C2' H2' 355.5 0.0
HO3' O3' C3' C2' 274.2 65.3
HO3' O3' C3' H3' 151.7 302.6
O4' C1' C2' O2' 142.1 142.6
O2' C2' C3' H3' 114.7 122.6
C3' C2' O2' C1' 115.1 114.8
C3' C2' O2' H2' 244.0 237.4
C1' C2' O2' H2' 128.9 122.7
O2' C2' C1' N9 247.5 261.5
O2' C2' C1' H1' 26.5 23.7
O4' C1' C2' N9 254.7 241.1
O4' C1' C2' H1' 115.6 118.9
C1' C2' C3' H3' 234.7 241.5
C3' C2' C1' O2' 249.4 241.3
C3' C2' C1' H2' 119.4 118.5
O2' C2' C1' H2' 230.0 237.3
C1' C2' O2' HO2' 166.0 183.8
N9 C1' C2' H1' 220.9 237.8
C2' C1' N9 C8 295.7 271.5
C2' C1' N9 C4 135.1 91.5
H2' C2' C3' H3' 355.5 0.0
C3' C2' H2' O2' 110.6 122.6
C3' C2' H2' C1' 241.3 245.5
O2' C2' H2' C1' 130.6 122.9
H2' C2' O2' HO2' 37.1 61.1
H2' C2' C1' N9 17.5 24.2
H2' C2' C1' H1' 156.5 146.4
HO2' O2' C2' C1' 166.0 183.8
HO2' O2' C2' H2' 37.1 61.1
O4' C1' N9 C2' 102.4 115.5
O4' C1' N9 H1' 241.5 237.7
N9 C1' C2' H2' 17.5 24.2
C2' C1' N9 H1' 139.1 122.2
C8 N9 C1' C4 160.6 179.9
C1' N9 C8 N7 194.7 180.0
C1' N9 C8 H8 13.8 0.1
C1' N9 C4 C5 163.8 179.9
C1' N9 C4 N3 344.2 0.0
O4' C1' H1' C2' 255.5 244.6
O4' C1' H1' N9 111.3 122.3
H1' C1' C2' H2' 156.5 146.4
C2' C1' H1' N9 215.8 237.8
H1' C1' N9 C8 156.7 149.3
H1' C1' N9 C4 356.0 329.3
C8 N9 C1' H1' 156.7 149.3
C1' N9 C8 C4 194.8 180.1
C8 N9 C4 C5 0.1 360.0
C8 N9 C4 N3 180.4 180.1
N7 C8 N9 H8 180.9 179.9
N9 C8 N7 C5 0.1 0.0
C4 N9 C1' H1' 356.0 329.3
C1' N9 C4 C8 163.7 179.9
C4 N9 C8 N7 359.9 360.0
C4 N9 C8 H8 179.0 180.1
N7 C5 C4 N9 360.0 0.0
C6 C5 C4 N9 179.8 180.0
C5 C4 N9 N3 179.6 179.9
C2 N3 C4 N9 180.6 180.0
N7 C8 N9 C4 359.9 360.0
N9 C8 N7 H8 179.1 180.1
C8 N7 C5 C6 180.2 180.0
C8 N7 C5 C4 360.0 359.9
H8 C8 N9 C4 179.0 180.1
N9 C8 H8 N7 180.9 179.9
H8 C8 N7 C5 181.0 180.0
N9 C4 C5 N7 360.0 0.0
C5 N7 C8 H8 181.0 180.0
C6 C5 N7 C4 180.2 180.0
N7 C5 C6 O6 356.9 0.1
N7 C5 C6 N1 179.1 179.7
N7 C5 C4 N3 179.6 180.0
N9 C4 C5 C6 179.8 180.0
N7 C5 C6 C4 179.8 180.0
C6 C5 C4 N3 359.5 360.0
O6 C6 C5 N1 177.8 180.4
C5 C6 N1 C2 1.5 0.6
C5 C6 N1 HN1 181.4 180.0
N9 C4 C5 N3 180.4 180.1
N7 C5 C4 C6 180.2 180.0
C4 C5 C6 O6 177.1 180.1
C4 C5 C6 N1 359.3 359.7
C2 N3 C4 C5 1.1 0.1
O6 C6 C5 C4 177.1 180.1
C5 C6 O6 N1 182.3 179.6
O6 C6 N1 C2 183.5 180.2
O6 C6 N1 HN1 3.4 359.6
N1 C6 C5 C4 359.3 359.7
C5 C6 N1 O6 178.0 180.4
C2 N1 C6 HN1 180.2 180.6
C6 N1 C2 N2 179.9 179.7
C6 N1 C2 N3 359.0 359.4
C6 N1 C2 HN1 179.8 179.4
N2 C2 N1 N3 181.0 180.3
N1 C2 N2 HN21 238.5 179.8
N1 C2 N2 HN22 63.4 359.4
N1 C2 N3 C4 359.7 0.3
C6 N1 HN1 C2 180.1 180.6
HN1 N1 C2 N2 0.1 0.3
HN1 N1 C2 N3 179.1 180.0
N2 C2 N1 HN1 0.1 0.3
N1 C2 N2 N3 179.0 179.7
N2 C2 N3 C4 178.6 180.0
HN21 N2 C2 HN22 175.1 180.4
N9 C4 N3 C2 180.6 180.0
C5 C4 N3 C2 1.1 0.1
N3 C2 N1 HN1 179.1 180.0
N1 C2 N3 N2 181.0 180.3
N3 C2 N2 HN21 59.5 0.1
N3 C2 N2 HN22 244.4 179.7
HN21 N2 C2 N3 59.5 0.1
C2 N2 HN21 HN22 184.8 179.6
HN22 N2 C2 N3 244.4 179.7
C2 N2 HN22 HN21 175.2 180.4
N9 C4 N3 C5 179.6 179.9