PDB Chemical Component DOI

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 DOI

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
PA O1A 1.522 1.480
PA O2A 1.519 1.611
PA O3A 1.518 1.609
PA O5' 1.634 1.610
O2A H2A 0.950 0.968
O3A H3A 0.950 0.967
O5' C5' 1.445 1.429
P6 O16 1.530 1.610
P6 O26 1.526 1.609
P6 O36 1.529 1.481
P6 O6 1.620 1.609
O26 H26 0.950 0.967
O36 H36 0.950  
C5' C4' 1.513 1.530
C5' H5'1 1.100 1.091
C5' H5'2 1.100 1.090
C4' O4' 1.443 1.446
C4' C3' 1.528 1.545
C4' H4' 1.100 1.089
O4' C1' 1.407 1.444
C1' N9 1.459 1.465
C1' C2' 1.526 1.544
C1' H1' 1.100 1.090
N9 C4 1.373 1.372
N9 C8 1.376 1.364
C4 N3 1.345 1.329
C4 C5 1.385 1.406
N3 C2 1.334 1.316
C2 N1 1.337 1.320
C2 H2 1.080 1.080
N1 C6 1.352 1.327
C6 O6 1.231 1.355
C6 C5 1.405 1.403
C5 N7 1.388 1.355
N7 C8 1.309 1.302
C8 H8 1.080 1.080
C2' C3' 1.525 1.546
C2' H2'1 1.100 1.090
C2' H2'2 1.100 1.089
C3' O3' 1.423 1.429
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.968

Bond Angles for DOI

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1A PA O2A 112.5 109.5
O1A PA O3A 111.4 109.5
O1A PA O5' 105.7 109.5
O2A PA O3A 113.0 109.5
O2A PA O5' 106.5 109.4
PA O2A H2A 109.5 106.8
O3A PA O5' 107.1 109.5
PA O3A H3A 109.5 106.8
PA O5' C5' 121.8 106.8
O5' C5' C4' 110.2 109.5
O5' C5' H5'1 109.1 109.4
O5' C5' H5'2 109.2 109.5
O16 P6 O26 112.0 109.5
O16 P6 O36 113.2 109.5
O16 P6 O6 106.5 109.5
O26 P6 O36 113.0 109.5
O26 P6 O6 105.2 109.5
P6 O26 H26 109.5 106.8
O36 P6 O6 106.2 109.5
P6 O36 H36 109.5  
P6 O6 C6 122.3 106.8
C4' C5' H5'1 109.1 109.4
C4' C5' H5'2 109.2 109.5
C5' C4' O4' 109.5 110.3
C5' C4' C3' 116.3 110.6
C5' C4' H4' 103.9 110.4
H5'1 C5' H5'2 110.0 109.5
O4' C4' C3' 107.1 104.7
O4' C4' H4' 113.7 110.4
C4' O4' C1' 109.8 105.4
C3' C4' H4' 106.5 110.3
C4' C3' C2' 104.8 104.2
C4' C3' O3' 111.5 110.5
C4' C3' H3' 112.1 110.5
O4' C1' N9 107.3 110.5
O4' C1' C2' 106.8 104.8
O4' C1' H1' 113.3 110.4
N9 C1' C2' 111.7 110.4
N9 C1' H1' 108.6 110.3
C1' N9 C4 124.4 126.3
C1' N9 C8 125.2 126.3
C2' C1' H1' 109.1 110.4
C1' C2' C3' 102.7 104.1
C1' C2' H2'1 113.2 110.5
C1' C2' H2'2 111.8 110.5
C4 N9 C8 105.7 107.4
N9 C4 N3 127.3 135.0
N9 C4 C5 105.8 106.0
N9 C8 N7 113.9 110.0
N9 C8 H8 123.0 125.0
N3 C4 C5 126.9 119.0
C4 N3 C2 110.6 120.6
C4 C5 C6 117.0 118.2
C4 C5 N7 110.7 107.1
N3 C2 N1 129.2 122.5
N3 C2 H2 115.4 118.7
N1 C2 H2 115.4 118.8
C2 N1 C6 118.7 121.3
N1 C6 O6 121.8 120.8
N1 C6 C5 117.6 118.5
O6 C6 C5 118.1 120.7
C6 C5 N7 132.3 134.7
C5 N7 C8 103.8 109.5
N7 C8 H8 123.1 125.0
C3' C2' H2'1 113.2 110.5
C3' C2' H2'2 111.8 110.5
C2' C3' O3' 111.9 110.5
C2' C3' H3' 111.7 110.5
H2'1 C2' H2'2 104.4 110.6
O3' C3' H3' 105.0 110.5
C3' O3' HO3' 109.5 106.8

Torsion Angles for DOI

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2A PA O1A O3A 231.8 120.0
O2A PA O1A O5' 115.8 240.0
O1A PA O2A H2A 76.2 300.0
O3A PA O1A O5' 243.9 120.1
O1A PA O3A H3A 115.6 180.0
O1A PA O5' C5' 177.2 55.0
O1A PA O2A O3A 127.3 240.0
O1A PA O2A O5' 244.7 120.0
O3A PA O2A O5' 117.4 240.0
O2A PA O3A H3A 243.4 60.0
O2A PA O5' C5' 57.4 175.0
O1A PA O3A O2A 232.1 120.0
O1A PA O3A O5' 115.2 240.0
O2A PA O3A O5' 243.0 120.0
O3A PA O2A H2A 308.9 60.0
O3A PA O5' C5' 296.2 295.0
O1A PA O5' O2A 119.8 240.0
O1A PA O5' O3A 241.1 120.0
O2A PA O5' O3A 121.2 240.0
O5' PA O2A H2A 191.5 180.0
O5' PA O3A H3A 0.4 300.1
PA O5' C5' C4' 132.7 180.0
PA O5' C5' H5'1 13.0 60.0
PA O5' C5' H5'2 252.7 300.0
H2A O2A PA O3A 308.9 60.0
H2A O2A PA O5' 191.5 180.0
H3A O3A PA O5' 0.4 300.1
C4' C5' O5' H5'1 119.7 120.0
C4' C5' O5' H5'2 240.0 239.9
O5' C5' C4' O4' 294.6 66.5
O5' C5' C4' C3' 56.2 181.9
O5' C5' C4' H4' 172.8 304.2
H5'1 C5' O5' H5'2 120.3 120.0
O26 P6 O16 O36 230.8 120.0
O26 P6 O16 O6 114.5 240.0
O16 P6 O26 H26 64.1 60.0
O36 P6 O16 O6 243.7 120.0
O16 P6 O36 H36 26.6  
O16 P6 O6 C6 306.9 175.0
O16 P6 O26 O36 129.3 240.0
O16 P6 O26 O6 244.7 120.0
O36 P6 O26 O6 115.4 240.0
O26 P6 O36 H36 155.2  
O26 P6 O6 C6 187.8 295.0
O16 P6 O36 O26 231.4 120.0
O16 P6 O36 O6 116.5 240.0
O26 P6 O36 O6 245.1 120.0
O36 P6 O26 H26 294.9 180.0
O36 P6 O6 C6 67.8 55.0
O16 P6 O6 O26 119.0 240.0
O16 P6 O6 O36 239.1 120.0
O26 P6 O6 O36 120.1 240.0
O6 P6 O26 H26 179.5 300.0
O6 P6 O36 H36 270.1  
N1 C6 O6 P6 334.5 270.0
P6 O6 C6 C5 172.8 90.0
H26 O26 P6 O36 294.9 180.0
H26 O26 P6 O6 179.5 300.0
H36 O36 P6 O6 270.1  
O5' C5' C4' H5'1 240.3 240.0
O5' C5' C4' H5'2 120.0 120.0
H5'1 C5' C4' H5'2 239.7 240.0
O4' C4' C5' C3' 238.5 244.6
O4' C4' C5' H4' 121.8 122.3
C5' C4' O4' C1' 136.2 159.4
C3' C4' C5' H4' 243.3 237.7
C5' C4' C3' C2' 247.3 217.3
C5' C4' C3' O3' 126.0 98.6
C5' C4' C3' H3' 8.6 336.0
O5' C5' H5'1 C4' 120.4 120.0
O5' C5' H5'1 H5'2 240.2 240.0
C4' C5' H5'1 H5'2 119.8 120.1
H5'1 C5' C4' O4' 54.3 186.5
H5'1 C5' C4' C3' 175.8 301.8
H5'1 C5' C4' H4' 292.5 64.2
O5' C5' H5'2 C4' 239.4 240.0
O5' C5' H5'2 H5'1 119.7 120.0
C4' C5' H5'2 H5'1 240.3 240.0
H5'2 C5' C4' O4' 174.6 306.5
H5'2 C5' C4' C3' 296.1 61.9
H5'2 C5' C4' H4' 52.8 184.2
O4' C4' C5' H5'1 54.3 186.5
O4' C4' C5' H5'2 174.6 306.5
C5' C4' O4' C3' 126.9 119.1
C5' C4' O4' H4' 244.3 237.7
C3' C4' O4' H4' 117.3 118.7
O4' C4' C3' C2' 10.1 336.2
O4' C4' C3' O3' 248.8 217.5
O4' C4' C3' H3' 131.4 94.9
C4' O4' C1' N9 214.9 200.7
C4' O4' C1' C2' 334.8 319.6
C4' O4' C1' H1' 95.0 78.4
C3' C4' C5' H5'1 175.8 301.8
C3' C4' C5' H5'2 296.1 61.9
C5' C4' C3' O4' 237.2 241.1
C5' C4' C3' H4' 115.2 122.4
O4' C4' C3' H4' 238.0 241.2
C3' C4' O4' C1' 9.3 40.4
C1' C2' C3' C4' 336.2 360.0
C4' C3' C2' H2'1 98.6 118.6
C4' C3' C2' H2'2 216.2 241.3
C2' C3' C4' O3' 121.3 118.7
C2' C3' C4' H3' 238.7 241.3
O3' C3' C4' H3' 117.4 122.6
C4' C3' O3' HO3' 194.5 178.1
H4' C4' C5' H5'1 292.5 64.2
H4' C4' C5' H5'2 52.8 184.2
C5' C4' H4' O4' 119.0 122.2
C5' C4' H4' C3' 236.7 237.5
O4' C4' H4' C3' 117.7 115.2
H4' C4' O4' C1' 252.0 281.7
H4' C4' C3' C2' 132.1 94.9
H4' C4' C3' O3' 10.8 336.2
H4' C4' C3' H3' 253.4 213.6
C1' O4' C4' C3' 9.3 40.4
C1' O4' C4' H4' 252.0 281.7
N9 C1' O4' C2' 240.1 241.1
N9 C1' O4' H1' 119.9 122.2
O4' C1' N9 C4 214.6 200.2
O4' C1' N9 C8 7.0 20.5
C2' C1' O4' H1' 239.8 241.1
O4' C1' C2' C3' 30.3 24.0
O4' C1' C2' H2'1 267.9 265.4
O4' C1' C2' H2'2 150.3 142.6
O4' C1' N9 C2' 116.8 115.5
O4' C1' N9 H1' 237.1 237.7
C2' C1' N9 H1' 120.4 122.3
N9 C1' C2' C3' 147.4 142.9
N9 C1' C2' H2'1 24.9 24.3
N9 C1' C2' H2'2 267.3 261.6
C4 N9 C1' C8 207.6 179.7
C1' N9 C4 N3 336.4 0.7
C1' N9 C4 C5 155.9 179.9
C1' N9 C8 N7 204.1 180.0
C1' N9 C8 H8 24.1 359.9
C4' C3' C2' C1' 336.2 360.0
O4' C1' C2' N9 243.0 241.1
O4' C1' C2' H1' 122.9 118.9
N9 C1' C2' H1' 239.9 237.8
C2' C1' N9 C4 97.8 84.7
C2' C1' N9 C8 250.2 265.0
C3' C2' C1' H2'1 122.5 118.6
C3' C2' C1' H2'2 240.0 241.3
C1' C2' C3' O3' 97.2 118.7
C1' C2' C3' H3' 214.6 241.2
H2'1 C2' C1' H2'2 117.6 122.7
O4' C1' H1' N9 119.1 122.3
O4' C1' H1' C2' 241.1 244.6
N9 C1' H1' C2' 122.0 122.2
H1' C1' N9 C4 337.5 322.5
H1' C1' N9 C8 129.8 142.7
H1' C1' C2' C3' 267.4 265.1
H1' C1' C2' H2'1 145.0 146.5
H1' C1' C2' H2'2 27.4 23.8
C4 N9 C1' C2' 97.8 84.7
C4 N9 C1' H1' 337.5 322.5
C1' N9 C4 C8 156.8 180.2
C4 N9 C8 N7 0.7 0.2
C4 N9 C8 H8 180.7 180.2
N3 C4 N9 C5 180.5 180.8
N9 C4 N3 C2 179.2 179.6
N9 C4 C5 C6 181.4 180.2
N9 C4 C5 N7 0.9 0.3
C8 N9 C1' C2' 250.2 265.0
C8 N9 C1' H1' 129.8 142.7
C1' N9 C8 C4 203.4 179.8
C8 N9 C4 N3 179.5 180.5
C8 N9 C4 C5 359.1 359.7
C5 N7 C8 N9 359.9 0.0
N7 C8 N9 H8 180.0 180.0
N3 C4 N9 C8 179.5 180.5
N9 C4 N3 C5 179.4 179.1
N3 C4 C5 C6 1.0 359.5
N3 C4 C5 N7 180.4 179.7
C4 N3 C2 N1 359.8 359.7
C4 N3 C2 H2 179.8 179.8
C5 C4 N9 C8 359.1 359.7
N9 C4 C5 N3 180.5 180.7
C5 C4 N3 C2 359.8 0.5
N1 C6 C5 C4 358.7 0.2
O6 C6 C5 C4 161.2 180.3
C6 C5 C4 N7 180.5 179.8
C4 C5 N7 C8 359.5 359.8
C2 N3 C4 C5 359.8 0.5
N1 C2 N3 H2 180.0 179.9
N3 C2 N1 C6 359.9 0.0
N3 C2 N1 H2 180.0 180.1
C2 N1 C6 O6 199.1 180.0
C2 N1 C6 C5 0.9 360.0
N3 C2 H2 N1 180.0 179.9
H2 C2 N1 C6 179.9 180.0
P6 O6 C6 N1 334.5 270.0
C4 C5 C6 N1 358.7 0.2
C6 N1 C2 H2 179.9 180.0
O6 C6 N1 C5 198.2 180.0
N1 C6 C5 N7 179.4 180.0
C4 C5 C6 O6 161.2 180.3
N1 C6 O6 C5 161.7 180.0
O6 C6 C5 N7 341.9 0.0
C4 C5 C6 N7 179.3 180.2
N1 C6 C5 O6 197.6 180.0
C6 C5 N7 C8 178.9 180.0
N9 C8 N7 C5 359.9 0.0
C4 C5 N7 C6 180.7 179.8
C5 N7 C8 H8 179.8 180.1
N9 C8 N7 H8 180.0 180.0
N9 C8 H8 N7 180.0 180.0
C2' C3' C4' H4' 132.1 94.9
C4' C3' C2' O3' 239.0 241.3
C4' C3' C2' H3' 121.6 118.7
C3' C2' C1' H1' 267.4 265.1
C1' C2' C3' H2'1 237.6 241.4
C1' C2' C3' H2'2 120.0 118.7
H2'1 C2' C3' H2'2 242.5 237.3
O3' C3' C2' H3' 242.6 237.4
C2' C3' O3' HO3' 77.4 63.3
H2'1 C2' C1' H1' 145.0 146.5
C1' C2' H2'1 C3' 116.4 114.6
C1' C2' H2'1 H2'2 238.2 237.3
C3' C2' H2'1 H2'2 121.8 122.7
H2'1 C2' C3' O3' 219.7 237.3
H2'1 C2' C3' H3' 337.0 359.8
H2'2 C2' C1' H1' 27.4 23.8
C1' C2' H2'2 C3' 245.5 245.3
C1' C2' H2'2 H2'1 122.8 122.7
C3' C2' H2'2 H2'1 237.2 237.3
H2'2 C2' C3' O3' 337.2 360.0
H2'2 C2' C3' H3' 94.6 122.6
O3' C3' C4' H4' 10.8 336.2
C4' C3' O3' C2' 117.1 114.8
C4' C3' O3' H3' 238.4 237.3
O3' C3' C2' H2'1 219.7 237.3
O3' C3' C2' H2'2 337.2 360.0
C2' C3' O3' H3' 121.3 122.6
H3' C3' C4' H4' 253.4 213.6
C4' C3' H3' C2' 242.7 245.2
C4' C3' H3' O3' 121.2 122.6
H3' C3' C2' H2'1 337.0 359.8
H3' C3' C2' H2'2 94.6 122.6
C2' C3' H3' O3' 238.5 237.4
H3' C3' O3' HO3' 316.1 300.7
HO3' O3' C3' H3' 316.1 300.7