PDB Chemical Component IMO

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 IMO

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P O1 1.484 1.610
P O2 1.482 1.610
P O3 1.489 1.479
P O6 1.663 1.609
O1 HO1 0.950 0.967
C2 N3 1.300 1.316
C2 N1 1.314 1.320
C2 H2 1.103 1.080
C1' C2' 1.467 1.545
C1' O4' 1.481 1.444
C1' N9 1.393 1.463
C1' H1' 1.116 1.090
C2' C3' 1.562 1.545
C2' O2' 1.438 1.429
C2' H2' 1.115 1.090
C3' C4' 1.516 1.544
C3' O3' 1.477 1.429
C3' H3' 1.115 1.090
C4' C5' 1.486 1.530
C4' O4' 1.465 1.447
C4' H4' 1.114 1.090
C5' O5' 1.378 1.428
C5' H5'1 1.115 1.090
C5' H5'2 1.114 1.089
O2 HO2 0.950 0.967
PA O1A 1.481 1.610
PA O2A 1.458 1.610
PA O3A 1.479 1.480
PA O5' 1.614 1.610
O1A HOA1 0.950 0.967
O2A HOA2 0.950 0.966
N9 C4 1.404 1.373
N9 C8 1.361 1.362
C4 N3 1.327 1.328
C4 C5 1.365 1.406
N1 C6 1.358 1.327
C6 O6 1.506 1.355
C6 C5 1.419 1.403
C5 N7 1.395 1.355
N7 C8 1.298 1.302
C8 H81 1.103 1.079
O2' HO'2 0.949 0.968
O3' HO'3 0.950 0.967

Bond Angles for IMO

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1 P O2 113.1 109.5
O1 P O3 111.9 109.5
O1 P O6 106.4 109.5
P O1 HO1 113.1 106.9
O2 P O3 111.4 109.5
O2 P O6 110.1 109.4
P O2 HO2 113.0 106.8
O3 P O6 103.4 109.5
P O6 C6 118.5 106.8
N3 C2 N1 123.6 122.5
N3 C2 H2 117.6 118.8
C2 N3 C4 112.5 120.5
N1 C2 H2 118.7 118.7
C2 N1 C6 128.1 121.2
C2' C1' O4' 104.3 104.8
C2' C1' N9 109.8 110.4
C2' C1' H1' 116.2 110.3
C1' C2' C3' 104.5 104.1
C1' C2' O2' 105.1 110.6
C1' C2' H2' 118.4 110.5
O4' C1' N9 118.3 110.5
O4' C1' H1' 107.3 110.4
C1' O4' C4' 109.5 105.4
N9 C1' H1' 101.4 110.4
C1' N9 C4 126.9 126.3
C1' N9 C8 128.3 126.3
C3' C2' O2' 117.6 110.5
C3' C2' H2' 106.2 110.5
C2' C3' C4' 99.9 104.2
C2' C3' O3' 114.9 110.5
C2' C3' H3' 113.3 110.5
O2' C2' H2' 105.6 110.5
C2' O2' HO'2 105.1 106.8
C4' C3' O3' 112.4 110.5
C4' C3' H3' 115.8 110.5
C3' C4' C5' 115.5 110.7
C3' C4' O4' 106.1 104.6
C3' C4' H4' 109.3 110.3
O3' C3' H3' 101.2 110.5
C3' O3' HO'3 114.9 106.8
C5' C4' O4' 113.5 110.4
C5' C4' H4' 101.1 110.3
C4' C5' O5' 111.4 109.5
C4' C5' H5'1 111.5 109.4
C4' C5' H5'2 111.5 109.4
O4' C4' H4' 111.3 110.3
O5' C5' H5'1 111.5 109.5
O5' C5' H5'2 111.5 109.6
C5' O5' PA 126.7 106.8
H5'1 C5' H5'2 98.9 109.4
O1A PA O2A 109.6 109.5
O1A PA O3A 114.9 109.5
O1A PA O5' 107.1 109.5
PA O1A HOA1 109.6 106.8
O2A PA O3A 105.7 109.5
O2A PA O5' 107.5 109.4
PA O2A HOA2 109.6 106.9
O3A PA O5' 111.9 109.5
C4 N9 C8 103.0 107.5
N9 C4 N3 126.1 134.9
N9 C4 C5 107.0 106.0
N9 C8 N7 116.5 110.0
N9 C8 H81 124.0 125.0
N3 C4 C5 126.9 119.1
C4 C5 C6 119.8 118.2
C4 C5 N7 110.4 107.1
N1 C6 O6 124.0 120.8
N1 C6 C5 108.8 118.5
O6 C6 C5 126.8 120.7
C6 C5 N7 129.8 134.7
C5 N7 C8 103.1 109.4
N7 C8 H81 119.5 125.0

Torsion Angles for IMO

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2 P O1 O3 126.7 120.0
O2 P O1 O6 239.0 240.0
O1 P O2 HO2 180.1 60.0
O3 P O1 O6 112.3 120.0
O1 P O6 C6 261.9 180.0
O1 P O2 O3 233.0 240.0
O1 P O2 O6 118.9 120.0
O2 P O1 HO1 180.0 60.0
O3 P O2 O6 245.9 240.0
O2 P O6 C6 24.8 299.9
O1 P O3 O2 127.6 120.0
O1 P O3 O6 245.9 240.0
O3 P O1 HO1 53.2 300.0
O2 P O3 O6 118.2 120.0
O3 P O2 HO2 307.1 180.0
O3 P O6 C6 143.8 60.0
O1 P O6 O2 237.1 240.0
O1 P O6 O3 118.1 120.0
O6 P O1 HO1 301.0 180.0
O2 P O6 O3 240.9 239.9
O6 P O2 HO2 61.2 300.0
N1 C6 O6 P 7.7 270.0
P O6 C6 C5 195.0 90.0
HO1 O1 P O2 180.0 60.0
HO1 O1 P O3 53.2 300.0
HO1 O1 P O6 301.0 180.0
N1 C2 N3 H2 180.0 180.0
N3 C2 N1 C6 356.7 0.0
N9 C4 N3 C2 180.8 179.6
C2 N3 C4 C5 2.4 0.5
N3 C2 N1 H2 180.0 180.0
N1 C2 N3 C4 359.4 359.7
C2 N1 C6 O6 190.9 180.0
C2 N1 C6 C5 4.7 360.0
N3 C2 H2 N1 180.0 180.0
H2 C2 N3 C4 179.4 179.7
H2 C2 N1 C6 176.7 180.0
O4' C1' C2' N9 232.3 241.0
O4' C1' C2' H1' 117.9 118.8
C2' C1' O4' C4' 345.7 319.6
N9 C1' C2' H1' 245.6 237.7
C2' C1' N9 C4 123.0 89.7
C2' C1' N9 C8 284.7 270.0
C3' C2' C1' O2' 235.6 241.3
C3' C2' C1' H2' 118.0 118.6
C1' C2' C3' C4' 320.3 360.0
C1' C2' C3' O3' 80.9 118.6
C1' C2' C3' H3' 196.5 241.2
O2' C2' C1' H2' 242.4 237.3
C1' C2' O2' HO'2 180.0 183.8
C2' C1' O4' N9 122.3 118.9
C2' C1' O4' H1' 236.2 241.2
O4' C1' C2' C3' 33.5 23.9
O4' C1' C2' O2' 158.0 142.7
O4' C1' C2' H2' 275.6 265.3
N9 C1' O4' H1' 113.8 122.3
O4' C1' N9 C4 242.5 205.2
O4' C1' N9 C8 44.2 25.4
C3' C4' O4' C1' 348.6 40.3
C5' C4' O4' C1' 116.4 159.5
C1' O4' C4' H4' 229.7 281.7
C2' C1' N9 O4' 240.5 244.6
C2' C1' N9 H1' 123.5 122.2
N9 C1' C2' C3' 161.3 142.9
N9 C1' C2' O2' 285.7 261.6
N9 C1' C2' H2' 43.3 24.3
O4' C1' N9 H1' 243.0 237.7
N9 C1' O4' C4' 223.4 200.7
C4 N9 C1' C8 198.3 179.8
C1' N9 C4 N3 346.1 0.7
C1' N9 C4 C5 164.8 179.9
C1' N9 C8 N7 195.0 180.0
C1' N9 C8 H81 15.0 360.0
C2' C1' H1' O4' 116.2 115.3
C2' C1' H1' N9 240.9 237.7
H1' C1' C2' C3' 275.6 265.2
H1' C1' C2' O2' 40.1 23.9
H1' C1' C2' H2' 157.7 146.5
O4' C1' H1' N9 124.7 122.4
H1' C1' O4' C4' 109.6 78.4
H1' C1' N9 C4 359.5 327.5
H1' C1' N9 C8 161.2 147.7
C3' C2' C1' O4' 33.5 23.9
C3' C2' C1' N9 161.3 142.9
C3' C2' C1' H1' 275.6 265.2
C1' C2' C3' O2' 116.1 118.8
C1' C2' C3' H2' 234.0 241.4
O2' C2' C3' H2' 117.9 122.6
C3' C2' O2' HO'2 295.8 298.5
C4' C3' C2' O3' 239.5 241.3
C4' C3' C2' H3' 123.9 118.7
C2' C3' C4' C5' 263.7 217.3
C2' C3' C4' O4' 30.4 336.2
C2' C3' C4' H4' 150.6 94.9
O3' C3' C2' H3' 244.4 237.4
C2' C3' O3' HO'3 180.0 63.3
O2' C2' C1' O4' 158.0 142.7
O2' C2' C1' N9 285.7 261.6
O2' C2' C1' H1' 40.1 23.9
C1' C2' O2' C3' 244.2 245.3
C1' C2' O2' H2' 126.0 122.6
C3' C2' O2' H2' 241.7 237.4
O2' C2' C3' C4' 204.3 241.2
O2' C2' C3' O3' 324.8 359.9
O2' C2' C3' H3' 80.4 122.5
H2' C2' C1' O4' 275.6 265.3
H2' C2' C1' N9 43.3 24.3
H2' C2' C1' H1' 157.7 146.5
C1' C2' H2' C3' 117.1 114.6
C1' C2' H2' O2' 242.7 237.3
C3' C2' H2' O2' 125.6 122.7
H2' C2' C3' C4' 86.3 118.5
H2' C2' C3' O3' 206.8 237.2
H2' C2' C3' H3' 322.5 359.8
H2' C2' O2' HO'2 54.0 61.2
C1' O4' C4' C3' 348.6 40.3
C4' C3' C2' O2' 204.3 241.2
C4' C3' C2' H2' 86.3 118.5
C2' C3' C4' O3' 122.3 118.7
C2' C3' C4' H3' 237.9 241.2
O3' C3' C4' H3' 115.6 122.6
C4' C3' O3' HO'3 293.4 178.1
C5' C4' C3' O4' 233.3 241.1
C5' C4' C3' H4' 113.1 122.4
C3' C4' C5' O5' 54.1 176.9
C3' C4' C5' H5'1 179.3 296.9
C3' C4' C5' H5'2 288.8 56.8
O4' C4' C3' H4' 239.9 241.3
O3' C3' C2' O2' 324.8 359.9
O3' C3' C2' H2' 206.8 237.2
C2' C3' O3' C4' 246.6 245.2
C2' C3' O3' H3' 122.5 122.6
C4' C3' O3' H3' 235.8 237.4
O3' C3' C4' C5' 141.4 98.6
O3' C3' C4' O4' 268.1 217.5
O3' C3' C4' H4' 28.3 336.2
H3' C3' C2' O2' 80.4 122.5
H3' C3' C2' H2' 322.5 359.8
C2' C3' H3' C4' 114.7 114.8
C2' C3' H3' O3' 236.5 237.4
C4' C3' H3' O3' 121.8 122.6
H3' C3' C4' C5' 25.8 336.0
H3' C3' C4' O4' 152.5 95.0
H3' C3' C4' H4' 272.7 213.6
H3' C3' O3' HO'3 57.5 300.7
C1' O4' C4' C5' 116.4 159.5
C5' C4' C3' O3' 141.4 98.6
C5' C4' C3' H3' 25.8 336.0
C3' C4' C5' O4' 122.8 115.4
C3' C4' C5' H4' 242.2 237.6
O4' C4' C5' H4' 119.3 122.2
O5' C5' C4' H5'1 234.8 240.0
O5' C5' C4' H5'2 125.3 120.1
C4' C5' O5' PA 145.2 180.0
H5'1 C5' C4' H5'2 250.5 240.1
C4' O4' C1' N9 223.4 200.7
C4' O4' C1' H1' 109.6 78.4
O4' C4' C3' O3' 268.1 217.5
O4' C4' C3' H3' 152.5 95.0
C3' C4' O4' C5' 232.1 240.8
C3' C4' O4' H4' 118.8 118.6
C5' C4' O4' H4' 246.7 237.8
O4' C4' C5' O5' 291.2 61.5
O4' C4' C5' H5'1 56.5 181.5
O4' C4' C5' H5'2 166.0 301.4
H4' C4' C3' O3' 28.3 336.2
H4' C4' C3' H3' 272.7 213.6
C3' C4' H4' C5' 122.2 122.7
C3' C4' H4' O4' 243.1 244.9
C5' C4' H4' O4' 120.9 122.2
H4' C4' C5' O5' 171.9 299.3
H4' C4' C5' H5'1 297.1 59.3
H4' C4' C5' H5'2 46.6 179.2
O5' C5' C4' O4' 291.2 61.5
O5' C5' C4' H4' 171.9 299.3
C4' C5' O5' H5'1 125.2 119.9
C4' C5' O5' H5'2 234.7 240.0
H5'1 C5' O5' H5'2 109.5 120.0
O1A PA O5' C5' 292.3 179.9
O2A PA O5' C5' 174.7 299.9
O3A PA O5' C5' 59.0 59.9
H5'1 C5' C4' O4' 56.5 181.5
H5'1 C5' C4' H4' 297.1 59.3
C4' C5' H5'1 O5' 234.8 240.0
C4' C5' H5'1 H5'2 117.4 119.9
O5' C5' H5'1 H5'2 242.6 239.9
H5'1 C5' O5' PA 20.0 60.1
H5'2 C5' C4' O4' 166.0 301.4
H5'2 C5' C4' H4' 46.6 179.2
C4' C5' H5'2 O5' 125.2 120.1
C4' C5' H5'2 H5'1 242.6 240.1
O5' C5' H5'2 H5'1 117.4 120.0
H5'2 C5' O5' PA 270.5 300.0
HO2 O2 P O3 307.1 180.0
HO2 O2 P O6 61.2 300.0
C5' O5' PA O1A 292.3 179.9
O2A PA O1A O3A 241.2 120.0
O2A PA O1A O5' 116.3 240.1
O1A PA O2A HOA2 180.0 59.9
O3A PA O1A O5' 235.1 120.0
C5' O5' PA O2A 174.7 299.9
O1A PA O2A O3A 124.3 240.0
O1A PA O2A O5' 244.0 120.0
O2A PA O1A HOA1 180.0 60.0
O3A PA O2A O5' 119.6 240.0
C5' O5' PA O3A 59.0 59.9
O1A PA O3A O2A 239.1 120.0
O1A PA O3A O5' 122.4 240.0
O3A PA O1A HOA1 298.8 300.0
O2A PA O3A O5' 243.3 120.0
O3A PA O2A HOA2 55.7 180.0
PA O5' C5' H5'1 20.0 60.1
PA O5' C5' H5'2 270.5 300.0
O1A PA O5' O2A 117.7 240.0
O1A PA O5' O3A 233.3 120.0
O5' PA O1A HOA1 63.7 180.0
O2A PA O5' O3A 115.6 240.0
O5' PA O2A HOA2 296.1 300.0
HOA1 O1A PA O2A 180.0 60.0
HOA1 O1A PA O3A 298.8 300.0
HOA1 O1A PA O5' 63.7 180.0
HOA2 O2A PA O3A 55.7 180.0
HOA2 O2A PA O5' 296.1 300.0
C2 N3 C4 N9 180.8 179.6
C4 N9 C1' H1' 359.5 327.5
C1' N9 C4 C8 165.4 180.2
C4 N9 C8 N7 0.1 0.2
C4 N9 C8 H81 180.1 180.2
N3 C4 N9 C5 181.3 180.8
N9 C4 C5 C6 180.6 180.2
N9 C4 C5 N7 0.9 0.3
C8 N9 C1' H1' 161.2 147.7
C1' N9 C8 C4 194.9 179.8
C8 N9 C4 N3 180.7 180.5
C8 N9 C4 C5 359.4 359.7
C5 N7 C8 N9 0.4 0.0
N7 C8 N9 H81 180.0 180.0
C4 N3 C2 N1 359.4 359.7
C4 N3 C2 H2 179.4 179.7
N3 C4 N9 C8 180.7 180.5
N9 C4 N3 C5 178.4 179.1
N3 C4 C5 C6 359.3 359.5
N3 C4 C5 N7 179.6 179.6
C5 C4 N9 C8 359.4 359.7
N9 C4 C5 N3 181.3 180.7
N1 C6 C5 C4 357.4 0.3
O6 C6 C5 C4 171.0 180.3
C6 C5 C4 N7 179.7 179.8
C4 C5 N7 C8 359.2 359.8
P O6 C6 N1 7.7 270.0
C6 N1 C2 H2 176.7 180.0
C4 C5 C6 N1 357.4 0.3
O6 C6 N1 C5 186.2 180.0
N1 C6 C5 N7 177.1 180.0
C4 C5 C6 O6 171.0 180.3
N1 C6 O6 C5 172.7 180.0
O6 C6 C5 N7 350.7 0.0
C4 C5 C6 N7 180.3 180.2
N1 C6 C5 O6 186.4 180.0
C6 C5 N7 C8 179.5 180.0
N9 C8 N7 C5 0.4 0.0
C4 C5 N7 C6 179.7 179.8
C5 N7 C8 H81 180.4 180.0
N9 C8 N7 H81 180.0 180.0
N9 C8 H81 N7 180.0 180.0
HO'2 O2' C2' H2' 54.0 61.2
HO'3 O3' C3' H3' 57.5 300.7