PDB Chemical Component IMC

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 IMC

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.481 1.479
P OP2 1.480 1.610
P OP3 1.634 1.609
P O5' 1.629 1.610
OP2 HOP2 0.950 0.967
OP3 HOP3 0.950 0.966
O5' C5' 1.434 1.427
C5' C4' 1.532 1.530
C5' H5' 1.082 1.090
C5' H5'' 1.089 1.089
C4' O4' 1.424 1.446
C4' C3' 1.525 1.549
C4' H4' 1.077 1.090
O4' C1' 1.443 1.436
C1' N1 1.486 1.465
C1' C2' 1.537 1.541
C1' H1' 1.100 1.090
N1 C6 1.368 1.364
N1 C2 1.347 1.359
C6 C5 1.345 1.350
C6 H6 1.072 1.080
C4 O4 1.228 1.221
C4 N3 1.367 1.340
C4 C5 1.449 1.419
N3 C2 1.343 1.317
C2 N2 1.333 1.369
N2 HN21 1.006 0.971
N2 HN22 1.014 0.969
C5 C5M 1.542 1.507
C5M H71 1.093 1.090
C5M H72 1.091 1.090
C5M H73 1.089 1.090
C2' C3' 1.558 1.547
C2' H2' 1.093 1.090
C2' H2'' 1.097 1.090
C3' O3' 1.440 1.429
C3' H3' 1.086 1.090
O3' HO3' 0.950 0.967

Bond Angles for IMC

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.7 109.4
OP1 P OP3 108.1 109.5
OP1 P O5' 108.6 109.5
OP2 P OP3 108.2 109.4
OP2 P O5' 107.7 109.5
P OP2 HOP2 119.6 106.8
OP3 P O5' 103.5 109.5
P OP3 HOP3 108.1 106.8
P O5' C5' 117.7 106.8
O5' C5' C4' 118.2 109.5
O5' C5' H5' 106.9 109.5
O5' C5' H5'' 108.0 109.6
C4' C5' H5' 106.0 109.4
C4' C5' H5'' 107.9 109.4
C5' C4' O4' 113.8 110.8
C5' C4' C3' 116.0 110.7
C5' C4' H4' 105.0 110.5
H5' C5' H5'' 109.6 109.4
O4' C4' C3' 105.8 103.6
O4' C4' H4' 104.3 110.5
C4' O4' C1' 108.5 106.9
C3' C4' H4' 111.6 110.6
C4' C3' C2' 102.0 102.1
C4' C3' O3' 107.9 110.9
C4' C3' H3' 109.3 110.9
O4' C1' N1 105.9 109.9
O4' C1' C2' 104.3 107.4
O4' C1' H1' 111.7 109.9
N1 C1' C2' 110.1 109.9
N1 C1' H1' 112.3 109.9
C1' N1 C6 117.8 119.8
C1' N1 C2 121.1 119.8
C2' C1' H1' 112.1 109.9
C1' C2' C3' 106.5 104.2
C1' C2' H2' 108.8 110.5
C1' C2' H2'' 108.0 110.5
C6 N1 C2 121.1 120.4
N1 C6 C5 121.6 119.3
N1 C6 H6 114.2 120.3
N1 C2 N3 118.1 121.2
N1 C2 N2 123.2 119.4
C5 C6 H6 124.2 120.4
C6 C5 C4 118.4 118.9
C6 C5 C5M 121.7 120.6
O4 C4 N3 120.4 120.3
O4 C4 C5 123.6 120.2
N3 C4 C5 116.0 119.5
C4 N3 C2 124.5 120.7
C4 C5 C5M 119.9 120.5
N3 C2 N2 118.7 119.4
C2 N2 HN21 120.4 120.0
C2 N2 HN22 122.0 120.0
HN21 N2 HN22 117.5 120.0
C5 C5M H71 109.4 109.4
C5 C5M H72 110.4 109.5
C5 C5M H73 111.3 109.5
H71 C5M H72 107.8 109.5
H71 C5M H73 108.0 109.4
H72 C5M H73 109.8 109.5
C3' C2' H2' 118.7 110.5
C3' C2' H2'' 108.4 110.5
C2' C3' O3' 118.4 110.9
C2' C3' H3' 110.5 110.9
H2' C2' H2'' 106.1 110.5
O3' C3' H3' 108.3 110.7
C3' O3' HO3' 107.9 106.8

Torsion Angles for IMC

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 OP3 124.3 119.9
OP2 P OP1 O5' 235.9 240.0
OP1 P OP2 HOP2 180.0 300.0
OP3 P OP1 O5' 111.6 120.1
OP1 P OP3 HOP3 180.0 180.0
OP1 P O5' C5' 44.3 60.0
OP1 P OP2 OP3 235.8 240.1
OP1 P OP2 O5' 124.5 120.0
OP3 P OP2 O5' 248.8 240.0
OP2 P OP3 HOP3 49.1 60.1
OP2 P O5' C5' 175.3 180.0
OP1 P OP3 OP2 130.9 119.9
OP1 P OP3 O5' 245.0 240.0
OP2 P OP3 O5' 114.1 120.0
OP3 P OP2 HOP2 304.2 60.0
OP3 P O5' C5' 289.7 300.0
OP1 P O5' OP2 229.0 240.0
OP1 P O5' OP3 114.6 120.0
OP2 P O5' OP3 245.6 240.0
O5' P OP2 HOP2 55.5 180.0
O5' P OP3 HOP3 295.0 300.0
P O5' C5' C4' 153.5 180.0
P O5' C5' H5' 34.2 60.0
P O5' C5' H5'' 276.2 300.0
HOP2 OP2 P OP3 304.2 60.0
HOP2 OP2 P O5' 55.5 180.0
HOP3 OP3 P O5' 295.0 300.0
C4' C5' O5' H5' 119.3 120.0
C4' C5' O5' H5'' 237.3 240.0
O5' C5' C4' O4' 313.0 65.7
O5' C5' C4' C3' 76.0 180.0
O5' C5' C4' H4' 199.6 302.9
H5' C5' O5' H5'' 117.9 120.0
O5' C5' C4' H5' 240.2 240.0
O5' C5' C4' H5'' 122.8 120.1
H5' C5' C4' H5'' 242.6 240.1
O4' C4' C5' C3' 236.9 245.7
O4' C4' C5' H4' 113.3 122.8
C5' C4' O4' C1' 166.8 158.6
C3' C4' C5' H4' 236.4 237.1
C5' C4' C3' C2' 204.0 204.3
C5' C4' C3' O3' 78.5 86.1
C5' C4' C3' H3' 321.0 322.6
O5' C5' H5' C4' 127.0 120.1
O5' C5' H5' H5'' 243.1 239.9
C4' C5' H5' H5'' 116.2 119.9
H5' C5' C4' O4' 72.8 185.8
H5' C5' C4' C3' 195.9 300.1
H5' C5' C4' H4' 319.5 63.0
O5' C5' H5'' C4' 231.1 239.9
O5' C5' H5'' H5' 116.2 120.0
C4' C5' H5'' H5' 245.0 240.1
H5'' C5' C4' O4' 190.2 305.6
H5'' C5' C4' C3' 313.2 59.9
H5'' C5' C4' H4' 76.8 182.8
O4' C4' C5' H5' 72.8 185.8
O4' C4' C5' H5'' 190.2 305.6
C5' C4' O4' C3' 128.5 118.7
C5' C4' O4' H4' 246.2 237.2
C3' C4' O4' H4' 117.8 118.5
O4' C4' C3' C2' 331.1 323.1
O4' C4' C3' O3' 205.7 204.8
O4' C4' C3' H3' 88.1 81.3
C4' O4' C1' N1 213.5 214.2
C4' O4' C1' C2' 329.8 333.7
C4' O4' C1' H1' 91.0 93.1
C3' C4' C5' H5' 195.9 300.1
C3' C4' C5' H5'' 313.2 59.9
C5' C4' C3' O4' 232.9 241.2
C5' C4' C3' H4' 120.1 122.9
O4' C4' C3' H4' 247.2 241.6
C3' C4' O4' C1' 38.3 39.9
C1' C2' C3' C4' 10.7 20.9
C4' C3' C2' H2' 247.6 262.2
C4' C3' C2' H2'' 126.7 139.5
C2' C3' C4' O3' 125.5 118.3
C2' C3' C4' H3' 243.0 241.8
O3' C3' C4' H3' 117.6 123.5
C4' C3' O3' HO3' 180.0 174.2
H4' C4' C5' H5' 319.5 63.0
H4' C4' C5' H5'' 76.8 182.8
C5' C4' H4' O4' 119.9 122.9
C5' C4' H4' C3' 233.6 237.0
O4' C4' H4' C3' 113.7 114.1
H4' C4' O4' C1' 280.6 281.4
H4' C4' C3' C2' 83.9 81.5
H4' C4' C3' O3' 318.4 323.2
H4' C4' C3' H3' 200.9 199.7
C1' O4' C4' C3' 38.3 39.9
C1' O4' C4' H4' 280.6 281.4
N1 C1' O4' C2' 243.8 240.5
N1 C1' O4' H1' 122.5 121.0
O4' C1' N1 C6 40.9 23.3
O4' C1' N1 C2 221.9 203.3
C2' C1' O4' H1' 238.8 240.5
O4' C1' C2' C3' 10.7 2.0
O4' C1' C2' H2' 139.7 120.7
O4' C1' C2' H2'' 254.4 243.3
O4' C1' N1 C2' 112.2 118.0
O4' C1' N1 H1' 237.9 239.0
C2' C1' N1 H1' 125.7 121.0
N1 C1' C2' C3' 123.8 121.5
N1 C1' C2' H2' 252.9 240.2
N1 C1' C2' H2'' 7.6 2.8
C6 N1 C1' C2 179.0 180.0
C1' N1 C6 C5 187.4 180.0
C1' N1 C6 H6 7.6 0.1
C1' N1 C2 N3 175.5 180.0
C1' N1 C2 N2 355.9 0.0
C4' C3' C2' C1' 10.7 20.9
O4' C1' C2' N1 246.8 240.5
O4' C1' C2' H1' 121.0 119.5
N1 C1' C2' H1' 234.1 239.0
C2' C1' N1 C6 288.7 265.3
C2' C1' N1 C2 109.7 85.3
C3' C2' C1' H2' 231.0 241.3
C3' C2' C1' H2'' 116.3 118.7
C1' C2' C3' O3' 128.8 139.1
C1' C2' C3' H3' 254.6 262.7
H2' C2' C1' H2'' 245.3 237.4
O4' C1' H1' N1 118.7 121.0
O4' C1' H1' C2' 243.4 242.1
N1 C1' H1' C2' 124.7 121.0
H1' C1' N1 C6 163.0 144.3
H1' C1' N1 C2 344.0 324.3
H1' C1' C2' C3' 249.7 242.5
H1' C1' C2' H2' 18.7 1.2
H1' C1' C2' H2'' 133.4 123.8
C6 N1 C1' C2' 288.7 265.3
C6 N1 C1' H1' 163.0 144.3
C1' N1 C6 C2 181.0 180.0
C6 N1 C2 N3 356.6 0.0
C6 N1 C2 N2 177.0 180.0
C5 C6 N1 H6 179.8 179.9
N1 C6 C5 C4 356.2 0.2
N1 C6 C5 C5M 175.4 180.0
C2 N1 C1' C2' 109.7 85.3
C2 N1 C1' H1' 344.0 324.3
C1' N1 C2 C6 178.9 180.0
C2 N1 C6 C5 6.4 360.0
C2 N1 C6 H6 186.6 180.1
C4 N3 C2 N1 357.9 359.7
N3 C2 N1 N2 179.6 180.0
N1 C2 N2 HN21 4.0 184.7
N1 C2 N2 HN22 185.1 4.6
C5 C6 N1 C2 6.4 360.0
N1 C6 C5 H6 180.2 180.1
O4 C4 C5 C6 177.4 180.0
N3 C4 C5 C6 358.7 359.5
C4 C5 C6 C5M 180.8 180.2
C6 C5 C5M H71 182.9 179.9
C6 C5 C5M H72 301.3 300.0
C6 C5 C5M H73 63.6 60.0
H6 C6 N1 C2 186.6 180.1
N1 C6 H6 C5 179.8 179.9
H6 C6 C5 C4 175.9 180.2
H6 C6 C5 C5M 355.2 360.0
C6 C5 C4 O4 177.4 180.0
N3 C4 O4 C5 178.6 180.5
O4 C4 N3 C2 185.6 180.0
O4 C4 C5 C5M 358.1 0.2
N1 C2 N3 C4 357.9 359.7
C6 C5 C4 N3 358.7 359.5
O4 C4 N3 C5 181.3 179.5
N3 C4 C5 C5M 179.5 179.7
C4 N3 C2 N2 177.6 179.7
C4 C5 C6 H6 175.9 180.2
C6 C5 C4 C5M 179.3 179.8
O4 C4 C5 N3 178.7 180.5
C5 C4 N3 C2 4.3 0.6
C4 C5 C5M H71 2.1 359.7
C4 C5 C5M H72 120.6 119.8
C4 C5 C5M H73 242.8 239.8
N1 C2 N3 N2 180.3 180.0
C2 N3 C4 C5 4.3 0.6
N3 C2 N2 HN21 184.3 4.8
N3 C2 N2 HN22 5.4 184.7
N1 C2 N2 N3 179.6 180.0
HN21 N2 C2 HN22 178.9 180.1
C2 N2 HN21 HN22 181.0 179.9
C2 N2 HN22 HN21 178.9 180.1
C5M C5 C6 H6 355.2 360.0
C6 C5 C5M C4 180.8 180.2
H71 C5M C5 H72 241.6 240.0
H71 C5M C5 H73 119.3 119.9
H72 C5M C5 H73 237.8 240.0
C5 C5M H71 H72 120.0 120.0
C5 C5M H71 H73 238.7 240.1
H72 C5M H71 H73 118.6 120.0
C5 C5M H72 H71 240.6 240.0
C5 C5M H72 H73 123.1 120.0
H71 C5M H72 H73 242.5 240.0
C5 C5M H73 H71 120.2 119.9
C5 C5M H73 H72 237.5 240.0
H71 C5M H73 H72 117.3 120.1
C2' C3' C4' H4' 83.9 81.5
C4' C3' C2' O3' 241.8 241.7
C4' C3' C2' H3' 116.1 118.2
C3' C2' C1' H1' 249.7 242.5
C1' C2' C3' H2' 123.0 118.7
C1' C2' C3' H2'' 244.0 241.3
H2' C2' C3' H2'' 121.0 122.6
O3' C3' C2' H3' 234.3 236.5
C2' C3' O3' HO3' 64.9 61.4
H2' C2' C1' H1' 18.7 1.2
C1' C2' H2' C3' 238.1 245.2
C1' C2' H2' H2'' 116.0 122.6
C3' C2' H2' H2'' 237.8 237.4
H2' C2' C3' O3' 5.8 20.4
H2' C2' C3' H3' 131.5 144.0
H2'' C2' C1' H1' 133.4 123.8
C1' C2' H2'' C3' 115.0 114.8
C1' C2' H2'' H2' 243.5 237.4
C3' C2' H2'' H2' 128.5 122.7
H2'' C2' C3' O3' 244.9 257.8
H2'' C2' C3' H3' 10.6 21.3
O3' C3' C4' H4' 318.4 323.2
C4' C3' O3' C2' 115.0 112.8
C4' C3' O3' H3' 241.8 236.4
O3' C3' C2' H2' 5.8 20.4
O3' C3' C2' H2'' 244.9 257.8
C2' C3' O3' H3' 126.8 123.6
H3' C3' C4' H4' 200.9 199.7
C4' C3' H3' C2' 248.6 247.3
C4' C3' H3' O3' 117.3 123.6
H3' C3' C2' H2' 131.5 144.0
H3' C3' C2' H2'' 10.6 21.3
C2' C3' H3' O3' 228.8 236.4
H3' C3' O3' HO3' 298.2 297.8
HO3' O3' C3' H3' 298.2 297.8