PDB Chemical Component NEC

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 NEC

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C5' O5' 1.415 1.213
C5' N5' 1.430 1.348
C5' C4' 1.503 1.507
N5' C51 1.443 1.465
N5' HN5 1.020 0.969
C51 C52 1.527 1.530
C51 H511 1.115 1.089
C51 H512 1.115 1.090
C52 H521 1.115 1.090
C52 H522 1.115 1.089
C52 H523 1.114 1.091
C4' O4' 1.427 1.443
C4' C3' 1.521 1.550
C4' H4' 1.115 1.090
O4' C1' 1.429 1.436
C3' O3' 1.408 1.429
C3' C2' 1.511 1.549
C3' H3' 1.115 1.090
O3' HO3' 0.950 0.968
C2' O2' 1.415 1.429
C2' C1' 1.539 1.540
C2' H2' 1.116 1.090
O2' HO2' 0.951 0.967
C1' N9 1.468 1.464
C1' H1' 1.115 1.090
N9 C8 1.373 1.362
N9 C4 1.374 1.372
C8 N7 1.308 1.302
C8 H8 1.102 1.080
N7 C5 1.398 1.355
C5 C6 1.414 1.405
C5 C4 1.378 1.404
C6 N6 1.339 1.384
C6 N1 1.352 1.328
N6 HN61 1.020 0.970
N6 HN62 1.020 0.970
N1 C2 1.335 1.320
C2 N3 1.335 1.317
C2 H2 1.103 1.080
N3 C4 1.362 1.329

Bond Angles for NEC

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O5' C5' N5' 120.4 120.0
O5' C5' C4' 121.1 120.0
N5' C5' C4' 118.5 120.0
C5' N5' C51 119.0 120.0
C5' N5' HN5 120.1 120.0
C5' C4' O4' 111.1 110.6
C5' C4' C3' 111.7 110.6
C5' C4' H4' 105.8 110.6
C51 N5' HN5 120.9 120.0
N5' C51 C52 108.7 109.5
N5' C51 H511 112.5 109.6
N5' C51 H512 112.5 109.5
C52 C51 H511 112.5 109.4
C52 C51 H512 112.5 109.5
C51 C52 H521 108.7 109.5
C51 C52 H522 112.4 109.5
C51 C52 H523 112.5 109.5
H511 C51 H512 97.9 109.4
H521 C52 H522 112.5 109.4
H521 C52 H523 112.5 109.4
H522 C52 H523 98.0 109.5
O4' C4' C3' 106.0 103.6
O4' C4' H4' 111.5 110.6
C4' O4' C1' 110.0 107.0
C3' C4' H4' 110.9 110.6
C4' C3' O3' 113.3 111.1
C4' C3' C2' 101.3 102.0
C4' C3' H3' 113.6 110.7
O4' C1' C2' 104.6 107.3
O4' C1' N9 110.7 109.9
O4' C1' H1' 113.0 109.9
O3' C3' C2' 112.7 110.9
O3' C3' H3' 102.3 110.8
C3' O3' HO3' 113.3 106.8
C2' C3' H3' 114.1 111.0
C3' C2' O2' 108.6 110.5
C3' C2' C1' 100.9 104.2
C3' C2' H2' 116.0 110.5
O2' C2' C1' 111.3 110.5
O2' C2' H2' 106.4 110.5
C2' O2' HO2' 108.6 106.7
C1' C2' H2' 113.6 110.5
C2' C1' N9 112.5 110.0
C2' C1' H1' 111.1 109.8
N9 C1' H1' 105.1 109.9
C1' N9 C8 126.7 126.3
C1' N9 C4 125.6 126.3
C8 N9 C4 107.6 107.4
N9 C8 N7 112.2 110.0
N9 C8 H8 125.9 125.0
N9 C4 C5 104.7 106.1
N9 C4 N3 128.8 134.9
N7 C8 H8 121.8 125.0
C8 N7 C5 104.5 109.4
N7 C5 C6 132.6 134.7
N7 C5 C4 110.9 107.1
C6 C5 C4 116.5 118.2
C5 C6 N6 122.5 120.8
C5 C6 N1 118.4 118.5
C5 C4 N3 126.5 119.0
N6 C6 N1 119.1 120.8
C6 N6 HN61 122.4 120.0
C6 N6 HN62 107.6 120.0
C6 N1 C2 118.7 121.2
HN61 N6 HN62 107.6 120.0
N1 C2 N3 128.8 122.5
N1 C2 H2 115.6 118.8
N3 C2 H2 115.6 118.7
C2 N3 C4 111.1 120.6

Torsion Angles for NEC

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
N5' C5' O5' C4' 181.6 180.1
O5' C5' N5' C51 292.0 360.0
O5' C5' N5' HN5 112.0 180.0
O5' C5' C4' O4' 4.6 3.7
O5' C5' C4' C3' 122.8 117.9
O5' C5' C4' H4' 243.5 240.7
O5' C5' N5' C4' 178.4 179.9
N5' C5' C4' O4' 183.1 183.6
N5' C5' C4' C3' 301.2 297.8
N5' C5' C4' H4' 61.9 60.7
C51 N5' C5' HN5 179.9 180.0
C5' N5' C51 C52 80.2 180.0
C5' N5' C51 H511 205.5 60.0
C5' N5' C51 H512 315.0 300.0
O5' C5' C4' N5' 181.6 180.1
C4' C5' N5' C51 113.5 180.1
C4' C5' N5' HN5 293.6 0.0
O4' C4' C5' C3' 241.8 245.8
O4' C4' C5' H4' 121.1 122.9
C5' C4' O4' C1' 131.5 158.5
C3' C4' C5' H4' 239.3 237.1
C5' C4' C3' O3' 85.8 86.3
C5' C4' C3' C2' 206.7 204.6
C5' C4' C3' H3' 329.6 322.7
C51 N5' C5' C4' 113.5 180.1
C5' N5' C51 HN5 180.1 180.0
C52 C51 N5' H511 234.7 120.0
C52 C51 N5' H512 125.3 240.0
N5' C51 C52 H521 180.0 179.9
N5' C51 C52 H522 305.2 299.9
N5' C51 C52 H523 54.7 60.0
H511 C51 N5' H512 250.6 120.0
HN5 N5' C5' C4' 293.6 0.0
C5' N5' HN5 C51 179.9 180.0
HN5 N5' C51 C52 260.2 0.1
HN5 N5' C51 H511 25.5 240.0
HN5 N5' C51 H512 134.9 120.0
C52 C51 N5' HN5 260.2 0.1
N5' C51 C52 H511 125.3 239.9
N5' C51 C52 H512 234.7 120.0
H511 C51 C52 H512 109.4 240.1
H521 C52 C51 H522 234.8 240.0
H521 C52 C51 H523 125.3 120.0
H522 C52 C51 H523 250.5 240.0
H511 C51 N5' HN5 25.5 240.0
N5' C51 H511 C52 236.8 120.0
N5' C51 H511 H512 118.4 240.0
C52 C51 H511 H512 241.6 119.9
H511 C51 C52 H521 54.7 300.0
H511 C51 C52 H522 179.9 60.0
H511 C51 C52 H523 289.4 180.1
H512 C51 N5' HN5 134.9 120.0
N5' C51 H512 C52 123.2 240.0
N5' C51 H512 H511 241.6 120.1
C52 C51 H512 H511 118.4 240.1
H512 C51 C52 H521 305.3 59.9
H512 C51 C52 H522 70.5 180.0
H512 C51 C52 H523 180.0 300.0
H521 C52 C51 H511 54.7 300.0
H521 C52 C51 H512 305.3 59.9
C51 C52 H521 H522 125.2 120.1
C51 C52 H521 H523 234.8 240.0
H522 C52 H521 H523 109.6 119.9
H522 C52 C51 H511 179.9 60.0
H522 C52 C51 H512 70.5 180.0
C51 C52 H522 H521 236.9 239.9
C51 C52 H522 H523 118.4 120.0
H521 C52 H522 H523 241.5 240.1
H523 C52 C51 H511 289.4 180.1
H523 C52 C51 H512 180.0 300.0
C51 C52 H523 H521 123.2 120.0
C51 C52 H523 H522 241.6 239.9
H521 C52 H523 H522 118.5 119.9
C5' C4' O4' C3' 121.6 118.5
C5' C4' O4' H4' 242.3 237.1
C3' C4' O4' H4' 120.7 118.6
O4' C4' C3' O3' 207.0 204.9
O4' C4' C3' C2' 327.9 323.2
O4' C4' C3' H3' 90.8 81.3
C4' O4' C1' C2' 16.2 333.5
C4' O4' C1' N9 254.7 213.9
C4' O4' C1' H1' 137.1 92.9
C5' C4' C3' O4' 238.8 241.4
C5' C4' C3' H4' 117.7 122.9
O4' C4' C3' H4' 238.9 241.4
C3' C4' O4' C1' 9.9 40.0
O3' C3' C4' C2' 239.0 241.7
O3' C3' C4' H3' 116.2 123.6
C4' C3' O3' HO3' 180.0 292.7
C2' C3' C4' H3' 237.2 241.9
C4' C3' C2' O2' 283.1 262.0
C4' C3' C2' C1' 40.2 20.7
C4' C3' C2' H2' 163.3 139.4
C5' C4' H4' O4' 120.9 122.9
C5' C4' H4' C3' 238.7 237.1
O4' C4' H4' C3' 117.8 114.2
H4' C4' O4' C1' 249.2 281.4
H4' C4' C3' O3' 328.1 323.5
H4' C4' C3' C2' 89.0 81.7
H4' C4' C3' H3' 211.9 199.9
C1' O4' C4' C3' 9.9 40.0
C1' O4' C4' H4' 249.2 281.4
C3' C2' C1' O4' 324.5 2.1
O2' C2' C1' O4' 79.6 120.8
O4' C1' C2' H2' 199.6 243.4
C2' C1' O4' N9 121.5 119.6
C2' C1' O4' H1' 239.0 240.6
N9 C1' O4' H1' 117.5 121.0
O4' C1' N9 C8 0.8 28.6
O4' C1' N9 C4 182.1 208.3
O3' C3' C4' H4' 328.1 323.5
C4' C3' O3' C2' 114.3 112.7
C4' C3' O3' H3' 237.3 236.4
C2' C3' O3' H3' 123.0 123.7
O3' C3' C2' O2' 44.5 20.4
O3' C3' C2' C1' 161.5 139.1
O3' C3' C2' H2' 284.7 257.8
C2' C3' C4' H4' 89.0 81.7
C4' C3' C2' O3' 238.6 241.6
C4' C3' C2' H3' 122.5 118.0
O4' C1' C2' C3' 324.5 2.1
O3' C3' C2' H3' 243.8 236.4
C2' C3' O3' HO3' 65.7 180.0
O2' C2' C3' C1' 242.9 241.3
O2' C2' C3' H2' 119.8 122.6
C3' C2' O2' HO2' 180.0 294.8
C1' C2' C3' H2' 236.9 241.3
C3' C2' C1' N9 84.8 121.7
C3' C2' C1' H1' 202.3 242.7
H3' C3' C4' H4' 211.9 199.9
C4' C3' H3' O3' 122.5 123.8
C4' C3' H3' C2' 244.5 247.5
O3' C3' H3' C2' 122.1 123.7
H3' C3' O3' HO3' 302.7 56.3
H3' C3' C2' O2' 160.7 144.0
H3' C3' C2' C1' 277.7 262.7
H3' C3' C2' H2' 40.9 21.4
HO3' O3' C3' C2' 65.7 180.0
HO3' O3' C3' H3' 302.7 56.3
O4' C1' C2' O2' 79.6 120.8
O2' C2' C3' H3' 160.7 144.0
C3' C2' O2' C1' 110.2 114.8
C3' C2' O2' H2' 234.4 237.4
C1' C2' O2' H2' 124.2 122.6
O2' C2' C1' N9 199.8 240.4
O2' C2' C1' H1' 317.3 1.4
O4' C1' C2' N9 239.7 240.5
O4' C1' C2' H1' 122.2 119.4
C1' C2' C3' H3' 277.7 262.7
C3' C2' C1' O2' 244.9 241.3
C3' C2' C1' H2' 124.9 118.7
O2' C2' C1' H2' 239.9 237.4
C1' C2' O2' HO2' 69.9 180.0
N9 C1' C2' H1' 242.5 238.9
C2' C1' N9 C8 244.1 270.6
C2' C1' N9 C4 65.4 90.3
H2' C2' C3' H3' 40.9 21.4
C3' C2' H2' O2' 121.0 122.6
C3' C2' H2' C1' 243.8 245.2
O2' C2' H2' C1' 122.8 122.6
H2' C2' O2' HO2' 305.7 57.5
H2' C2' C1' N9 319.9 2.9
H2' C2' C1' H1' 77.4 124.0
HO2' O2' C2' C1' 69.9 180.0
HO2' O2' C2' H2' 305.7 57.5
O4' C1' N9 C2' 116.7 118.0
O4' C1' N9 H1' 237.7 239.0
N9 C1' C2' H2' 319.9 2.9
C2' C1' N9 H1' 121.0 121.0
C8 N9 C1' C4 178.7 180.3
C1' N9 C8 N7 180.5 180.0
C1' N9 C8 H8 0.5 360.0
C1' N9 C4 C5 179.6 179.9
C1' N9 C4 N3 359.6 0.7
O4' C1' H1' C2' 242.7 242.2
O4' C1' H1' N9 120.8 121.0
H1' C1' C2' H2' 77.4 124.0
C2' C1' H1' N9 238.0 238.9
H1' C1' N9 C8 123.1 149.6
H1' C1' N9 C4 304.4 329.3
C8 N9 C1' H1' 123.1 149.6
C1' N9 C8 C4 181.1 179.7
C8 N9 C4 C5 0.8 359.6
C8 N9 C4 N3 180.7 180.5
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 0.1 360.0
C4 N9 C1' H1' 304.4 329.3
C1' N9 C4 C8 178.9 180.3
C4 N9 C8 N7 359.4 0.3
C4 N9 C8 H8 179.4 180.2
N7 C5 C4 N9 359.3 0.4
C6 C5 C4 N9 179.6 180.2
C5 C4 N9 N3 180.1 179.1
C2 N3 C4 N9 180.2 179.6
N7 C8 N9 C4 359.4 0.3
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 179.9 180.0
C8 N7 C5 C4 0.4 359.8
H8 C8 N9 C4 179.4 180.2
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 180.1 180.0
N9 C4 C5 N7 359.3 0.4
C5 N7 C8 H8 180.1 180.0
C6 C5 N7 C4 179.6 180.2
N7 C5 C6 N6 0.0 0.1
N7 C5 C6 N1 180.7 179.9
N7 C5 C4 N3 179.4 179.7
N9 C4 C5 C6 179.6 180.2
N7 C5 C6 C4 180.4 179.7
C6 C5 C4 N3 359.7 359.5
N6 C6 C5 N1 179.4 180.1
C5 C6 N6 HN61 180.0 180.0
C5 C6 N6 HN62 54.8 359.9
C5 C6 N1 C2 360.0 0.1
N9 C4 C5 N3 179.9 180.7
N7 C5 C4 C6 179.7 180.2
C4 C5 C6 N6 179.6 180.3
C4 C5 C6 N1 0.2 0.2
C2 N3 C4 C5 0.1 0.6
N6 C6 C5 C4 179.6 180.3
C5 C6 N6 N1 180.6 179.9
N6 C6 N1 C2 180.6 180.0
HN61 N6 C6 HN62 125.3 180.1
N1 C6 C5 C4 0.2 0.2
C5 C6 N1 N6 179.4 180.1
N1 C6 N6 HN61 359.4 0.1
N1 C6 N6 HN62 234.1 180.0
C6 N1 C2 N3 359.8 359.9
C6 N1 C2 H2 179.8 179.9
HN61 N6 C6 N1 359.4 0.1
C6 N6 HN61 HN62 234.7 179.9
HN62 N6 C6 N1 234.1 180.0
C6 N6 HN62 HN61 133.7 180.1
N3 C2 N1 H2 180.0 180.0
N1 C2 N3 C4 0.1 359.7
N9 C4 N3 C2 180.2 179.6
C5 C4 N3 C2 0.1 0.6
N1 C2 N3 H2 180.0 180.0
N1 C2 H2 N3 180.0 180.0
H2 C2 N3 C4 180.1 179.7
N9 C4 N3 C5 180.1 179.0
C4 N3 C2 H2 180.1 179.7