PDB Chemical Component NUP

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 NUP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O4 C4 1.231 1.219
C4 N2 1.334 1.349
C4 C5 1.398 1.404
N2 C2 1.341 1.346
N2 HN2 1.000 0.969
C2 O2 1.246 1.216
C2 N1 1.413 1.345
C5 C6 1.383 1.367
C5 H5 1.080 1.079
C6 N1 1.415 1.374
C6 N3 1.341 1.371
N3 HN31 1.000 0.969
N3 HN32 1.000 0.971
N1 C1' 1.470 1.465
C1' C2' 1.533 1.551
C1' O4' 1.438 1.443
C1' H1' 1.100 1.090
O4' C4' 1.421 1.438
C2' O2' 1.439 1.429
C2' C3' 1.515 1.547
C2' H2' 1.100 1.090
O2' HO2' 0.950 0.967
C3' O3' 1.437 1.429
C3' C4' 1.530 1.541
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.967
C4' C5' 1.532 1.530
C4' H4' 1.100 1.090
C5' O5' 1.427 1.429
C5' H5'1 1.100 1.090
C5' H5'2 1.099 1.090
O5' P 1.619 1.610
P O1P 1.494 1.480
P O2P 1.512 1.610
P O3P 1.521 1.610
O2P HO2P 0.950 0.967
O3P HO3P 0.950 0.967

Bond Angles for NUP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O4 C4 N2 116.1 120.2
O4 C4 C5 120.6 120.2
N2 C4 C5 123.3 119.6
C4 N2 C2 121.3 120.5
C4 N2 HN2 119.3 119.8
C4 C5 C6 116.3 119.1
C4 C5 H5 121.8 120.4
C2 N2 HN2 119.4 119.7
N2 C2 O2 118.7 119.5
N2 C2 N1 119.7 121.0
O2 C2 N1 121.6 119.5
C2 N1 C6 118.2 120.4
C2 N1 C1' 119.9 119.8
C6 C5 H5 121.8 120.5
C5 C6 N1 121.1 119.4
C5 C6 N3 117.4 120.3
N3 C6 N1 121.5 120.3
C6 N1 C1' 121.8 119.8
C6 N3 HN31 109.5 120.0
C6 N3 HN32 109.5 120.0
HN31 N3 HN32 109.5 120.0
N1 C1' C2' 114.5 110.6
N1 C1' O4' 109.7 110.7
N1 C1' H1' 104.9 110.5
O4' C1' C2' 106.6 103.5
C2' C1' H1' 108.2 110.6
C1' C2' O2' 118.0 110.9
C1' C2' C3' 100.3 102.1
C1' C2' H2' 111.3 110.8
O4' C1' H1' 113.1 110.8
C1' O4' C4' 110.8 107.0
O4' C4' C3' 104.8 107.3
O4' C4' C5' 111.2 109.9
O4' C4' H4' 112.7 109.9
O2' C2' C3' 112.3 111.0
O2' C2' H2' 98.9 110.8
C2' O2' HO2' 109.5 114.0
C3' C2' H2' 117.0 111.0
C2' C3' O3' 108.8 110.5
C2' C3' C4' 104.2 104.2
C2' C3' H3' 113.7 110.5
O3' C3' C4' 110.5 110.4
O3' C3' H3' 107.7 110.4
C3' O3' HO3' 109.5 114.0
C4' C3' H3' 112.0 110.6
C3' C4' C5' 112.9 109.9
C3' C4' H4' 111.0 109.9
C5' C4' H4' 104.5 110.0
C4' C5' O5' 107.5 109.5
C4' C5' H5'1 110.1 109.5
C4' C5' H5'2 110.6 109.5
O5' C5' H5'1 110.1 109.4
O5' C5' H5'2 110.6 109.5
C5' O5' P 123.8 123.0
H5'1 C5' H5'2 108.0 109.5
O5' P O1P 100.4 109.5
O5' P O2P 104.9 109.5
O5' P O3P 104.1 109.4
O1P P O2P 118.9 109.5
O1P P O3P 111.5 109.5
O2P P O3P 114.4 109.5
P O2P HO2P 109.5 114.0
P O3P HO3P 109.5 113.9

Torsion Angles for NUP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
N2 C4 O4 C5 180.9 180.2
O4 C4 N2 C2 179.8 180.0
O4 C4 N2 HN2 359.8 360.0
O4 C4 C5 C6 179.9 180.0
O4 C4 C5 H5 359.9 0.0
O4 C4 N2 C5 179.1 179.8
N2 C4 C5 C6 359.0 359.8
N2 C4 C5 H5 179.0 179.8
C2 N2 C4 HN2 180.0 180.0
C4 N2 C2 O2 180.7 180.0
C4 N2 C2 N1 0.3 360.0
O4 C4 C5 N2 181.0 180.2
C5 C4 N2 C2 0.7 0.3
C5 C4 N2 HN2 180.7 180.2
C6 C5 C4 H5 180.0 180.0
C4 C5 C6 N1 0.2 360.0
C4 C5 C6 N3 179.4 180.1
C2 N2 C4 C5 0.7 0.3
C4 N2 C2 HN2 180.0 180.0
O2 C2 N2 N1 180.3 180.0
N2 C2 N1 C6 358.9 359.8
N2 C2 N1 C1' 180.5 180.0
HN2 N2 C4 C5 180.7 180.2
C4 N2 HN2 C2 180.0 180.0
HN2 N2 C2 O2 0.7 0.0
HN2 N2 C2 N1 180.4 180.0
O2 C2 N2 HN2 0.7 0.0
N2 C2 O2 N1 179.7 180.0
O2 C2 N1 C6 178.6 179.7
O2 C2 N1 C1' 0.2 0.0
N1 C2 N2 HN2 180.4 180.0
N2 C2 N1 O2 180.3 180.0
C5 C6 N1 C2 0.8 0.3
N3 C6 N1 C2 181.6 180.2
C6 N1 C2 C1' 178.4 179.7
C2 N1 C1' C2' 307.9 291.7
C2 N1 C1' O4' 67.7 45.8
C2 N1 C1' H1' 189.5 168.9
C4 C5 C6 H5 180.0 180.0
C2 N1 C6 C5 0.8 0.3
N3 C6 C5 N1 179.2 180.1
C5 C6 N1 C1' 179.2 180.0
C5 C6 N3 HN31 117.3 352.7
C5 C6 N3 HN32 237.3 172.6
C4 C5 H5 C6 180.0 180.0
H5 C5 C6 N1 180.3 179.9
H5 C5 C6 N3 359.5 0.0
C2 N1 C6 C1' 181.6 180.3
N1 C6 C5 H5 180.3 179.9
C5 C6 N1 N3 179.2 180.1
N1 C6 N3 HN31 296.5 172.8
N1 C6 N3 HN32 56.5 352.7
C6 N1 C1' C2' 129.5 112.0
C6 N1 C1' O4' 249.3 226.1
C6 N1 C1' H1' 11.1 349.2
C2 N1 C6 N3 181.6 180.2
N3 C6 C5 H5 359.5 0.0
C5 C6 N3 N1 180.8 179.9
N3 C6 N1 C1' 0.0 359.9
HN31 N3 C6 HN32 240.0 180.0
HN31 N3 C6 N1 296.5 172.8
C6 N3 HN31 HN32 120.0 180.0
HN32 N3 C6 N1 56.5 352.7
C6 N3 HN32 HN31 239.9 180.0
C2 N1 C1' C6 178.4 179.7
O4' C1' N1 C2' 119.8 114.1
C2' C1' N1 H1' 118.4 122.8
N1 C1' C2' O2' 273.8 273.8
N1 C1' C2' C3' 151.6 155.5
N1 C1' C2' H2' 27.1 37.3
O4' C1' N1 H1' 238.3 236.9
N1 C1' O4' C4' 223.1 201.4
N1 C1' C2' O4' 121.5 118.6
N1 C1' C2' H1' 243.4 237.2
O4' C1' C2' H1' 121.9 118.7
C2' C1' O4' C4' 347.6 320.0
O2' C2' C1' C3' 122.2 118.2
O2' C2' C1' H2' 246.7 236.5
C1' C2' O2' HO2' 44.3 180.0
C3' C2' C1' H2' 124.5 118.3
C1' C2' C3' O3' 82.0 97.8
C1' C2' C3' C4' 324.1 339.2
C1' C2' C3' H3' 201.9 220.3
N1 C1' O4' C2' 235.5 241.5
N1 C1' O4' H1' 116.8 123.0
C2' C1' O4' H1' 241.3 241.5
O4' C1' C2' O2' 152.3 155.2
O4' C1' C2' C3' 30.0 37.0
O4' C1' C2' H2' 265.5 278.7
C1' O4' C4' C3' 349.1 26.5
C1' O4' C4' C5' 111.4 145.9
C1' O4' C4' H4' 228.4 267.0
N1 C1' H1' C2' 122.6 122.8
N1 C1' H1' O4' 240.5 237.0
O4' C1' H1' C2' 242.2 245.9
H1' C1' C2' O2' 30.4 36.6
H1' C1' C2' C3' 268.2 278.3
H1' C1' C2' H2' 143.7 160.1
H1' C1' O4' C4' 106.3 78.5
C4' O4' C1' C2' 347.6 320.0
C4' O4' C1' H1' 106.3 78.5
C2' C3' C4' O4' 30.1 358.0
O3' C3' C4' O4' 273.4 239.3
O4' C4' C3' H3' 153.3 116.8
C3' C4' O4' C5' 237.7 240.6
C3' C4' O4' H4' 120.7 119.5
C5' C4' O4' H4' 243.1 238.9
O4' C4' C5' O5' 172.6 66.5
O4' C4' C5' H5'1 292.6 186.4
O4' C4' C5' H5'2 51.8 306.5
O2' C2' C1' H1' 30.4 36.6
C1' C2' O2' C3' 244.1 247.3
C1' C2' O2' H2' 119.9 123.5
C3' C2' O2' H2' 235.8 236.2
O2' C2' C3' O3' 315.9 339.6
O2' C2' C3' C4' 198.0 221.0
O2' C2' C3' H3' 75.8 102.1
C3' C2' C1' H1' 268.2 278.3
C1' C2' C3' O2' 126.1 118.2
C1' C2' C3' H2' 239.6 241.9
O4' C4' C3' C2' 30.1 358.0
O2' C2' C3' H2' 113.5 123.7
C3' C2' O2' HO2' 160.2 292.7
O3' C3' C2' C4' 117.9 118.6
O3' C3' C2' H3' 240.1 237.5
C2' C3' O3' HO3' 87.4 61.5
C4' C3' C2' H3' 122.2 118.9
C2' C3' C4' C5' 268.9 238.6
C2' C3' C4' H4' 151.9 117.4
H2' C2' C1' H1' 143.7 160.1
C1' C2' H2' O2' 235.2 236.5
C1' C2' H2' C3' 114.4 112.7
O2' C2' H2' C3' 239.2 236.2
H2' C2' O2' HO2' 284.4 56.5
H2' C2' C3' O3' 202.4 215.9
H2' C2' C3' C4' 84.5 97.3
H2' C2' C3' H3' 322.3 338.5
HO2' O2' C2' C3' 160.2 292.7
HO2' O2' C2' H2' 284.4 56.5
O4' C4' C3' O3' 273.4 239.3
O3' C3' C2' H2' 202.4 215.9
C2' C3' O3' C4' 246.2 245.2
C2' C3' O3' H3' 123.6 122.6
C4' C3' O3' H3' 237.4 237.4
O3' C3' C4' C5' 152.2 119.9
O3' C3' C4' H4' 35.2 358.7
O4' C4' C3' C5' 121.2 119.4
O4' C4' C3' H4' 238.1 240.5
C4' C3' C2' H2' 84.5 97.3
C2' C3' C4' O3' 116.7 118.7
C2' C3' C4' H3' 236.7 241.2
O3' C3' C4' H3' 120.1 122.5
C4' C3' O3' HO3' 201.2 176.2
C5' C4' C3' H4' 117.0 121.2
C3' C4' C5' O5' 290.1 184.3
C3' C4' C5' H5'1 50.1 304.2
C3' C4' C5' H5'2 169.3 64.3
H3' C3' C2' H2' 322.3 338.5
C2' C3' H3' O3' 239.5 237.4
C2' C3' H3' C4' 117.7 114.9
O3' C3' H3' C4' 238.3 237.5
H3' C3' O3' HO3' 323.8 298.9
H3' C3' C4' C5' 32.2 357.4
H3' C3' C4' H4' 275.2 236.2
HO3' O3' C3' C4' 201.2 176.2
HO3' O3' C3' H3' 323.8 298.9
O4' C4' C5' C3' 242.5 242.2
O4' C4' C5' H4' 121.8 121.1
C5' C4' C3' H3' 32.2 357.4
C3' C4' C5' H4' 239.3 238.9
O5' C5' C4' H5'1 240.0 240.1
O5' C5' C4' H5'2 120.8 120.0
C4' C5' O5' P 180.2 180.0
H5'1 C5' C4' H5'2 240.8 239.9
O4' C4' H4' C3' 117.1 117.8
O4' C4' H4' C5' 239.1 238.9
H4' C4' C3' H3' 275.2 236.2
C3' C4' H4' C5' 122.0 121.1
H4' C4' C5' O5' 50.8 305.4
H4' C4' C5' H5'1 170.8 65.3
H4' C4' C5' H5'2 290.0 185.4
O5' C5' C4' H4' 50.8 305.4
C4' C5' O5' H5'1 120.0 120.0
C4' C5' O5' H5'2 239.2 240.0
H5'1 C5' O5' H5'2 119.3 120.0
C5' O5' P O1P 197.4 305.0
C5' O5' P O2P 321.3 65.0
C5' O5' P O3P 81.9 185.0
H5'1 C5' C4' H4' 170.8 65.3
C4' C5' H5'1 O5' 241.6 240.0
C4' C5' H5'1 H5'2 120.8 120.0
O5' C5' H5'1 H5'2 239.1 240.0
H5'1 C5' O5' P 60.3 60.0
H5'2 C5' C4' H4' 290.0 185.4
C4' C5' H5'2 O5' 118.9 120.0
C4' C5' H5'2 H5'1 239.5 240.0
O5' C5' H5'2 H5'1 120.6 120.0
H5'2 C5' O5' P 301.0 300.0
P O5' C5' H5'1 60.3 60.0
P O5' C5' H5'2 301.0 300.0
O1P P O5' O2P 236.1 240.0
O1P P O5' O3P 115.5 120.0
O2P P O5' O3P 239.5 240.0
O5' P O2P HO2P 89.7 60.0
O5' P O3P HO3P 114.0 180.0
O5' P O1P O2P 113.6 120.0
O5' P O1P O3P 250.2 240.0
O2P P O1P O3P 136.6 120.0
O1P P O2P HO2P 200.9 180.0
O1P P O3P HO3P 6.6 60.0
O5' P O2P O1P 248.8 240.0
O5' P O2P O3P 113.4 120.0
O1P P O2P O3P 224.6 240.0
O2P P O3P HO3P 227.9 300.0
O5' P O3P O1P 107.4 120.0
O5' P O3P O2P 246.1 240.0
O1P P O3P O2P 138.7 120.0
O3P P O2P HO2P 336.3 300.0
HO2P O2P P O3P 336.3 300.0