PDB Chemical Component N9S

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 N9S

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O1' C1' 1.395 1.429
C1' O5' 1.435 1.429
C1' C2' 1.534 1.532
O2' C2' 1.422 1.428
O5' C5' 1.437 1.429
C2' C3' 1.527 1.532
C5' C6' 1.516 1.530
C5' C4' 1.524 1.531
C3' C4' 1.524 1.531
C3' O3' 1.424 1.429
C6' O6' 1.423 1.429
C4' O1 1.435 1.429
O1 C1 1.410 1.429
O2 C2 1.422 1.429
C1 O5 1.420 1.429
C1 C2 1.530 1.531
O5 C5 1.437 1.429
C2 C3 1.525 1.531
C5 C6 1.514 1.530
C5 C4 1.524 1.531
C3 C4 1.526 1.531
C3 O3 1.428 1.429
C6 O6 1.421 1.429
C4 O4 1.425 1.429
C1 H1 1.100 1.090
C2 H2 1.100 1.090
O2 HO2 0.950 0.967
C3 H3 1.100 1.090
O3 HO3 0.950 0.967
C4 H4 1.100 1.091
O4 HO4 0.950 0.968
C5 H5 1.100 1.090
C6 H6A 1.100 1.090
C6 H6 1.100 1.090
O6 HO6 0.950 0.967
C1' H1' 1.099 1.090
O1' HO1' 0.950 0.967
C2' H2' 1.100 1.090
O2' HO2' 0.950 0.967
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.968
C4' H4' 1.100 1.091
C5' H5' 1.100 1.090
C6' H6' 1.100 1.090
C6' H6'A 1.100 1.090
O6' HO6' 0.950 0.966

Bond Angles for N9S

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1' C1' O5' 108.5 109.5
O1' C1' H1' 110.2 109.5
O5' C1' H1' 109.6 109.5
C1' C2' H2' 107.7 109.5
O2' C2' H2' 109.1 109.6
O5' C5' H5' 110.0 109.5
C2' C3' C4' 108.4 109.1
C2' C3' O3' 109.8 109.5
C3' C2' H2' 107.7 109.5
C2' C3' H3' 109.0 109.5
C5' C6' O6' 111.7 109.5
C6' C5' H5' 108.9 109.4
C5' C6' H6' 108.9 109.5
C5' C6' H6'A 108.9 109.4
C5' C4' O1 110.1 109.5
C5' C4' H4' 108.3 109.5
C4' C3' O3' 110.3 109.6
C3' C4' O1 111.3 109.6
C4' C3' H3' 109.0 109.6
C3' C4' H4' 108.3 109.5
O3' C3' H3' 110.4 109.6
C3' O3' HO3' 109.5 114.0
O6' C6' H6' 108.9 109.5
O6' C6' H6'A 108.9 109.5
C6' O6' HO6' 109.5 114.0
C4' O1 C1 116.0 114.1
O1 C4' H4' 109.5 109.5
O1 C1 O5 111.2 109.5
O1 C1 C2 109.4 109.5
O1 C1 H1 108.4 109.5
O2 C2 H2 109.7 109.5
C2 C1 O5 112.5 109.4
C1 O5 C5 115.0 114.1
O5 C1 H1 108.3 109.5
C1 C2 C3 111.7 109.2
C2 C1 H1 106.9 109.5
C1 C2 H2 108.2 109.5
O5 C5 H5 109.5 109.5
C2 C3 C4 110.5 109.0
C2 C3 O3 111.1 109.5
C3 C2 H2 108.3 109.6
C2 C3 H3 107.5 109.5
C5 C6 O6 113.1 109.5
C6 C5 H5 108.5 109.5
C5 C6 H6A 108.6 109.5
C5 C6 H6 108.5 109.5
C5 C4 O4 110.1 109.5
C5 C4 H4 109.0 109.5
C4 C3 O3 111.4 109.5
C3 C4 O4 110.0 109.5
C4 C3 H3 107.5 109.6
C3 C4 H4 108.9 109.6
O3 C3 H3 108.8 109.6
C3 O3 HO3 109.5 114.0
O6 C6 H6A 108.5 109.5
O6 C6 H6 108.6 109.5
C6 O6 HO6 109.5 114.0
O4 C4 H4 110.3 109.5
C4 O4 HO4 109.5 114.0
H6 C6 H6A 109.5 109.4
H6' C6' H6'A 109.5 109.4

Torsion Angles for N9S

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O5' C1' O1' H1' 240.0 239.9
O1' C1' C2' H2' 54.7 57.8
O1' C1' O5' H1' 120.4 120.1
O5' C1' C2' H2' 295.0 297.8
C1' O5' C5' H5' 302.4 301.2
O2' C2' C1' H2' 241.0 239.8
C1' C2' C3' O3' 184.7 183.2
C3' C2' C1' H2' 117.6 119.8
C1' C2' C3' H3' 63.7 63.0
C1' C2' O2' H2' 118.2 120.2
O2' C2' C3' O3' 61.6 63.3
C3' C2' O2' H2' 241.5 239.8
O2' C2' C3' H3' 300.6 303.1
O5' C5' C6' O6' 294.1 64.1
C6' C5' O5' H5' 242.0 240.0
O5' C5' C6' H6' 54.4 184.2
O5' C5' C6' H6'A 173.8 304.1
O5' C5' C4' H4' 56.5 62.3
C1' C2' C3' H2' 242.4 240.2
O2' C2' C3' H2' 119.3 120.3
C4' C3' C2' O3' 120.5 119.9
C2' C3' C4' O1 181.2 176.9
C4' C3' C2' H3' 241.5 240.1
C2' C3' C4' H4' 301.6 297.0
O3' C3' C2' H3' 121.0 120.2
C2' C3' O3' HO3' 180.0 300.0
O5' C5' C6' H5' 118.7 120.0
C6' C5' C4' O1 57.7 62.4
C6' C5' C4' H4' 298.0 302.3
O6' C6' C5' H6' 239.7 240.0
O6' C6' C5' H6'A 120.3 120.0
C5' C6' O6' HO6' 180.0 180.0
H6' C6' C5' H6'A 240.6 240.1
C5' C4' C3' O3' 179.6 176.8
C3' C4' C5' O1 122.5 120.0
C5' C4' C3' H3' 300.9 297.1
C3' C4' C5' H4' 242.2 240.0
C5' C4' O1 C1 217.7 205.0
O1 C4' C5' H4' 119.7 120.1
C2' C3' C4' O3' 239.7 240.2
C4' C3' C2' H2' 62.8 62.9
C2' C3' C4' H3' 118.4 119.9
C5' C4' C3' O1 238.2 240.1
C5' C4' C3' H4' 117.8 120.0
O3' C3' C4' H3' 238.7 239.7
C4' C3' O3' HO3' 60.6 180.4
C3' C4' O1 C1 96.3 85.2
O1 C4' C3' H4' 239.6 239.9
C2' C3' O3' C4' 119.4 119.6
O3' C3' C2' H2' 302.3 303.0
C2' C3' O3' H3' 239.9 239.8
O3' C3' C4' O1 301.5 296.8
C4' C3' O3' H3' 120.5 120.3
O3' C3' C4' H4' 61.8 56.9
O6' C6' C5' H5' 175.4 304.1
C5' C6' O6' H6' 120.3 120.0
C5' C6' O6' H6'A 239.7 240.0
H6' C6' O6' H6'A 119.3 120.0
C5' C4' O1 H4' 241.1 239.9
O1 C4' C3' O3' 301.5 296.8
O1 C4' C3' H3' 62.8 57.0
C3' C4' O1 H4' 119.7 120.1
C4' O1 C1 O5 78.7 72.5
C4' O1 C1 C2 203.5 192.4
C4' O1 C1 H1 319.7 312.5
C1 O1 C4' H4' 336.6 325.1
C2 C1 O1 O5 124.8 119.9
O1 C1 O5 C5 69.3 58.9
O5 C1 O1 H1 118.9 120.0
O1 C1 C2 C3 283.9 297.7
C2 C1 O1 H1 243.8 239.9
O1 C1 C2 H2 164.8 177.7
O2 C2 C1 O5 169.4 177.5
O2 C2 C1 H1 288.1 297.5
C1 C2 O2 H2 118.6 120.1
O2 C2 C3 O3 63.8 63.2
C3 C2 O2 H2 241.3 239.8
O2 C2 C3 H3 304.9 303.0
O1 C1 O5 C2 123.1 120.0
O1 C1 O5 H1 241.0 240.0
O5 C1 C2 C3 48.0 57.6
C2 C1 O5 H1 117.9 120.0
O5 C1 C2 H2 288.9 297.7
C1 O5 C5 H5 301.5 301.2
O1 C1 C2 O5 235.9 240.0
O1 C1 C2 H1 117.2 120.1
O2 C2 C1 H2 240.5 239.9
C2 C1 O5 C5 306.3 298.9
O5 C1 C2 H1 241.2 240.1
C1 C2 C3 C4 309.3 303.0
C1 C2 C3 O3 185.2 183.1
C3 C2 C1 H2 119.1 119.9
C1 C2 C3 H3 66.3 62.9
C5 O5 C1 H1 188.3 178.9
O5 C5 C6 O6 301.9 65.1
C6 C5 O5 H5 242.8 240.0
O5 C5 C6 H6A 62.5 185.1
O5 C5 C6 H6 181.4 305.0
O5 C5 C4 H4 58.3 62.4
O2 C2 C3 H2 119.6 120.2
C3 C2 C1 O5 48.0 57.6
C3 C2 C1 H1 166.7 177.6
C1 C2 C3 H2 240.9 240.1
C4 C3 C2 O3 124.2 119.9
C2 C3 C4 O4 177.2 176.9
C4 C3 C2 H3 243.0 240.1
C2 C3 C4 H4 298.2 297.0
O3 C3 C2 H3 118.9 120.2
C2 C3 O3 HO3 180.0 300.0
C1 O5 C5 C6 184.3 181.2
O5 C5 C6 H5 117.9 120.0
C6 C5 C4 O4 60.0 62.5
C6 C5 C4 H4 298.8 302.4
O6 C6 C5 H6A 239.5 240.0
O6 C6 C5 H6 120.6 120.1
C5 C6 O6 HO6 180.0 180.0
H6 C6 C5 H6A 118.9 119.9
C1 O5 C5 C4 60.2 61.1
C5 C4 C3 O3 180.7 176.8
C3 C4 C5 O4 120.4 119.9
C5 C4 C3 H3 299.7 297.1
C3 C4 C5 H4 241.5 240.0
O4 C4 C5 H4 121.1 120.1
C5 C4 O4 HO4 180.0 179.7
C2 C3 C4 O3 236.0 240.2
C4 C3 C2 H2 68.4 62.9
C2 C3 C4 H3 117.0 119.9
C5 C4 C3 O4 239.5 240.1
C5 C4 C3 H4 118.5 120.0
O3 C3 C4 H3 241.0 239.7
C4 C3 O3 HO3 56.4 180.4
O4 C4 C3 H4 239.0 239.9
C3 C4 O4 HO4 60.4 60.0
C2 C3 O3 C4 123.6 119.5
O3 C3 C2 H2 304.2 303.0
C2 C3 O3 H3 241.9 239.8
O3 C3 C4 O4 301.1 296.7
C4 C3 O3 H3 118.3 120.3
O3 C3 C4 H4 62.1 56.9
O6 C6 C5 H5 184.1 305.1
C5 C6 O6 H6A 120.6 120.0
C5 C6 O6 H6 239.5 239.9
H6 C6 O6 H6A 241.1 240.1
C5 C4 O4 H4 239.7 239.9
O4 C4 C3 O3 301.1 296.7
O4 C4 C3 H3 60.2 57.0
C3 C4 O4 H4 120.1 120.2
O1 C1 H1 O5 120.7 120.0
O1 C1 H1 C2 242.2 239.9
C2 C1 H1 O5 238.6 240.1
H1 C1 O5 C5 188.3 178.9
H1 C1 C2 C3 166.7 177.6
H1 C1 C2 H2 47.6 57.6
H2 C2 C1 O5 288.9 297.7
C1 C2 H2 C3 121.2 119.7
H2 C2 C1 H1 47.6 57.6
H2 C2 C3 C4 68.4 62.9
H2 C2 C3 O3 304.2 303.0
H2 C2 C3 H3 185.4 182.8
HO2 O2 C2 H2 61.4 299.8
C2 C3 H3 C4 241.1 240.4
C2 C3 H3 O3 120.4 120.2
H3 C3 C2 H2 185.4 182.8
C4 C3 H3 O3 239.3 239.8
H3 C3 C4 O4 60.2 57.0
H3 C3 C4 H4 181.2 177.1
H3 C3 O3 HO3 298.1 60.2
HO3 O3 C3 H3 298.1 60.2
C5 C4 H4 O4 121.0 120.1
H4 C4 C3 O3 62.1 56.9
C3 C4 H4 O4 239.2 239.8
H4 C4 C3 H3 181.2 177.1
H4 C4 O4 HO4 300.3 299.8
HO4 O4 C4 H4 300.3 299.8
H5 C5 C6 O6 184.1 305.1
H5 C5 C6 H6A 304.6 65.1
H5 C5 C6 H6 63.5 185.0
H5 C5 C4 O4 298.9 302.5
H5 C5 C4 H4 177.8 182.4
C5 C6 H6A O6 236.7 240.0
H6A C6 C5 H5 304.6 65.1
C5 C6 H6A H6 118.3 120.0
O6 C6 H6A H6 241.7 240.0
H6A C6 O6 HO6 59.5 60.0
C5 C6 H6 O6 123.3 120.1
H6 C6 C5 H5 63.5 185.0
C5 C6 H6 H6A 241.7 240.0
O6 C6 H6 H6A 118.3 120.0
H6 C6 O6 HO6 300.5 300.1
HO6 O6 C6 H6A 59.5 60.0
HO6 O6 C6 H6 300.5 300.1
O1' C1' H1' O5' 240.6 239.9
H1' C1' C2' H2' 174.9 177.8
HO1' O1' C1' O5' 180.0 300.0
HO1' O1' C1' H1' 300.0 60.1
H2' C2' C3' C4' 62.8 62.9
H2' C2' C3' O3' 302.3 303.0
H2' C2' C3' H3' 181.3 182.8
HO2' O2' C2' H2' 61.8 299.9
C2' C3' H3' C4' 241.9 240.4
C2' C3' H3' O3' 120.7 120.1
H3' C3' C2' H2' 181.3 182.8
C4' C3' H3' O3' 238.7 239.8
H3' C3' C4' O1 62.8 57.0
H3' C3' C4' H4' 183.1 177.2
H3' C3' O3' HO3' 300.1 60.2
HO3' O3' C3' H3' 300.1 60.2
C5' C4' H4' O1 120.0 120.1
H4' C4' C3' O3' 61.8 56.9
C3' C4' H4' O1 238.5 239.9
H4' C4' C3' H3' 183.1 177.2
H4' C4' O1 C1 336.6 325.1
H5' C5' C6' O6' 175.4 304.1
H5' C5' C6' H6' 295.7 64.2
H5' C5' C6' H6'A 55.1 184.1
H5' C5' C4' O1 295.7 302.4
H5' C5' C4' H4' 176.0 182.4
C5' C6' H6' O6' 238.0 239.9
H6' C6' C5' H5' 295.7 64.2
C5' C6' H6' H6'A 119.0 119.9
O6' C6' H6' H6'A 241.0 240.0
H6' C6' O6' HO6' 59.7 60.0
C5' C6' H6'A O6' 122.0 120.0
H6'A C6' C5' H5' 55.1 184.1
C5' C6' H6'A H6' 241.0 240.0
O6' C6' H6'A H6' 119.0 120.0
H6'A C6' O6' HO6' 300.3 300.0
HO6' O6' C6' H6' 59.7 60.0
HO6' O6' C6' H6'A 300.3 300.0