PDB Chemical Component CSL

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 CSL

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P O2P 1.486 1.610
P O1P 1.488 1.480
P O5' 1.552 1.610
P O3P   1.610
O2P HOP2 0.950 0.967
O5' C5' 1.342 1.429
C5' C4' 1.476 1.530
C5' H5'1 1.100 1.090
C5' H5'2 1.100 1.090
C4' O4' 1.436 1.443
C4' C3' 1.494 1.551
C4' H4' 1.100 1.090
O4' C1' 1.406 1.437
C1' N1 1.434 1.465
C1' C2' 1.517 1.541
C1' H1' 1.100 1.089
N1 C2 1.399 1.346
N1 C6 1.349 1.362
C2 O2 1.238 1.220
C2 N3 1.336 1.331
N3 C4 1.316 1.327
C4 N4 1.324 1.376
C4 C5 1.418 1.410
N4 HN41 1.000 0.970
N4 HN42 1.000 0.970
C5 C6 1.313 1.354
C5 H5 1.080 1.080
C6 H6 1.080 1.080
C2' SE2' 1.881 1.960
C2' C3' 1.519 1.548
C2' H2' 1.100 1.090
SE2' CA' 1.893 1.960
CA' HA'1 1.100 1.089
CA' HA'2 1.100 1.091
CA' HA'3 1.100 1.090
C3' O3' 1.396 1.429
C3' H3' 1.100 1.089
O3' H3T 0.950 0.967
O3P HOP3   0.967

Bond Angles for CSL

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O2P P O1P 121.3 109.5
O2P P O5' 108.8 109.4
O2P P O3P   109.4
P O2P HOP2 109.5 114.0
O1P P O5' 106.9 109.5
O1P P O3P   109.5
O5' P O3P   109.5
P O5' C5' 118.8 123.0
P O3P HOP3   114.0
O5' C5' C4' 106.2 109.4
O5' C5' H5'1 110.6 109.5
O5' C5' H5'2 111.3 109.5
C4' C5' H5'1 110.5 109.4
C4' C5' H5'2 111.3 109.5
C5' C4' O4' 109.7 110.6
C5' C4' C3' 112.5 110.6
C5' C4' H4' 105.6 110.6
H5'1 C5' H5'2 107.0 109.5
O4' C4' C3' 103.8 103.5
O4' C4' H4' 114.1 110.6
C4' O4' C1' 108.7 107.0
C3' C4' H4' 111.3 110.7
C4' C3' C2' 100.2 102.1
C4' C3' O3' 109.7 110.9
C4' C3' H3' 117.8 110.9
O4' C1' N1 108.8 109.9
O4' C1' C2' 106.9 107.3
O4' C1' H1' 112.4 109.9
N1 C1' C2' 112.0 109.9
N1 C1' H1' 107.5 109.8
C1' N1 C2 119.8 119.9
C1' N1 C6 118.4 119.8
C2' C1' H1' 109.3 110.1
C1' C2' SE2' 109.5 110.5
C1' C2' C3' 100.9 104.2
C1' C2' H2' 117.3 110.5
C2 N1 C6 121.8 120.3
N1 C2 O2 120.6 119.4
N1 C2 N3 118.2 121.1
N1 C6 C5 119.9 119.3
N1 C6 H6 120.1 120.3
O2 C2 N3 121.3 119.5
C2 N3 C4 119.7 120.7
N3 C4 N4 117.7 120.2
N3 C4 C5 122.6 119.6
N4 C4 C5 119.7 120.2
C4 N4 HN41 110.5 120.0
C4 N4 HN42 124.7 120.0
C4 C5 C6 117.9 119.0
C4 C5 H5 121.0 120.5
HN41 N4 HN42 124.8 120.0
C6 C5 H5 121.1 120.5
C5 C6 H6 120.0 120.3
SE2' C2' C3' 115.8 110.5
SE2' C2' H2' 102.8 110.4
C2' SE2' CA' 113.4 101.0
C3' C2' H2' 111.1 110.6
C2' C3' O3' 116.3 110.9
C2' C3' H3' 111.4 110.9
SE2' CA' HA'1 109.5 109.5
SE2' CA' HA'2 109.5 109.5
SE2' CA' HA'3 109.5 109.5
HA'1 CA' HA'2 109.5 109.5
HA'1 CA' HA'3 109.4 109.5
HA'2 CA' HA'3 109.5 109.4
O3' C3' H3' 102.2 110.9
C3' O3' H3T 109.5 114.0

Torsion Angles for CSL

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O1P P O2P O5' 235.5 240.0
O1P P O2P O3P   120.1
O5' P O2P O3P   240.1
O2P P O5' C5' 32.8 185.0
O2P P O3P HOP3   300.0
O2P P O1P O5' 125.3 120.0
O2P P O1P O3P   240.0
O1P P O2P HOP2 284.4 60.0
O5' P O1P O3P   120.0
O1P P O5' C5' 165.4 305.0
O1P P O3P HOP3   180.0
O2P P O5' O1P 227.4 240.0
O2P P O5' O3P   119.9
O5' P O2P HOP2 48.9 180.0
O1P P O5' O3P   240.0
O5' P O3P HOP3   60.0
P O5' C5' C4' 185.5 180.0
P O5' C5' H5'1 305.5 299.9
P O5' C5' H5'2 64.3 60.0
O2P P O3P O1P   120.1
O2P P O3P O5'   240.1
O3P P O2P HOP2   300.0
O1P P O3P O5'   120.0
O3P P O5' C5'   65.1
HOP2 O2P P O1P 284.4 60.0
HOP2 O2P P O5' 48.9 180.0
HOP2 O2P P O3P   300.0
C5' O5' P O3P   65.1
C4' C5' O5' H5'1 240.0 240.1
C4' C5' O5' H5'2 121.3 120.0
O5' C5' C4' O4' 301.7 66.5
O5' C5' C4' C3' 56.7 180.5
O5' C5' C4' H4' 178.3 303.5
H5'1 C5' O5' H5'2 241.2 239.9
O5' C5' C4' H5'1 120.0 120.0
O5' C5' C4' H5'2 238.7 240.0
H5'1 C5' C4' H5'2 118.7 120.0
O4' C4' C5' C3' 245.0 246.0
O4' C4' C5' H4' 123.4 122.9
C5' C4' O4' C1' 147.8 158.6
C3' C4' C5' H4' 238.4 237.0
C5' C4' C3' C2' 199.3 204.5
C5' C4' C3' O3' 76.5 86.3
C5' C4' C3' H3' 320.3 322.7
O5' C5' H5'1 C4' 242.7 240.1
O5' C5' H5'1 H5'2 121.3 120.1
C4' C5' H5'1 H5'2 238.7 240.0
H5'1 C5' C4' O4' 181.7 306.5
H5'1 C5' C4' C3' 296.7 60.5
H5'1 C5' C4' H4' 58.3 183.6
O5' C5' H5'2 C4' 118.2 120.0
O5' C5' H5'2 H5'1 239.1 240.0
C4' C5' H5'2 H5'1 120.8 120.0
H5'2 C5' C4' O4' 63.0 186.5
H5'2 C5' C4' C3' 178.0 300.5
H5'2 C5' C4' H4' 299.6 63.6
O4' C4' C5' H5'1 181.7 306.5
O4' C4' C5' H5'2 63.0 186.5
C5' C4' O4' C3' 120.4 118.4
C5' C4' O4' H4' 241.8 237.1
C3' C4' O4' H4' 121.3 118.6
O4' C4' C3' C2' 317.8 323.0
O4' C4' C3' O3' 195.0 204.8
O4' C4' C3' H3' 78.7 81.1
C4' O4' C1' N1 238.3 214.0
C4' O4' C1' C2' 359.4 333.4
C4' O4' C1' H1' 119.4 93.1
C3' C4' C5' H5'1 296.7 60.5
C3' C4' C5' H5'2 178.0 300.5
C5' C4' C3' O4' 241.5 241.5
C5' C4' C3' H4' 118.3 123.0
O4' C4' C3' H4' 236.8 241.4
C3' C4' O4' C1' 27.3 40.1
C1' C2' C3' C4' 40.5 20.9
SE2' C2' C3' C4' 282.4 262.2
C4' C3' C2' H2' 165.6 139.6
C2' C3' C4' O3' 122.8 118.2
C2' C3' C4' H3' 239.1 241.8
O3' C3' C4' H3' 116.2 123.6
C4' C3' O3' H3T 144.8 298.5
H4' C4' C5' H5'1 58.3 183.6
H4' C4' C5' H5'2 299.6 63.6
C5' C4' H4' O4' 120.5 122.9
C5' C4' H4' C3' 237.6 237.1
O4' C4' H4' C3' 117.1 114.1
H4' C4' O4' C1' 266.0 281.5
H4' C4' C3' C2' 81.0 81.5
H4' C4' C3' O3' 318.2 323.3
H4' C4' C3' H3' 201.9 199.7
C1' O4' C4' C3' 27.3 40.1
C1' O4' C4' H4' 266.0 281.5
N1 C1' O4' C2' 238.9 240.6
N1 C1' O4' H1' 118.9 121.0
O4' C1' N1 C2 199.9 53.5
O4' C1' N1 C6 21.6 233.3
C2' C1' O4' H1' 240.0 240.4
O4' C1' C2' SE2' 97.0 120.7
O4' C1' C2' C3' 334.4 2.1
O4' C1' C2' H2' 213.6 243.2
O4' C1' N1 C2' 117.9 117.8
O4' C1' N1 H1' 238.0 239.0
C2' C1' N1 H1' 120.1 121.2
N1 C1' C2' SE2' 216.1 240.1
N1 C1' C2' C3' 93.4 121.5
N1 C1' C2' H2' 332.6 2.6
C2 N1 C1' C6 178.3 180.3
C1' N1 C2 O2 1.2 360.0
C1' N1 C2 N3 179.8 180.0
C1' N1 C6 C5 179.9 179.8
C1' N1 C6 H6 359.9 360.0
C4' C3' C2' C1' 40.5 20.9
O4' C1' C2' N1 241.0 240.6
O4' C1' C2' H1' 122.0 119.6
N1 C1' C2' H1' 241.0 238.9
C2' C1' N1 C2 82.0 295.8
C2' C1' N1 C6 263.7 115.5
SE2' C2' C1' C3' 122.6 118.7
SE2' C2' C1' H2' 243.4 237.5
C1' C2' SE2' CA' 314.1 180.0
C3' C2' C1' H2' 120.8 118.8
C1' C2' C3' O3' 158.6 139.0
C1' C2' C3' H3' 275.1 262.7
O4' C1' H1' N1 119.7 121.0
O4' C1' H1' C2' 241.4 242.1
N1 C1' H1' C2' 121.7 121.1
H1' C1' N1 C2 321.9 174.6
H1' C1' N1 C6 143.6 354.3
H1' C1' C2' SE2' 335.1 1.2
H1' C1' C2' C3' 212.4 242.5
H1' C1' C2' H2' 91.6 123.7
C2 N1 C1' C2' 82.0 295.8
C2 N1 C1' H1' 321.9 174.6
C1' N1 C2 C6 181.7 179.7
C2 N1 C6 C5 1.6 359.5
C2 N1 C6 H6 181.6 179.7
O2 C2 N1 N3 181.4 180.0
N1 C2 N3 C4 1.7 0.0
C6 N1 C1' C2' 263.7 115.5
C6 N1 C1' H1' 143.6 354.3
C1' N1 C6 C2 178.3 180.3
C6 N1 C2 O2 179.5 180.3
C6 N1 C2 N3 358.1 0.3
C4 C5 C6 N1 359.0 0.5
N1 C6 C5 H5 179.0 180.3
C5 C6 N1 H6 180.0 179.8
O2 C2 N1 C6 179.5 180.3
N1 C2 O2 N3 178.6 180.0
O2 C2 N3 C4 180.3 180.0
N3 C2 N1 C6 358.1 0.3
N1 C2 N3 O2 181.4 180.0
C2 N3 C4 N4 179.8 180.0
C2 N3 C4 C5 358.8 360.0
N4 C4 N3 C5 181.0 180.0
N3 C4 N4 HN41 180.0 360.0
N3 C4 N4 HN42 0.0 180.0
N3 C4 C5 C6 0.8 359.7
N3 C4 C5 H5 180.8 180.0
N3 C4 N4 C5 179.0 180.0
N4 C4 C5 C6 179.8 179.7
N4 C4 C5 H5 359.8 360.0
HN41 N4 C4 HN42 180.0 180.0
N1 C6 C5 C4 359.0 0.5
N3 C4 C5 N4 181.0 180.0
C5 C4 N4 HN41 1.0 180.0
C5 C4 N4 HN42 181.0 360.0
C6 C5 C4 H5 180.0 179.8
C4 C5 C6 H6 179.0 180.3
HN41 N4 C4 C5 1.0 180.0
C4 N4 HN41 HN42 180.0 180.0
HN42 N4 C4 C5 181.0 360.0
C4 N4 HN42 HN41 180.0 180.0
N1 C6 C5 H6 180.0 180.2
C4 C5 C6 H5 180.0 180.2
C4 C5 H5 C6 180.0 179.8
H5 C5 C6 H6 359.0 0.1
N1 C6 H6 C5 180.0 179.8
H6 C6 C5 H5 359.0 0.1
C4' C3' C2' SE2' 282.4 262.2
SE2' C2' C1' H1' 335.1 1.2
C1' C2' SE2' C3' 246.7 245.2
C1' C2' SE2' H2' 125.4 122.6
C3' C2' SE2' H2' 238.7 237.3
SE2' C2' C3' O3' 40.5 20.4
SE2' C2' C3' H3' 157.0 144.0
C2' SE2' CA' HA'1 225.1 60.0
C2' SE2' CA' HA'2 345.2 180.0
C2' SE2' CA' HA'3 105.2 300.0
C2' C3' C4' H4' 81.0 81.5
C4' C3' C2' O3' 241.9 241.8
C4' C3' C2' H3' 125.4 118.2
C3' C2' C1' H1' 212.4 242.5
C1' C2' C3' SE2' 118.1 118.7
C1' C2' C3' H2' 234.9 241.2
SE2' C2' C3' H2' 116.8 122.6
C3' C2' SE2' CA' 67.3 294.8
O3' C3' C2' H3' 243.5 236.3
C2' C3' O3' H3T 32.1 185.9
H2' C2' C1' H1' 91.6 123.7
C1' C2' H2' SE2' 239.8 237.5
C1' C2' H2' C3' 115.3 114.9
SE2' C2' H2' C3' 235.5 237.4
H2' C2' SE2' CA' 188.7 57.5
H2' C2' C3' O3' 283.7 257.8
H2' C2' C3' H3' 40.2 21.5
CA' SE2' C2' C3' 67.3 294.8
CA' SE2' C2' H2' 188.7 57.5
HA'1 CA' SE2' HA'2 240.0 240.0
HA'1 CA' SE2' HA'3 120.0 120.0
HA'2 CA' SE2' HA'3 240.0 240.1
SE2' CA' HA'1 HA'2 120.0 120.0
SE2' CA' HA'1 HA'3 240.0 240.0
HA'2 CA' HA'1 HA'3 120.0 119.9
SE2' CA' HA'2 HA'1 239.9 240.0
SE2' CA' HA'2 HA'3 120.0 120.0
HA'1 CA' HA'2 HA'3 240.0 240.0
SE2' CA' HA'3 HA'1 120.0 120.0
SE2' CA' HA'3 HA'2 240.0 240.0
HA'1 CA' HA'3 HA'2 120.0 120.0
O3' C3' C4' H4' 318.2 323.3
C4' C3' O3' C2' 112.7 112.7
C4' C3' O3' H3' 234.2 236.3
O3' C3' C2' H2' 283.7 257.8
C2' C3' O3' H3' 121.5 123.7
H3' C3' C4' H4' 201.9 199.7
C4' C3' H3' C2' 245.1 247.3
C4' C3' H3' O3' 120.3 123.7
H3' C3' C2' H2' 40.2 21.5
C2' C3' H3' O3' 235.2 236.3
H3' C3' O3' H3T 270.5 62.2
H3T O3' C3' H3' 270.5 62.2