PDB Chemical Component P28

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 P28

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C1 C2 1.372 1.385
C1 C6 1.356 1.386
C1 C7 1.525 1.510
C2 C3 1.395 1.395
C2 H2 1.103 1.087
C3 C4 1.368 1.395
C3 H3 1.104 1.087
C4 C5 1.383 1.394
C4 O41 1.368 1.361
C5 C6 1.385 1.395
C5 H5 1.102 1.087
C6 H6 1.102 1.087
C7 C8 1.482 1.533
C7 H71 1.116 1.098
C7 H72 1.115 1.099
C8 C9 1.597 1.521
C8 N8 1.505 1.441
C8 H8 1.116 1.097
C9 O9 1.231 1.226
C9 O10 1.239 1.355
O10 HO1 0.950 0.981
N8 C81 1.321 1.384
N8 HN8 1.019 1.017
C81 C82 1.509 1.492
C81 O81 1.330 1.226
C82 H821 1.116 1.103
C82 H822 1.115 1.102
C82 H823 1.115 1.102
O41 C1' 1.385 1.384
C1' C2' 1.341 1.383
C1' C6' 1.410 1.383
C2' C3' 1.410 1.395
C2' H2' 1.103 1.088
C3' N3 1.294 1.422
C3' C4' 1.410 1.396
N3 O31 1.201 1.253
N3 O32 1.211 1.254
C4' O4' 1.326 1.365
C4' C5' 1.404 1.395
O4' HO4 0.949 0.969
C5' N5 1.296 1.422
C5' C6' 1.409 1.395
N5 O51 1.203 1.254
N5 O52 1.192 1.253
C6' H6' 1.102 1.087

Bond Angles for P28

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 C1 C6 120.0 121.3
C2 C1 C7 130.2 119.4
C1 C2 C3 117.8 119.4
C1 C2 H2 120.4 121.1
C6 C1 C7 109.3 119.3
C1 C6 C5 121.8 119.3
C1 C6 H6 118.0 121.2
C1 C7 C8 125.4 113.0
C1 C7 H71 106.6 108.0
C1 C7 H72 106.6 109.7
C3 C2 H2 121.9 119.5
C2 C3 C4 122.8 120.0
C2 C3 H3 119.6 119.7
C4 C3 H3 117.6 120.3
C3 C4 C5 118.1 120.0
C3 C4 O41 127.7 120.0
C5 C4 O41 114.2 120.0
C4 C5 C6 119.2 120.0
C4 C5 H5 120.3 120.3
C4 O41 C1' 119.1 117.7
C6 C5 H5 120.5 119.6
C5 C6 H6 120.2 119.5
C8 C7 H71 106.6 110.4
C8 C7 H72 106.6 110.2
C7 C8 C9 110.4 110.0
C7 C8 N8 121.7 111.1
C7 C8 H8 97.5 111.3
H71 C7 H72 103.0 105.2
C9 C8 N8 99.2 111.2
C9 C8 H8 120.6 106.9
C8 C9 O9 113.1 123.0
C8 C9 O10 113.2 114.8
N8 C8 H8 109.0 106.2
C8 N8 C81 105.4 123.3
C8 N8 HN8 132.2 118.4
O9 C9 O10 133.6 122.2
C9 O10 HO1 113.2 114.8
C81 N8 HN8 122.4 118.3
N8 C81 C82 119.4 114.2
N8 C81 O81 121.1 126.3
C82 C81 O81 119.4 119.5
C81 C82 H821 119.4 112.4
C81 C82 H822 108.6 112.4
C81 C82 H823 108.6 115.3
H821 C82 H822 108.7 105.3
H821 C82 H823 108.6 105.2
H822 C82 H823 101.5 105.2
O41 C1' C2' 116.4 119.2
O41 C1' C6' 121.3 119.1
C2' C1' C6' 122.2 121.7
C1' C2' C3' 119.1 119.2
C1' C2' H2' 118.0 120.3
C1' C6' C5' 116.7 119.2
C1' C6' H6' 121.7 120.4
C3' C2' H2' 122.9 120.5
C2' C3' N3 116.4 119.2
C2' C3' C4' 123.4 120.0
N3 C3' C4' 120.3 120.8
C3' N3 O31 122.6 118.9
C3' N3 O32 118.4 118.9
C3' C4' O4' 123.1 120.0
C3' C4' C5' 114.1 120.0
O31 N3 O32 119.0 122.2
O4' C4' C5' 122.7 120.0
C4' O4' HO4 123.2 110.0
C4' C5' N5 119.7 120.9
C4' C5' C6' 124.4 120.0
N5 C5' C6' 115.9 119.1
C5' N5 O51 122.2 118.9
C5' N5 O52 120.5 118.9
C5' C6' H6' 121.6 120.4
O51 N5 O52 117.2 122.2

Torsion Angles for P28

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C6 C1 C2 C7 189.9 180.0
C2 C1 C6 C5 353.5 0.0
C2 C1 C6 H6 173.6 180.0
C2 C1 C7 C8 264.8 270.0
C2 C1 C7 H71 30.1 147.5
C2 C1 C7 H72 139.6 33.3
C3 C2 C1 H2 180.0 180.0
C1 C2 C3 C4 355.0 0.0
C1 C2 C3 H3 175.0 180.0
C2 C1 C6 C7 172.0 180.0
C6 C1 C2 C3 7.0 360.0
C6 C1 C2 H2 187.0 180.0
C6 C1 C7 C8 75.8 90.0
C6 C1 C7 H71 201.0 327.5
C6 C1 C7 H72 310.5 213.3
C4 C5 C6 C1 3.4 360.0
C1 C6 C5 H5 183.5 180.0
C5 C6 C1 H6 180.0 180.0
C2 C1 C7 C6 189.1 180.0
C7 C1 C2 C3 177.1 180.0
C7 C1 C2 H2 357.1 0.0
C7 C1 C6 C5 181.5 180.0
C7 C1 C6 H6 1.6 360.0
C8 C7 C1 H71 234.7 122.5
C8 C7 C1 H72 125.3 236.7
C1 C7 C8 C9 195.4 178.3
C1 C7 C8 N8 310.9 301.8
C1 C7 C8 H8 68.7 60.0
H71 C7 C1 H72 250.6 114.2
C3 C2 C1 C6 7.0 360.0
C3 C2 C1 C7 177.1 180.0
C1 C2 C3 H2 180.0 180.0
C4 C3 C2 H3 180.0 180.0
C2 C3 C4 C5 2.1 360.0
C2 C3 C4 O41 182.4 179.9
H2 C2 C1 C6 187.0 180.0
H2 C2 C1 C7 357.1 0.0
C1 C2 H2 C3 180.0 180.0
H2 C2 C3 C4 175.0 180.0
H2 C2 C3 H3 355.0 0.0
C4 C3 C2 H2 175.0 180.0
C2 C3 C4 H3 180.0 180.0
C5 C4 C3 O41 179.7 180.0
C3 C4 C5 C6 358.8 0.0
C3 C4 C5 H5 178.8 180.0
C3 C4 O41 C1' 280.5 135.0
H3 C3 C2 H2 355.0 0.0
C2 C3 H3 C4 180.0 180.0
H3 C3 C4 C5 182.1 180.0
H3 C3 C4 O41 2.4 360.0
C1 C6 C5 C4 3.4 360.0
C5 C4 C3 H3 182.1 180.0
C3 C4 C5 O41 180.3 180.0
C5 C4 O41 C1' 100.7 314.9
C6 C5 C4 H5 180.0 180.1
C4 C5 C6 H6 183.4 180.0
O41 C4 C3 H3 2.4 360.0
C3 C4 O41 C5 179.7 180.0
O41 C4 C5 C6 178.6 180.1
O41 C4 C5 H5 358.5 0.0
C4 O41 C1' C2' 46.2 315.0
C4 O41 C1' C6' 226.4 135.0
C5 C6 C1 C7 181.5 180.0
C1 C6 C5 H6 180.0 180.0
C6 C5 C4 O41 178.6 180.1
C4 C5 C6 H5 180.0 179.9
H5 C5 C4 O41 358.5 0.0
C4 C5 H5 C6 180.0 180.1
H5 C5 C6 H6 3.4 0.0
H6 C6 C1 C7 1.6 360.0
C1 C6 H6 C5 180.0 180.0
H6 C6 C5 H5 3.4 0.0
C1 C7 C8 H71 125.2 238.9
C1 C7 C8 H72 234.7 123.1
H71 C7 C8 H72 109.5 244.2
C9 C8 C7 N8 244.5 236.5
C9 C8 C7 H8 126.6 118.3
C7 C8 C9 O9 57.2 299.0
C7 C8 C9 O10 233.8 118.6
N8 C8 C7 H8 242.2 241.8
C7 C8 N8 C81 88.8 121.3
C7 C8 N8 HN8 268.8 301.2
C1 C7 H71 C8 224.0 124.0
C1 C7 H71 H72 111.9 242.9
C8 C7 H71 H72 248.0 118.9
H71 C7 C8 C9 70.1 299.4
H71 C7 C8 N8 185.7 62.9
H71 C7 C8 H8 303.5 181.1
C1 C7 H72 C8 136.0 235.0
C1 C7 H72 H71 248.1 116.0
C8 C7 H72 H71 112.0 241.0
H72 C7 C8 C9 320.6 55.2
H72 C7 C8 N8 76.2 178.7
H72 C7 C8 H8 194.0 296.9
C9 C8 C7 H71 70.1 299.4
C9 C8 C7 H72 320.6 55.2
C7 C8 C9 N8 129.0 123.5
C7 C8 C9 H8 247.6 239.0
N8 C8 C9 H8 118.6 115.5
C9 C8 N8 C81 209.8 244.1
C9 C8 N8 HN8 29.8 64.1
O9 C9 C8 O10 183.3 180.4
C8 C9 O10 HO1 180.0 180.4
N8 C8 C7 H71 185.7 62.9
N8 C8 C7 H72 76.2 178.7
C7 C8 N8 C9 239.0 237.1
C7 C8 N8 H8 112.0 121.2
C9 C8 N8 H8 233.0 244.1
N8 C8 C9 O9 288.2 175.5
N8 C8 C9 O10 104.9 355.1
C81 N8 C8 HN8 180.0 180.1
C8 N8 C81 C82 193.2 179.9
C8 N8 C81 O81 15.0 359.9
H8 C8 C7 H71 303.5 181.1
H8 C8 C7 H72 194.0 296.9
C7 C8 H8 C9 119.1 120.1
C7 C8 H8 N8 232.7 238.9
C9 C8 H8 N8 113.6 118.8
H8 C8 C9 O9 169.6 60.0
H8 C8 C9 O10 346.2 239.6
H8 C8 N8 C81 336.8 0.1
H8 C8 N8 HN8 156.8 180.0
O9 C9 C8 N8 288.2 175.5
O9 C9 C8 H8 169.6 60.0
C8 C9 O9 O10 175.8 179.6
O9 C9 O10 HO1 355.7 0.0
O10 C9 C8 N8 104.9 355.1
O10 C9 C8 H8 346.2 239.6
C8 C9 O10 O9 184.2 180.4
C81 N8 C8 H8 336.8 0.1
C8 N8 C81 HN8 180.0 179.9
C82 C81 N8 O81 178.3 180.0
N8 C81 C82 H821 180.0 120.7
N8 C81 C82 H822 305.2 239.4
N8 C81 C82 H823 54.8 0.1
HN8 N8 C8 H8 156.8 180.0
C8 N8 HN8 C81 180.0 180.1
HN8 N8 C81 C82 13.2 360.0
HN8 N8 C81 O81 194.9 180.0
C82 C81 N8 HN8 13.2 360.0
N8 C81 C82 O81 181.7 180.0
H821 C82 C81 H822 234.7 241.3
H821 C82 C81 H823 125.2 120.7
H822 C82 C81 H823 250.5 239.3
O81 C81 N8 HN8 194.9 180.0
N8 C81 O81 C82 178.3 180.0
O81 C81 C82 H821 358.3 300.7
O81 C81 C82 H822 123.5 59.4
O81 C81 C82 H823 233.1 180.0
H821 C82 C81 O81 358.3 300.7
C81 C82 H821 H822 125.3 122.8
C81 C82 H821 H823 234.8 233.7
H822 C82 H821 H823 109.6 110.9
H822 C82 C81 O81 123.5 59.4
C81 C82 H822 H821 228.6 237.2
C81 C82 H822 H823 114.3 126.3
H821 C82 H822 H823 245.7 249.1
H823 C82 C81 O81 233.1 180.0
C81 C82 H823 H821 131.3 124.5
C81 C82 H823 H822 245.7 235.5
H821 C82 H823 H822 114.4 111.0
C2' C1' O41 C6' 179.8 179.9
O41 C1' C2' C3' 180.3 180.0
O41 C1' C2' H2' 0.3 360.0
O41 C1' C6' C5' 179.9 179.9
O41 C1' C6' H6' 359.9 359.9
O41 C1' C2' C6' 180.2 180.1
C2' C1' C6' C5' 0.1 0.0
C2' C1' C6' H6' 180.0 180.0
C3' C2' C1' H2' 180.0 180.0
C1' C2' C3' N3 180.7 179.9
C1' C2' C3' C4' 359.7 0.0
O41 C1' C6' C2' 179.8 179.9
C6' C1' C2' C3' 0.1 359.9
C6' C1' C2' H2' 180.1 179.9
C4' C5' C6' C1' 359.9 0.1
N5 C5' C6' C1' 180.1 179.9
C5' C6' C1' H6' 180.0 180.0
C3' C2' C1' C6' 0.1 359.9
C1' C2' C3' H2' 180.0 180.0
N3 C3' C2' C4' 180.9 179.9
C2' C3' N3 O31 181.1 180.0
C2' C3' N3 O32 358.3 0.1
C2' C3' C4' O4' 180.4 180.0
C2' C3' C4' C5' 0.3 0.0
H2' C2' C1' C6' 180.1 179.9
C1' C2' H2' C3' 180.0 180.0
H2' C2' C3' N3 0.6 359.9
H2' C2' C3' C4' 179.7 180.1
N3 C3' C2' H2' 0.6 359.9
C2' C3' N3 C4' 179.1 180.1
N3 C3' C4' O4' 359.4 0.1
N3 C3' C4' C5' 179.3 180.1
O31 N3 C3' O32 182.8 179.9
C4' C3' C2' H2' 179.7 180.1
C2' C3' C4' N3 181.0 179.9
C4' C3' N3 O31 2.0 359.9
C4' C3' N3 O32 179.2 179.9
O4' C4' C3' C5' 180.1 180.0
C3' C4' O4' HO4 180.0 28.9
C3' C4' C5' N5 179.8 180.1
C3' C4' C5' C6' 359.9 359.9
O31 N3 C3' C4' 2.0 359.9
C3' N3 O31 O32 177.1 180.1
O32 N3 C3' C4' 179.2 179.9
C3' N3 O32 O31 182.7 179.9
C3' C4' O4' C5' 179.9 180.0
O4' C4' C5' N5 359.6 0.1
O4' C4' C5' C6' 179.8 179.9
C1' C6' C5' C4' 359.9 0.1
C3' C4' C5' O4' 180.1 180.0
C5' C4' O4' HO4 0.1 208.9
N5 C5' C4' C6' 179.9 180.1
C4' C5' N5 O51 1.8 359.9
C4' C5' N5 O52 179.9 179.9
C4' C5' C6' H6' 180.0 180.1
HO4 O4' C4' C5' 0.1 208.9
C1' C6' C5' N5 180.1 179.9
C4' C5' N5 C6' 180.1 179.9
N5 C5' C6' H6' 0.1 359.9
O51 N5 C5' O52 181.8 180.0
C1' C6' C5' H6' 180.0 180.0
C4' C5' C6' N5 179.9 180.1
C6' C5' N5 O51 181.6 180.0
C6' C5' N5 O52 359.8 0.0
O51 N5 C5' C6' 181.6 180.0
C5' N5 O51 O52 178.2 180.0
O52 N5 C5' C6' 359.8 0.0
C5' N5 O52 O51 181.8 180.0
C1' C6' H6' C5' 180.0 180.0