PDB Chemical Component CMP

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 CMP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P O1P 1.474 1.479
P O2P 1.486 1.610
P O5' 1.598 1.606
P O3' 1.598 1.615
O2P HOP2 0.951 0.967
O5' C5' 1.437 1.435
C5' C4' 1.505 1.518
C5' H5'1 1.115 1.090
C5' H5'2 1.115 1.090
C4' O4' 1.454 1.427
C4' C3' 1.510 1.551
C4' H4' 1.115 1.089
O4' C1' 1.422 1.446
C3' O3' 1.409 1.414
C3' C2' 1.519 1.538
C3' H3' 1.115 1.089
C2' O2' 1.419 1.429
C2' C1' 1.531 1.547
C2' H2' 1.115 1.090
O2' HO2' 0.951 0.966
C1' N9 1.464 1.465
C1' H1' 1.116 1.090
N9 C8 1.386 1.362
N9 C4 1.378 1.372
C8 N7 1.320 1.302
C8 H8 1.102 1.080
N7 C5 1.394 1.355
C5 C6 1.386 1.405
C5 C4 1.387 1.403
C6 N6 1.333 1.385
C6 N1 1.345 1.328
N6 HN61 1.020 0.970
N6 HN62 1.020 0.970
N1 C2 1.314 1.319
C2 N3 1.330 1.317
C2 H2 1.103 1.080
N3 C4 1.349 1.329

Bond Angles for CMP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1P P O2P 120.3 109.2
O1P P O5' 104.0 109.2
O1P P O3' 108.1 109.1
O2P P O5' 111.6 109.2
O2P P O3' 107.7 109.2
P O2P HOP2 120.3 106.8
O5' P O3' 104.0 110.9
P O5' C5' 122.5 108.6
P O3' C3' 117.8 105.4
O5' C5' C4' 110.4 107.7
O5' C5' H5'1 111.9 109.8
O5' C5' H5'2 111.9 109.8
C4' C5' H5'1 111.8 109.8
C4' C5' H5'2 111.8 109.9
C5' C4' O4' 111.7 115.7
C5' C4' C3' 112.3 108.2
C5' C4' H4' 103.8 109.8
H5'1 C5' H5'2 98.6 109.9
O4' C4' C3' 101.4 102.9
O4' C4' H4' 114.3 109.9
C4' O4' C1' 109.0 105.6
C3' C4' H4' 113.7 110.0
C4' C3' O3' 104.4 107.3
C4' C3' C2' 101.0 101.1
C4' C3' H3' 121.1 110.3
O4' C1' C2' 106.7 107.3
O4' C1' N9 108.5 109.9
O4' C1' H1' 114.3 109.9
O3' C3' C2' 118.1 115.5
O3' C3' H3' 105.0 110.7
C2' C3' H3' 108.1 111.3
C3' C2' O2' 111.1 110.6
C3' C2' C1' 100.0 103.1
C3' C2' H2' 114.4 110.6
O2' C2' C1' 109.2 111.3
O2' C2' H2' 106.0 110.6
C2' O2' HO2' 111.1 106.8
C1' C2' H2' 116.1 110.4
C2' C1' N9 115.7 109.9
C2' C1' H1' 106.9 109.9
N9 C1' H1' 105.0 109.9
C1' N9 C8 130.6 126.3
C1' N9 C4 123.7 126.3
C8 N9 C4 105.7 107.4
N9 C8 N7 113.7 110.0
N9 C8 H8 125.3 125.1
N9 C4 C5 105.9 106.1
N9 C4 N3 127.6 134.8
N7 C8 H8 121.0 125.0
C8 N7 C5 103.6 109.4
N7 C5 C6 132.4 134.6
N7 C5 C4 111.1 107.1
C6 C5 C4 116.6 118.2
C5 C6 N6 123.0 120.8
C5 C6 N1 118.1 118.4
C5 C4 N3 126.5 119.1
N6 C6 N1 118.9 120.8
C6 N6 HN61 123.0 120.0
C6 N6 HN62 107.4 120.0
C6 N1 C2 119.2 121.2
HN61 N6 HN62 107.4 120.0
N1 C2 N3 129.1 122.5
N1 C2 H2 114.7 118.8
N3 C2 H2 116.1 118.7
C2 N3 C4 110.5 120.6

Torsion Angles for CMP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2P P O1P O5' 234.2 240.7
O2P P O1P O3' 124.1 119.3
O1P P O2P HOP2 180.0 59.3
O5' P O1P O3' 249.9 238.6
O1P P O5' C5' 152.3 65.2
O1P P O3' C3' 258.8 297.4
O1P P O2P O5' 122.2 119.3
O1P P O2P O3' 235.7 240.8
O5' P O2P O3' 113.6 121.5
O2P P O5' C5' 283.4 184.5
O2P P O3' C3' 127.4 178.1
O1P P O5' O2P 228.9 240.7
O1P P O5' O3' 113.1 120.3
O2P P O5' O3' 244.2 239.6
O5' P O2P HOP2 57.9 300.0
O5' P O3' C3' 8.9 57.7
P O5' C5' C4' 331.6 59.1
P O5' C5' H5'1 96.8 299.6
P O5' C5' H5'2 206.3 178.7
O1P P O3' O2P 131.3 119.3
O1P P O3' O5' 249.9 239.6
O2P P O3' O5' 118.5 120.4
O3' P O2P HOP2 304.3 178.5
O3' P O5' C5' 39.2 304.9
C4' C3' O3' P 300.7 295.4
P O3' C3' C2' 189.6 183.5
P O3' C3' H3' 69.1 55.9
HOP2 O2P P O5' 57.9 300.0
HOP2 O2P P O3' 304.3 178.5
C5' O5' P O3' 39.2 304.9
C4' C5' O5' H5'1 234.8 119.5
C4' C5' O5' H5'2 125.3 240.4
O5' C5' C4' O4' 218.2 176.9
O5' C5' C4' C3' 331.4 291.8
O5' C5' C4' H4' 94.6 51.8
H5'1 C5' O5' H5'2 250.5 120.9
O5' C5' C4' H5'1 125.3 240.5
O5' C5' C4' H5'2 234.7 119.5
H5'1 C5' C4' H5'2 109.5 239.0
O4' C4' C5' C3' 246.8 245.1
O4' C4' C5' H4' 123.6 125.1
C5' C4' O4' C1' 149.8 161.2
C3' C4' C5' H4' 236.7 239.9
C5' C4' C3' O3' 72.4 72.9
C5' C4' C3' C2' 195.5 194.3
C5' C4' C3' H3' 314.6 312.3
O5' C5' H5'1 C4' 235.5 118.2
O5' C5' H5'1 H5'2 117.8 239.2
C4' C5' H5'1 H5'2 242.3 120.9
H5'1 C5' C4' O4' 92.9 296.4
H5'1 C5' C4' C3' 206.1 51.3
H5'1 C5' C4' H4' 329.4 171.3
O5' C5' H5'2 C4' 124.5 241.7
O5' C5' H5'2 H5'1 242.2 120.8
C4' C5' H5'2 H5'1 117.7 239.1
H5'2 C5' C4' O4' 343.5 57.4
H5'2 C5' C4' C3' 96.7 172.2
H5'2 C5' C4' H4' 219.9 292.3
O4' C4' C5' H5'1 92.9 296.4
O4' C4' C5' H5'2 343.5 57.4
C5' C4' O4' C3' 119.8 117.9
C5' C4' O4' H4' 242.5 235.0
C3' C4' O4' H4' 122.7 117.1
O4' C4' C3' O3' 191.8 195.9
O4' C4' C3' C2' 314.8 317.4
O4' C4' C3' H3' 73.9 75.3
C4' O4' C1' C2' 357.2 333.3
C4' O4' C1' N9 232.0 213.8
C4' O4' C1' H1' 115.2 92.8
P O3' C3' C4' 300.7 295.4
C3' C4' C5' H5'1 206.1 51.3
C3' C4' C5' H5'2 96.7 172.2
C5' C4' C3' O4' 240.6 237.0
C5' C4' C3' H4' 117.5 119.9
O4' C4' C3' H4' 236.9 243.0
C3' C4' O4' C1' 30.0 43.4
O3' C3' C4' C2' 236.9 238.6
O3' C3' C4' H3' 117.8 120.7
C2' C3' C4' H3' 240.9 242.1
C4' C3' C2' O2' 287.5 266.4
C4' C3' C2' C1' 42.7 25.5
C4' C3' C2' H2' 167.5 143.5
H4' C4' C5' H5'1 329.4 171.3
H4' C4' C5' H5'2 219.9 292.3
C5' C4' H4' O4' 121.9 128.4
C5' C4' H4' C3' 237.7 241.0
O4' C4' H4' C3' 115.8 112.6
H4' C4' O4' C1' 267.3 286.3
H4' C4' C3' O3' 314.9 313.0
H4' C4' C3' C2' 78.0 74.4
H4' C4' C3' H3' 197.1 192.3
C1' O4' C4' C3' 30.0 43.4
C1' O4' C4' H4' 267.3 286.3
C3' C2' C1' O4' 334.7 359.0
O2' C2' C1' O4' 91.4 117.6
O4' C1' C2' H2' 211.1 240.8
C2' C1' O4' N9 125.2 119.5
C2' C1' O4' H1' 242.0 240.6
N9 C1' O4' H1' 116.8 121.1
O4' C1' N9 C8 42.2 28.2
O4' C1' N9 C4 223.7 208.3
O3' C3' C4' H4' 314.9 313.0
C4' C3' O3' C2' 111.1 111.9
C4' C3' O3' H3' 231.6 239.5
C2' C3' O3' H3' 120.5 127.6
O3' C3' C2' O2' 40.4 21.9
O3' C3' C2' C1' 155.6 141.0
O3' C3' C2' H2' 280.5 259.1
C2' C3' C4' H4' 78.0 74.4
C4' C3' C2' O3' 247.0 244.5
C4' C3' C2' H3' 128.1 117.2
O4' C1' C2' C3' 334.7 359.0
O3' C3' C2' H3' 241.1 232.7
O2' C2' C3' C1' 244.8 240.9
O2' C2' C3' H2' 120.0 122.9
C3' C2' O2' HO2' 180.0 180.0
C1' C2' C3' H2' 235.2 242.0
C3' C2' C1' N9 95.5 118.5
C3' C2' C1' H1' 212.0 239.5
H3' C3' C4' H4' 197.1 192.3
C4' C3' H3' O3' 117.5 118.7
C4' C3' H3' C2' 244.4 248.6
O3' C3' H3' C2' 126.9 129.9
H3' C3' C2' O2' 159.3 149.2
H3' C3' C2' C1' 274.5 268.3
H3' C3' C2' H2' 39.3 26.4
O4' C1' C2' O2' 91.4 117.6
O2' C2' C3' H3' 159.3 149.2
C3' C2' O2' C1' 109.4 114.0
C3' C2' O2' H2' 235.1 237.1
C1' C2' O2' H2' 125.8 123.1
O2' C2' C1' N9 212.2 237.1
O2' C2' C1' H1' 328.7 358.2
O4' C1' C2' N9 239.2 240.5
O4' C1' C2' H1' 122.7 119.4
C1' C2' C3' H3' 274.5 268.3
C3' C2' C1' O2' 243.3 241.4
C3' C2' C1' H2' 123.6 118.2
O2' C2' C1' H2' 240.3 236.8
C1' C2' O2' HO2' 70.6 66.0
N9 C1' C2' H1' 243.5 239.0
C2' C1' N9 C8 282.4 270.3
C2' C1' N9 C4 103.9 90.4
H2' C2' C3' H3' 39.3 26.4
C3' C2' H2' O2' 122.8 122.9
C3' C2' H2' C1' 244.2 246.5
O2' C2' H2' C1' 121.4 123.6
H2' C2' O2' HO2' 304.9 302.9
H2' C2' C1' N9 331.9 0.3
H2' C2' C1' H1' 88.4 121.4
HO2' O2' C2' C1' 70.6 66.0
HO2' O2' C2' H2' 304.9 302.9
O4' C1' N9 C2' 119.8 117.9
O4' C1' N9 H1' 237.4 238.9
N9 C1' C2' H2' 331.9 0.3
C2' C1' N9 H1' 117.6 121.0
C8 N9 C1' C4 178.4 179.9
C1' N9 C8 N7 182.8 180.0
C1' N9 C8 H8 2.8 0.0
C1' N9 C4 C5 177.7 180.2
C1' N9 C4 N3 358.2 360.0
O4' C1' H1' C2' 242.2 242.1
O4' C1' H1' N9 118.8 121.1
H1' C1' C2' H2' 88.4 121.4
C2' C1' H1' N9 236.6 239.0
H1' C1' N9 C8 164.8 149.2
H1' C1' N9 C4 346.3 329.3
C8 N9 C1' H1' 164.8 149.2
C1' N9 C8 C4 181.4 180.1
C8 N9 C4 C5 358.9 0.3
C8 N9 C4 N3 179.5 180.0
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 358.9 359.8
C4 N9 C1' H1' 346.3 329.3
C1' N9 C4 C8 178.8 179.9
C4 N9 C8 N7 1.4 360.0
C4 N9 C8 H8 181.4 179.9
N7 C5 C4 N9 0.5 359.6
C6 C5 C4 N9 180.4 180.4
C5 C4 N9 N3 179.4 180.2
C2 N3 C4 N9 179.2 180.0
N7 C8 N9 C4 1.4 360.0
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 180.4 179.4
C8 N7 C5 C4 0.3 0.4
H8 C8 N9 C4 181.4 179.9
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 178.9 179.8
N9 C4 C5 N7 0.5 359.6
C5 N7 C8 H8 178.9 179.8
C6 C5 N7 C4 180.1 179.0
N7 C5 C6 N6 0.1 0.8
N7 C5 C6 N1 180.3 180.5
N7 C5 C4 N3 180.0 179.8
N9 C4 C5 C6 180.4 180.4
N7 C5 C6 C4 179.9 181.0
C6 C5 C4 N3 359.9 0.6
N6 C6 C5 N1 179.8 180.3
C5 C6 N6 HN61 180.0 179.7
C5 C6 N6 HN62 54.8 359.4
C5 C6 N1 C2 359.6 0.2
N9 C4 C5 N3 180.5 179.8
N7 C5 C4 C6 180.1 179.2
C4 C5 C6 N6 180.2 179.8
C4 C5 C6 N1 0.4 359.5
C2 N3 C4 C5 359.9 359.7
N6 C6 C5 C4 180.2 179.8
C5 C6 N6 N1 180.2 179.7
N6 C6 N1 C2 179.8 179.9
HN61 N6 C6 HN62 125.2 180.3
N1 C6 C5 C4 0.4 359.5
C5 C6 N1 N6 179.8 180.3
N1 C6 N6 HN61 359.8 0.0
N1 C6 N6 HN62 234.6 179.7
C6 N1 C2 N3 0.1 0.1
C6 N1 C2 H2 180.1 180.0
HN61 N6 C6 N1 359.8 0.0
C6 N6 HN61 HN62 234.8 179.7
HN62 N6 C6 N1 234.6 179.7
C6 N6 HN62 HN61 134.1 180.3
N3 C2 N1 H2 180.0 180.1
N1 C2 N3 C4 0.2 359.9
N9 C4 N3 C2 179.2 180.0
C5 C4 N3 C2 359.9 359.7
N1 C2 N3 H2 180.0 179.9
N1 C2 H2 N3 180.0 180.1
H2 C2 N3 C4 180.2 180.0
N9 C4 N3 C5 179.3 180.3
C4 N3 C2 H2 180.2 180.0