PDB Chemical Component 7DA

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 7DA

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.468 1.501
P OP2 1.483 1.617
P O5' 1.596 1.619
P OP3   1.617
OP2 HOP2 0.950 0.981
O5' C5' 1.429 1.417
N9 C4 1.363 1.374
N9 C8 1.387 1.375
N9 C1' 1.460 1.459
C4 N3 1.376 1.345
C4 C5 1.410 1.389
N3 C2 1.337 1.349
C2 N1 1.360 1.352
C2 H2 1.104 1.085
N1 C6 1.383 1.353
C6 N6 1.353 1.407
C6 C5 1.413 1.395
N6 HN61 1.019 1.001
N6 HN62 1.019 1.002
C5 C7 1.383 1.418
C7 C8 1.328 1.379
C7 H7 1.102 1.081
C8 H8 1.103 1.082
C2' C1' 1.534 1.522
C2' C3' 1.518 1.512
C2' H2' 1.116 1.097
C2' H2'' 1.114 1.094
C5' C4' 1.512 1.523
C5' H5' 1.115 1.090
C5' H5'' 1.115 1.091
C4' O4' 1.446 1.443
C4' C3' 1.524 1.525
C4' H4' 1.115 1.095
O4' C1' 1.428 1.439
C1' H1' 1.115 1.095
C3' O3' 1.432 1.425
C3' H1 1.115 1.093
O3' HO3' 0.950 0.969
OP3 HOP3   0.981

Bond Angles for 7DA

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.1 115.3
OP1 P O5' 106.7 115.0
OP1 P OP3   115.0
OP2 P O5' 109.9 103.7
OP2 P OP3   103.3
P OP2 HOP2 119.0 118.9
O5' P OP3   102.9
P O5' C5' 122.2 118.5
P OP3 HOP3   118.9
O5' C5' C4' 109.1 108.7
O5' C5' H5' 112.4 109.2
O5' C5' H5'' 112.4 109.2
C4 N9 C8 105.9 109.0
C4 N9 C1' 124.5 125.9
N9 C4 N3 126.6 125.1
N9 C4 C5 105.9 108.2
C8 N9 C1' 129.6 125.0
N9 C8 C7 113.8 108.3
N9 C8 H8 125.0 120.8
N9 C1' C2' 115.7 114.3
N9 C1' O4' 108.7 110.0
N9 C1' H1' 105.0 105.9
N3 C4 C5 127.5 126.7
C4 N3 C2 111.2 111.0
C4 C5 C6 115.9 116.6
C4 C5 C7 110.8 107.0
N3 C2 N1 127.9 128.7
N3 C2 H2 115.0 115.7
N1 C2 H2 117.1 115.6
C2 N1 C6 119.7 117.4
N1 C6 N6 118.3 119.8
N1 C6 C5 117.9 119.5
N6 C6 C5 123.8 120.7
C6 N6 HN61 118.3 119.4
C6 N6 HN62 109.0 119.3
C6 C5 C7 133.3 136.4
HN61 N6 HN62 109.1 121.0
C5 C7 C8 103.5 107.5
C5 C7 H7 129.7 127.2
C8 C7 H7 126.7 125.3
C7 C8 H8 121.2 130.9
C1' C2' C3' 101.5 101.6
C1' C2' H2' 115.2 110.5
C1' C2' H2'' 115.3 111.7
C2' C1' O4' 107.2 106.7
C2' C1' H1' 106.5 111.7
C3' C2' H2' 115.3 110.0
C3' C2' H2'' 115.3 114.2
C2' C3' C4' 100.5 103.2
C2' C3' O3' 106.5 108.4
C2' C3' H1 117.7 113.7
H2' C2' H2'' 95.2 108.7
C4' C5' H5' 112.3 110.1
C4' C5' H5'' 112.3 110.1
C5' C4' O4' 111.4 108.0
C5' C4' C3' 122.2 112.7
C5' C4' H4' 97.5 109.4
H5' C5' H5'' 98.1 109.6
O4' C4' C3' 107.3 106.8
O4' C4' H4' 115.6 107.7
C4' O4' C1' 107.7 108.7
C3' C4' H4' 102.6 112.0
C4' C3' O3' 111.8 109.6
C4' C3' H1 112.8 114.0
O4' C1' H1' 113.9 108.1
O3' C3' H1 107.4 107.8
C3' O3' HO3' 106.5 106.6

Torsion Angles for 7DA

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 O5' 125.1 120.6
OP2 P OP1 OP3   239.9
OP1 P OP2 HOP2 180.1 48.8
O5' P OP1 OP3   119.3
OP1 P O5' C5' 189.7 180.0
OP1 P OP3 HOP3   312.0
OP1 P OP2 O5' 236.5 233.4
OP1 P OP2 OP3   126.3
O5' P OP2 OP3   252.9
OP2 P O5' C5' 59.2 53.2
OP2 P OP3 HOP3   78.5
OP1 P O5' OP2 130.5 126.8
OP1 P O5' OP3   234.2
OP2 P O5' OP3   107.4
O5' P OP2 HOP2 303.6 175.4
O5' P OP3 HOP3   186.1
P O5' C5' C4' 185.9 180.0
P O5' C5' H5' 311.1 300.1
P O5' C5' H5'' 60.7 59.9
OP1 P OP3 OP2   233.5
OP1 P OP3 O5'   125.8
OP2 P OP3 O5'   252.3
OP3 P OP2 HOP2   282.5
OP3 P O5' C5'   305.8
HOP2 OP2 P O5' 303.6 175.4
HOP2 OP2 P OP3   282.5
C5' O5' P OP3   305.8
C4' C5' O5' H5' 234.8 239.9
C4' C5' O5' H5'' 125.2 120.1
O5' C5' C4' O4' 279.3 61.8
O5' C5' C4' C3' 47.9 179.5
O5' C5' C4' H4' 157.9 304.8
H5' C5' O5' H5'' 250.4 240.2
C8 N9 C4 C1' 179.7 180.0
C4 N9 C8 C7 359.9 0.1
C4 N9 C8 H8 179.9 180.0
C4 N9 C1' C2' 134.7 93.4
C4 N9 C1' O4' 255.3 213.4
C4 N9 C1' H1' 17.6 330.0
N3 C4 N9 C5 179.9 180.0
N9 C4 N3 C2 180.0 180.0
N9 C4 C5 C6 179.9 180.0
N9 C4 C5 C7 359.8 0.0
C4 N9 C8 C1' 180.3 180.0
C8 N9 C4 N3 180.1 180.0
C8 N9 C4 C5 0.1 359.9
C8 N9 C1' C2' 315.0 273.4
C8 N9 C1' O4' 75.7 33.5
C8 N9 C1' H1' 197.9 150.0
C5 C7 C8 N9 0.0 359.9
N9 C8 C7 H7 180.0 180.0
C7 C8 N9 H8 180.0 180.0
C4 N9 C1' C8 179.6 180.0
C1' N9 C4 N3 0.3 360.0
C1' N9 C4 C5 180.4 180.0
C1' N9 C8 C7 179.6 180.1
C1' N9 C8 H8 359.6 0.0
N9 C1' C2' C3' 153.1 154.5
N9 C1' C2' H2' 278.4 37.8
N9 C1' C2' H2'' 27.8 276.7
C2' C1' N9 O4' 239.4 240.0
C2' C1' N9 H1' 117.1 123.5
C4' O4' C1' N9 223.5 218.2
O4' C1' N9 H1' 237.8 243.5
N3 C4 N9 C8 180.1 180.0
N3 C4 N9 C1' 0.3 360.0
N9 C4 N3 C5 180.1 180.0
N3 C4 C5 C6 360.0 359.9
N3 C4 C5 C7 179.9 180.0
C4 N3 C2 N1 0.2 0.1
C4 N3 C2 H2 180.1 179.9
C5 C4 N9 C8 0.1 359.9
C5 C4 N9 C1' 180.4 180.0
N9 C4 C5 N3 179.9 180.0
C5 C4 N3 C2 359.9 0.0
N1 C6 C5 C4 0.2 0.1
N6 C6 C5 C4 180.1 180.1
C6 C5 C4 C7 180.0 179.9
C4 C5 C7 C8 0.1 0.0
C4 C5 C7 H7 180.1 180.0
C2 N3 C4 C5 359.9 0.0
N1 C2 N3 H2 180.0 180.1
N3 C2 N1 C6 359.9 359.9
N3 C2 N1 H2 180.0 179.9
C2 N1 C6 N6 180.0 180.0
C2 N1 C6 C5 359.9 360.0
N3 C2 H2 N1 180.0 180.1
H2 C2 N1 C6 180.0 180.0
C4 C5 C6 N1 0.2 0.1
C6 N1 C2 H2 180.0 180.0
N6 C6 N1 C5 180.1 180.0
N1 C6 N6 HN61 180.0 82.2
N1 C6 N6 HN62 54.7 268.4
N1 C6 C5 C7 180.2 180.0
C4 C5 C6 N6 180.1 180.1
N1 C6 N6 C5 179.9 180.0
N6 C6 C5 C7 0.1 360.0
HN61 N6 C6 HN62 125.3 173.8
C4 C5 C6 C7 179.9 180.1
N1 C6 C5 N6 180.1 180.0
C5 C6 N6 HN61 0.1 262.2
C5 C6 N6 HN62 234.8 88.4
C6 C5 C7 C8 180.0 180.1
C6 C5 C7 H7 0.0 0.1
HN61 N6 C6 C5 0.1 262.2
C6 N6 HN61 HN62 234.7 186.3
HN62 N6 C6 C5 234.8 88.4
C6 N6 HN62 HN61 130.5 173.7
N9 C8 C7 C5 0.0 359.9
C4 C5 C7 C6 180.0 179.9
C8 C7 C5 H7 180.0 180.0
C5 C7 C8 H8 180.0 180.0
C7 C8 N9 C1' 179.6 180.1
N9 C8 C7 H8 180.0 179.9
C5 C7 C8 H7 180.0 180.0
C5 C7 H7 C8 180.0 180.0
H7 C7 C8 H8 360.0 0.0
H8 C8 N9 C1' 359.6 0.0
N9 C8 H8 C7 180.0 180.1
H8 C8 C7 H7 360.0 0.0
N9 C1' C2' O4' 121.4 121.8
N9 C1' C2' H1' 243.7 239.7
C3' C2' C1' H2' 234.7 116.7
C3' C2' C1' H2'' 125.3 237.8
C1' C2' C3' C4' 321.7 325.2
C1' C2' C3' O3' 78.4 81.3
C1' C2' C3' H1 198.9 201.2
H2' C2' C1' H2'' 250.6 121.1
C4' O4' C1' C2' 349.2 342.7
O4' C1' C2' H1' 122.3 117.9
C1' C2' C3' H2' 125.2 243.0
C1' C2' C3' H2'' 234.7 120.4
C3' C2' C1' O4' 31.7 32.7
C3' C2' C1' H1' 269.4 274.8
H2' C2' C3' H2'' 109.5 237.5
C5' C4' C3' C2' 263.5 267.4
O4' C4' C3' C2' 33.9 25.9
C2' C3' C4' H4' 156.1 143.6
C4' C3' C2' O3' 243.3 243.8
C4' C3' C2' H1 122.8 123.9
O3' C3' C2' H1 239.5 240.1
C2' C3' O3' HO3' 180.0 294.7
C1' C2' H2' C3' 242.2 111.4
C1' C2' H2' H2'' 121.1 237.1
H2' C2' C1' O4' 157.0 276.0
H2' C2' C1' H1' 34.7 158.1
C3' C2' H2' H2'' 238.8 125.7
H2' C2' C3' C4' 196.5 82.2
H2' C2' C3' O3' 313.2 198.4
H2' C2' C3' H1 73.6 318.3
C1' C2' H2'' C3' 117.8 245.4
C1' C2' H2'' H2' 239.0 122.1
H2'' C2' C1' O4' 266.4 154.9
H2'' C2' C1' H1' 144.1 37.0
C3' C2' H2'' H2' 121.1 236.7
H2'' C2' C3' C4' 87.0 204.8
H2'' C2' C3' O3' 203.7 320.9
H2'' C2' C3' H1 324.1 80.8
O5' C5' C4' H5' 125.3 119.6
O5' C5' C4' H5'' 234.7 240.5
C2' C3' C4' C5' 263.5 267.4
H5' C5' C4' H5'' 109.5 120.9
O4' C4' C5' C3' 231.3 242.3
O4' C4' C5' H4' 121.3 117.0
C5' C4' O4' C1' 121.5 116.0
C3' C4' C5' H4' 250.0 234.7
C5' C4' C3' O3' 150.8 152.1
C5' C4' C3' H1 29.6 31.2
O5' C5' H5' C4' 236.6 240.8
O5' C5' H5' H5'' 118.3 119.6
C4' C5' H5' H5'' 241.8 238.8
H5' C5' C4' O4' 154.0 302.2
H5' C5' C4' C3' 282.7 60.0
H5' C5' C4' H4' 32.7 185.3
O5' C5' H5'' C4' 123.4 119.2
O5' C5' H5'' H5' 241.7 240.4
C4' C5' H5'' H5' 118.2 121.2
H5'' C5' C4' O4' 44.5 181.3
H5'' C5' C4' C3' 173.2 299.1
H5'' C5' C4' H4' 283.2 64.3
N9 C1' O4' C4' 223.5 218.2
C2' C1' O4' C4' 349.2 342.7
C2' C3' C4' O4' 33.9 25.9
O4' C4' C5' H5' 154.0 302.2
O4' C4' C5' H5'' 44.5 181.3
C5' C4' O4' C3' 136.2 121.5
C5' C4' O4' H4' 249.9 242.0
C3' C4' O4' H4' 113.7 120.5
O4' C4' C3' O3' 281.2 270.6
O4' C4' C3' H1 160.1 149.7
C4' O4' C1' H1' 106.8 103.1
C4' C3' C2' H2' 196.5 82.2
C4' C3' C2' H2'' 87.0 204.8
C2' C3' C4' O3' 112.7 115.3
C2' C3' C4' H1 233.8 236.3
C3' C4' C5' H5' 282.7 60.0
C3' C4' C5' H5'' 173.2 299.1
C5' C4' C3' O4' 229.6 241.5
C5' C4' C3' H4' 107.4 123.8
O4' C4' C3' H4' 237.8 242.3
C3' C4' O4' C1' 345.3 354.5
O3' C3' C4' H1 121.2 120.9
C4' C3' O3' HO3' 288.9 46.6
H4' C4' C5' H5' 32.7 185.3
H4' C4' C5' H5'' 283.2 64.3
C5' C4' H4' O4' 118.1 117.2
C5' C4' H4' C3' 234.5 234.3
O4' C4' H4' C3' 116.4 117.2
H4' C4' O4' C1' 231.6 234.0
H4' C4' C3' O3' 43.4 28.3
H4' C4' C3' H1 282.3 267.4
N9 C1' O4' C2' 234.2 235.5
N9 C1' O4' H1' 116.7 115.2
O4' C1' C2' C3' 31.7 32.7
O4' C1' C2' H2' 157.0 276.0
O4' C1' C2' H2'' 266.4 154.9
C2' C1' O4' H1' 242.5 239.7
C1' O4' C4' C3' 345.3 354.5
C1' O4' C4' H4' 231.6 234.0
N9 C1' H1' C2' 123.3 125.1
N9 C1' H1' O4' 241.2 242.2
H1' C1' C2' C3' 269.4 274.8
H1' C1' C2' H2' 34.7 158.1
H1' C1' C2' H2'' 144.1 37.0
C2' C1' H1' O4' 117.9 117.1
O3' C3' C2' H2' 313.2 198.4
O3' C3' C2' H2'' 203.7 320.9
C2' C3' O3' C4' 251.1 248.1
C2' C3' O3' H1 126.9 123.5
O3' C3' C4' H4' 43.4 28.3
C4' C3' O3' H1 235.8 235.4
H1 C3' C2' H2' 73.6 318.3
H1 C3' C2' H2'' 324.1 80.8
C2' C3' H1 C4' 116.4 117.9
C2' C3' H1 O3' 240.0 239.8
H1 C3' C4' H4' 282.3 267.4
C4' C3' H1 O3' 123.6 121.9
H1 C3' O3' HO3' 53.1 171.2
HO3' O3' C3' H1 53.1 171.2