PDB Chemical Component 2DA

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 2DA

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.484 1.479
P OP2 1.484 1.610
P OP3 1.611 1.609
P O5' 1.594 1.609
OP2 HOP2 0.950 0.967
OP3 HOP3 0.950 0.967
O5' C5' 1.420 1.428
C5' C4' 1.507 1.531
C5' H5' 1.116 1.089
C5' H5'' 1.115 1.090
C4' O4' 1.451 1.446
C4' C3' 1.518 1.549
C4' H4' 1.115 1.089
O4' C1' 1.414 1.437
C3' C2' 1.524 1.548
C3' H3'1 1.115 1.089
C3' H3'2 1.116 1.091
C2' C1' 1.529 1.540
C2' H2' 1.115 1.090
C2' H2'' 1.115 1.090
C1' N9 1.463 1.464
C1' H1' 1.114 1.090
N9 C8 1.375 1.362
N9 C4 1.375 1.373
C8 N7 1.311 1.301
C8 H8 1.103 1.080
N7 C5 1.390 1.354
C5 C6 1.412 1.406
C5 C4 1.384 1.404
C6 N6 1.332 1.383
C6 N1 1.351 1.329
N6 HN61 1.019 0.971
N6 HN62 1.021 0.970
N1 C2 1.344 1.320
C2 N3 1.331 1.316
C2 H2 1.103 1.080
N3 C4 1.345 1.329

Bond Angles for 2DA

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.5 109.5
OP1 P OP3 110.0 109.5
OP1 P O5' 107.3 109.4
OP2 P OP3 106.1 109.5
OP2 P O5' 108.7 109.5
P OP2 HOP2 119.5 106.8
OP3 P O5' 104.4 109.5
P OP3 HOP3 109.9 106.9
P O5' C5' 121.9 106.8
O5' C5' C4' 110.0 109.5
O5' C5' H5' 112.0 109.5
O5' C5' H5'' 112.0 109.5
C4' C5' H5' 112.0 109.4
C4' C5' H5'' 112.0 109.4
C5' C4' O4' 109.4 110.7
C5' C4' C3' 115.5 110.6
C5' C4' H4' 104.0 110.5
H5' C5' H5'' 98.4 109.5
O4' C4' C3' 104.7 103.6
O4' C4' H4' 114.9 110.6
C4' O4' C1' 109.7 106.8
C3' C4' H4' 108.7 110.6
C4' C3' C2' 101.9 102.1
C4' C3' H3'1 115.1 110.9
C4' C3' H3'2 115.1 110.9
O4' C1' C2' 107.4 107.4
O4' C1' N9 107.8 109.8
O4' C1' H1' 113.5 109.9
C2' C3' H3'1 115.1 110.9
C2' C3' H3'2 115.1 110.9
C3' C2' C1' 101.6 104.2
C3' C2' H2' 115.2 110.5
C3' C2' H2'' 115.2 110.5
H3'1 C3' H3'2 95.3 110.8
C1' C2' H2' 115.2 110.5
C1' C2' H2'' 115.2 110.5
C2' C1' N9 113.8 109.9
C2' C1' H1' 107.4 109.9
H2' C2' H2'' 95.2 110.6
N9 C1' H1' 107.1 109.9
C1' N9 C8 128.0 126.3
C1' N9 C4 126.2 126.3
C8 N9 C4 105.9 107.4
N9 C8 N7 113.8 110.0
N9 C8 H8 125.2 125.0
N9 C4 C5 105.7 106.0
N9 C4 N3 127.3 134.9
N7 C8 H8 121.0 125.0
C8 N7 C5 103.8 109.4
N7 C5 C6 132.4 134.7
N7 C5 C4 110.8 107.1
C6 C5 C4 116.9 118.2
C5 C6 N6 123.8 120.8
C5 C6 N1 117.7 118.4
C5 C4 N3 127.0 119.1
N6 C6 N1 118.5 120.8
C6 N6 HN61 123.8 120.0
C6 N6 HN62 107.1 120.0
C6 N1 C2 118.6 121.2
HN61 N6 HN62 107.1 120.0
N1 C2 N3 129.3 122.5
N1 C2 H2 115.9 118.7
N3 C2 H2 114.8 118.7
C2 N3 C4 110.6 120.6

Torsion Angles for 2DA

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 OP3 237.0 120.0
OP2 P OP1 O5' 124.1 240.0
OP1 P OP2 HOP2 180.0 300.0
OP3 P OP1 O5' 247.1 120.0
OP1 P OP3 HOP3 180.0 180.0
OP1 P O5' C5' 172.2 60.0
OP1 P OP2 OP3 124.8 240.0
OP1 P OP2 O5' 236.5 120.0
OP3 P OP2 O5' 111.7 240.0
OP2 P OP3 HOP3 310.5 60.0
OP2 P O5' C5' 41.7 180.0
OP1 P OP3 OP2 229.5 120.0
OP1 P OP3 O5' 114.8 240.0
OP2 P OP3 O5' 245.3 120.0
OP3 P OP2 HOP2 55.2 60.1
OP3 P O5' C5' 288.8 300.0
OP1 P O5' OP2 130.5 240.0
OP1 P O5' OP3 243.3 120.0
OP2 P O5' OP3 112.9 240.0
O5' P OP2 HOP2 303.5 180.1
O5' P OP3 HOP3 65.2 300.0
P O5' C5' C4' 189.1 180.0
P O5' C5' H5' 314.3 60.0
P O5' C5' H5'' 63.8 300.0
HOP2 OP2 P OP3 55.2 60.1
HOP2 OP2 P O5' 303.5 180.1
HOP3 OP3 P O5' 65.2 300.0
C4' C5' O5' H5' 234.7 120.0
C4' C5' O5' H5'' 125.3 240.0
O5' C5' C4' O4' 291.9 65.7
O5' C5' C4' C3' 49.7 180.0
O5' C5' C4' H4' 168.6 302.9
H5' C5' O5' H5'' 250.6 120.0
O5' C5' C4' H5' 125.2 240.0
O5' C5' C4' H5'' 234.7 120.0
H5' C5' C4' H5'' 109.5 240.0
O4' C4' C5' C3' 242.2 245.7
O4' C4' C5' H4' 123.2 122.9
C5' C4' O4' C1' 144.1 158.5
C3' C4' C5' H4' 241.0 237.1
C5' C4' C3' C2' 204.3 204.3
C5' C4' C3' H3'1 329.6 86.1
C5' C4' C3' H3'2 79.1 322.5
O5' C5' H5' C4' 235.8 120.0
O5' C5' H5' H5'' 117.9 239.9
C4' C5' H5' H5'' 242.0 119.9
H5' C5' C4' O4' 166.6 185.7
H5' C5' C4' C3' 284.5 300.0
H5' C5' C4' H4' 43.4 62.9
O5' C5' H5'' C4' 124.2 240.0
O5' C5' H5'' H5' 242.2 120.0
C4' C5' H5'' H5' 118.0 240.1
H5'' C5' C4' O4' 57.1 305.7
H5'' C5' C4' C3' 175.0 60.0
H5'' C5' C4' H4' 293.9 182.8
O4' C4' C5' H5' 166.6 185.7
O4' C4' C5' H5'' 57.1 305.7
C5' C4' O4' C3' 124.4 118.6
C5' C4' O4' H4' 243.5 237.2
C3' C4' O4' H4' 119.1 118.5
O4' C4' C3' C2' 324.7 323.0
O4' C4' C3' H3'1 90.0 204.8
O4' C4' C3' H3'2 199.5 81.2
C4' O4' C1' C2' 4.2 333.6
C4' O4' C1' N9 241.3 214.1
C4' O4' C1' H1' 122.8 93.1
C3' C4' C5' H5' 284.5 300.0
C3' C4' C5' H5'' 175.0 60.0
C5' C4' C3' O4' 239.6 241.3
C5' C4' C3' H4' 116.3 122.8
O4' C4' C3' H4' 236.7 241.5
C3' C4' O4' C1' 19.7 39.9
C2' C3' C4' H3'1 234.7 118.2
C2' C3' C4' H3'2 125.3 241.9
C4' C3' C2' C1' 36.6 20.9
C4' C3' C2' H2' 161.9 262.2
C4' C3' C2' H2'' 271.3 139.5
H3'1 C3' C4' H3'2 250.6 123.6
H4' C4' C5' H5' 43.4 62.9
H4' C4' C5' H5'' 293.9 182.8
C5' C4' H4' O4' 119.5 123.0
C5' C4' H4' C3' 236.4 237.1
O4' C4' H4' C3' 116.9 114.1
H4' C4' O4' C1' 260.6 281.4
H4' C4' C3' C2' 88.0 81.5
H4' C4' C3' H3'1 213.3 323.3
H4' C4' C3' H3'2 322.7 199.7
C1' O4' C4' C3' 19.7 39.9
C1' O4' C4' H4' 260.6 281.4
C3' C2' C1' O4' 333.9 2.0
O4' C1' C2' H2' 208.7 120.6
O4' C1' C2' H2'' 99.2 243.3
C2' C1' O4' N9 122.9 119.6
C2' C1' O4' H1' 241.4 240.5
N9 C1' O4' H1' 118.5 120.9
O4' C1' N9 C8 26.7 28.4
O4' C1' N9 C4 207.5 208.2
C2' C3' C4' H4' 88.0 81.5
C4' C3' C2' H3'1 125.3 241.7
C4' C3' C2' H3'2 234.7 118.2
O4' C1' C2' C3' 333.9 2.0
H3'1 C3' C2' H3'2 109.4 236.4
C1' C2' C3' H2' 234.7 118.7
C1' C2' C3' H2'' 125.3 241.3
C3' C2' C1' N9 93.1 121.5
C3' C2' C1' H1' 211.5 242.5
H2' C2' C3' H2'' 250.6 122.6
H3'1 C3' C4' H4' 213.3 323.3
C4' C3' H3'1 C2' 241.9 112.8
C4' C3' H3'1 H3'2 120.9 236.4
C2' C3' H3'1 H3'2 239.1 123.6
H3'1 C3' C2' C1' 271.3 139.1
H3'1 C3' C2' H2' 36.6 20.4
H3'1 C3' C2' H2'' 146.0 257.8
H3'2 C3' C4' H4' 322.7 199.7
C4' C3' H3'2 C2' 118.1 247.3
C4' C3' H3'2 H3'1 239.1 123.7
C2' C3' H3'2 H3'1 120.9 236.4
H3'2 C3' C2' C1' 161.9 262.7
H3'2 C3' C2' H2' 287.2 144.0
H3'2 C3' C2' H2'' 36.6 21.4
O4' C1' C2' N9 240.9 240.5
O4' C1' C2' H1' 122.5 119.5
C1' C2' C3' H3'1 271.3 139.1
C1' C2' C3' H3'2 161.9 262.7
C3' C2' C1' H2' 125.3 241.4
C3' C2' C1' H2'' 234.8 118.7
H2' C2' C1' H2'' 109.5 237.3
N9 C1' C2' H1' 241.6 239.0
C2' C1' N9 C8 267.7 270.4
C2' C1' N9 C4 88.6 90.2
H2' C2' C3' H3'1 36.6 20.4
H2' C2' C3' H3'2 287.2 144.0
C3' C2' H2' C1' 242.1 114.8
C3' C2' H2' H2'' 121.0 237.4
C1' C2' H2' H2'' 238.9 122.7
H2' C2' C1' N9 327.8 240.1
H2' C2' C1' H1' 86.2 1.1
H2'' C2' C3' H3'1 146.0 257.8
H2'' C2' C3' H3'2 36.6 21.4
C3' C2' H2'' C1' 117.9 245.2
C3' C2' H2'' H2' 239.0 122.6
C1' C2' H2'' H2' 121.1 237.3
H2'' C2' C1' N9 218.3 2.8
H2'' C2' C1' H1' 336.7 123.8
O4' C1' N9 C2' 118.9 118.0
O4' C1' N9 H1' 237.5 239.0
N9 C1' C2' H2' 327.8 240.1
N9 C1' C2' H2'' 218.3 2.8
C2' C1' N9 H1' 118.6 121.0
C8 N9 C1' C4 179.1 180.1
C1' N9 C8 N7 181.4 179.9
C1' N9 C8 H8 1.4 359.9
C1' N9 C4 C5 178.4 180.3
C1' N9 C4 N3 359.1 0.1
O4' C1' H1' C2' 241.5 242.0
O4' C1' H1' N9 118.8 120.9
H1' C1' C2' H2' 86.2 1.1
H1' C1' C2' H2'' 336.7 123.8
C2' C1' H1' N9 237.4 238.9
H1' C1' N9 C8 149.2 149.3
H1' C1' N9 C4 330.1 329.2
C8 N9 C1' H1' 149.2 149.3
C1' N9 C8 C4 180.7 179.9
C8 N9 C4 C5 359.2 0.2
C8 N9 C4 N3 179.9 180.0
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 359.8 359.7
C4 N9 C1' H1' 330.1 329.2
C1' N9 C4 C8 179.3 180.1
C4 N9 C8 N7 0.7 0.0
C4 N9 C8 H8 180.7 180.0
N7 C5 C4 N9 0.8 359.6
C6 C5 C4 N9 181.0 180.4
C5 C4 N9 N3 179.3 180.3
C2 N3 C4 N9 178.9 180.0
N7 C8 N9 C4 0.7 0.0
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 179.4 179.4
C8 N7 C5 C4 359.6 0.4
H8 C8 N9 C4 180.7 180.0
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 179.8 179.7
N9 C4 C5 N7 0.8 359.6
C5 N7 C8 H8 179.8 179.7
C6 C5 N7 C4 179.7 179.0
N7 C5 C6 N6 0.2 0.8
N7 C5 C6 N1 180.1 180.5
N7 C5 C4 N3 180.1 179.8
N9 C4 C5 C6 181.0 180.4
N7 C5 C6 C4 180.3 181.1
C6 C5 C4 N3 0.3 0.6
N6 C6 C5 N1 180.1 180.3
C5 C6 N6 HN61 180.0 179.7
C5 C6 N6 HN62 54.7 359.5
C5 C6 N1 C2 360.0 0.3
N9 C4 C5 N3 180.7 179.8
N7 C5 C4 C6 179.8 179.2
C4 C5 C6 N6 179.9 179.7
C4 C5 C6 N1 359.8 359.4
C2 N3 C4 C5 359.8 359.7
N6 C6 C5 C4 179.9 179.7
C5 C6 N6 N1 179.9 179.7
N6 C6 N1 C2 179.9 180.0
HN61 N6 C6 HN62 125.2 180.2
N1 C6 C5 C4 359.8 359.4
C5 C6 N1 N6 180.1 180.3
N1 C6 N6 HN61 0.1 0.0
N1 C6 N6 HN62 234.8 179.8
C6 N1 C2 N3 0.1 360.0
C6 N1 C2 H2 180.1 179.9
HN61 N6 C6 N1 0.1 0.0
C6 N6 HN61 HN62 234.8 179.8
HN62 N6 C6 N1 234.8 179.8
C6 N6 HN62 HN61 134.8 180.2
N3 C2 N1 H2 180.0 180.1
N1 C2 N3 C4 0.0 0.0
N9 C4 N3 C2 178.9 180.0
C5 C4 N3 C2 359.8 359.7
N1 C2 N3 H2 180.0 179.9
N1 C2 H2 N3 180.0 180.1
H2 C2 N3 C4 180.0 180.1
N9 C4 N3 C5 179.2 180.3
C4 N3 C2 H2 180.0 180.1