PDB Chemical Component ATM

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 ATM

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.455 1.480
P OP2 1.471 1.610
P OP3 1.566 1.611
P O5' 1.575 1.610
OP2 HOP2 0.950 0.967
OP3 HOP3 0.950 0.967
O5' C5' 1.405 1.429
C5' C4' 1.547 1.530
C5' H5' 1.115 1.090
C5' H5'' 1.115 1.090
C4' O4' 1.431 1.446
C4' C3' 1.533 1.550
C4' H4' 1.114 1.090
O4' C1' 1.425 1.437
C3' N3' 1.436 1.465
C3' C2' 1.498 1.548
C3' H3' 1.116 1.090
N3' N4' 1.232 1.123
N4' N5' 1.095 1.124
C2' C1' 1.513 1.541
C2' H2' 1.116 1.090
C2' H2'' 1.114 1.091
C1' N1 1.456 1.466
C1' H1' 1.115 1.090
N1 C2 1.409 1.345
N1 C6 1.391 1.368
C2 O2 1.244 1.216
C2 N3 1.393 1.346
N3 C4 1.384 1.348
N3 HN3 1.019 0.970
C4 O4 1.212 1.219
C4 C5 1.444 1.415
C5 C5A 1.507 1.507
C5 C6 1.359 1.351
C5A H51 1.115 1.090
C5A H52 1.114 1.091
C5A H53 1.115 1.090
C6 H6 1.103 1.081

Bond Angles for ATM

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.1 109.5
OP1 P OP3 112.5 109.5
OP1 P O5' 105.6 109.5
OP2 P OP3 109.0 109.5
OP2 P O5' 104.0 109.4
P OP2 HOP2 119.1 106.8
OP3 P O5' 105.2 109.5
P OP3 HOP3 112.5 106.8
P O5' C5' 124.0 106.8
O5' C5' C4' 108.8 109.5
O5' C5' H5' 112.4 109.4
O5' C5' H5'' 112.4 109.4
C4' C5' H5' 112.5 109.5
C4' C5' H5'' 112.5 109.5
C5' C4' O4' 115.6 110.8
C5' C4' C3' 110.8 110.6
C5' C4' H4' 103.1 110.5
H5' C5' H5'' 98.0 109.5
O4' C4' C3' 105.4 103.6
O4' C4' H4' 108.7 110.6
C4' O4' C1' 106.7 106.8
C3' C4' H4' 113.6 110.6
C4' C3' N3' 109.7 111.0
C4' C3' C2' 106.6 102.1
C4' C3' H3' 110.8 110.9
O4' C1' C2' 105.7 107.4
O4' C1' N1 109.6 109.9
O4' C1' H1' 112.2 109.9
N3' C3' C2' 108.2 110.9
N3' C3' H3' 109.3 110.8
C3' N3' N4' 132.4 120.1
C2' C3' H3' 112.1 110.9
C3' C2' C1' 101.0 104.2
C3' C2' H2' 115.4 110.5
C3' C2' H2'' 115.4 110.5
N3' N4' N5' 179.5 179.9
C1' C2' H2' 115.5 110.5
C1' C2' H2'' 115.5 110.5
C2' C1' N1 110.6 109.9
C2' C1' H1' 111.3 109.9
H2' C2' H2'' 95.0 110.5
N1 C1' H1' 107.5 109.8
C1' N1 C2 116.9 119.7
C1' N1 C6 120.0 119.7
C2 N1 C6 122.4 120.6
N1 C2 O2 124.9 119.6
N1 C2 N3 114.1 120.9
N1 C6 C5 121.0 119.7
N1 C6 H6 120.7 120.2
O2 C2 N3 120.9 119.5
C2 N3 C4 126.0 120.2
C2 N3 HN3 117.4 119.9
C4 N3 HN3 116.6 119.9
N3 C4 O4 119.7 120.3
N3 C4 C5 116.2 119.4
O4 C4 C5 124.0 120.3
C4 C5 C5A 118.0 120.5
C4 C5 C6 119.6 119.1
C5A C5 C6 122.2 120.4
C5 C5A H51 118.1 109.5
C5 C5A H52 109.1 109.5
C5 C5A H53 109.1 109.5
C5 C6 H6 118.3 120.1
H51 C5A H52 109.1 109.4
H51 C5A H53 109.1 109.5
H52 C5A H53 101.0 109.5

Torsion Angles for ATM

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 OP3 230.6 120.0
OP2 P OP1 O5' 116.3 240.0
OP1 P OP2 HOP2 180.0 300.0
OP3 P OP1 O5' 245.8 120.0
OP1 P OP3 HOP3 180.0 180.0
OP1 P O5' C5' 295.1 55.0
OP1 P OP2 OP3 131.0 240.0
OP1 P OP2 O5' 242.8 120.0
OP3 P OP2 O5' 111.8 240.0
OP2 P OP3 HOP3 314.5 60.0
OP2 P O5' C5' 168.9 175.0
OP1 P OP3 OP2 225.5 120.0
OP1 P OP3 O5' 114.5 240.0
OP2 P OP3 O5' 248.9 120.0
OP3 P OP2 HOP2 49.0 60.0
OP3 P O5' C5' 54.4 295.0
OP1 P O5' OP2 126.2 240.0
OP1 P O5' OP3 240.8 120.0
OP2 P O5' OP3 114.6 240.0
O5' P OP2 HOP2 297.1 180.0
O5' P OP3 HOP3 65.6 300.0
P O5' C5' C4' 204.8 180.0
P O5' C5' H5' 330.1 60.0
P O5' C5' H5'' 79.6 300.0
HOP2 OP2 P OP3 49.0 60.0
HOP2 OP2 P O5' 297.1 180.0
HOP3 OP3 P O5' 65.6 300.0
C4' C5' O5' H5' 234.8 120.0
C4' C5' O5' H5'' 125.3 240.0
O5' C5' C4' O4' 285.9 70.7
O5' C5' C4' C3' 45.7 185.0
O5' C5' C4' H4' 167.5 307.9
H5' C5' O5' H5'' 250.5 120.0
O5' C5' C4' H5' 125.2 240.0
O5' C5' C4' H5'' 234.8 120.0
H5' C5' C4' H5'' 109.6 240.0
O4' C4' C5' C3' 240.2 245.7
O4' C4' C5' H4' 118.4 122.9
C5' C4' O4' C1' 146.2 158.5
C3' C4' C5' H4' 238.1 237.2
C5' C4' C3' N3' 117.1 86.1
C5' C4' C3' C2' 234.1 204.3
C5' C4' C3' H3' 356.4 322.5
O5' C5' H5' C4' 236.8 120.0
O5' C5' H5' H5'' 118.3 240.1
C4' C5' H5' H5'' 241.5 120.1
H5' C5' C4' O4' 160.7 190.7
H5' C5' C4' C3' 280.5 305.0
H5' C5' C4' H4' 42.3 67.8
O5' C5' H5'' C4' 123.2 240.0
O5' C5' H5'' H5' 241.7 119.9
C4' C5' H5'' H5' 118.4 239.9
H5'' C5' C4' O4' 51.1 310.8
H5'' C5' C4' C3' 170.9 65.1
H5'' C5' C4' H4' 292.8 187.9
O4' C4' C5' H5' 160.7 190.7
O4' C4' C5' H5'' 51.1 310.8
C5' C4' O4' C3' 122.6 118.6
C5' C4' O4' H4' 244.8 237.1
C3' C4' O4' H4' 122.2 118.5
O4' C4' C3' N3' 242.8 204.8
O4' C4' C3' C2' 359.7 323.0
O4' C4' C3' H3' 122.0 81.2
C4' O4' C1' C2' 321.6 333.7
C4' O4' C1' N1 202.4 214.2
C4' O4' C1' H1' 83.1 93.2
C3' C4' C5' H5' 280.5 305.0
C3' C4' C5' H5'' 170.9 65.1
C5' C4' C3' O4' 234.3 241.3
C5' C4' C3' H4' 115.4 122.8
O4' C4' C3' H4' 241.1 241.5
C3' C4' O4' C1' 23.6 39.9
N3' C3' C4' C2' 243.0 241.8
N3' C3' C4' H3' 120.7 123.6
C4' C3' N3' N4' 243.6 179.2
C2' C3' C4' H3' 237.7 241.8
C4' C3' C2' C1' 338.8 20.9
C4' C3' C2' H2' 104.1 262.2
C4' C3' C2' H2'' 213.5 139.5
H4' C4' C5' H5' 42.3 67.8
H4' C4' C5' H5'' 292.8 187.9
C5' C4' H4' O4' 123.1 123.0
C5' C4' H4' C3' 240.1 237.2
O4' C4' H4' C3' 117.0 114.2
H4' C4' O4' C1' 261.5 281.4
H4' C4' C3' N3' 1.7 323.3
H4' C4' C3' C2' 118.6 81.5
H4' C4' C3' H3' 240.9 199.7
C1' O4' C4' C3' 23.6 39.9
C1' O4' C4' H4' 261.5 281.4
C3' C2' C1' O4' 36.3 2.0
O4' C1' C2' H2' 271.0 120.7
O4' C1' C2' H2'' 161.5 243.3
C2' C1' O4' N1 119.2 119.5
C2' C1' O4' H1' 238.6 240.5
N1 C1' O4' H1' 119.4 121.0
O4' C1' N1 C2 240.1 53.3
O4' C1' N1 C6 51.3 233.3
N3' C3' C4' H4' 1.7 323.3
C4' C3' N3' C2' 116.0 112.7
C4' C3' N3' H3' 238.4 236.3
C2' C3' N3' H3' 122.4 123.6
N3' C3' C2' C1' 96.7 139.1
N3' C3' C2' H2' 222.0 20.5
N3' C3' C2' H2'' 331.4 257.8
C3' N3' N4' N5' 134.9 7.3
C2' C3' C4' H4' 118.6 81.5
C4' C3' C2' N3' 242.1 241.7
C4' C3' C2' H3' 121.4 118.2
O4' C1' C2' C3' 36.3 2.0
N3' C3' C2' H3' 239.4 236.5
C2' C3' N3' N4' 127.6 66.5
C1' C2' C3' H2' 234.7 118.7
C1' C2' C3' H2'' 125.3 241.3
C3' C2' C1' N1 154.8 121.5
C3' C2' C1' H1' 274.2 242.4
H2' C2' C3' H2'' 250.6 122.7
H3' C3' C4' H4' 240.9 199.7
C4' C3' H3' N3' 120.9 123.7
C4' C3' H3' C2' 241.0 247.3
N3' C3' H3' C2' 120.0 123.6
H3' C3' N3' N4' 5.2 302.8
H3' C3' C2' C1' 217.4 262.7
H3' C3' C2' H2' 342.6 144.0
H3' C3' C2' H2'' 92.1 21.3
N4' N3' C3' C2' 127.6 66.5
N4' N3' C3' H3' 5.2 302.8
O4' C1' C2' N1 241.4 240.5
O4' C1' C2' H1' 122.0 119.6
C1' C2' C3' H3' 217.4 262.7
C3' C2' C1' H2' 125.2 241.3
C3' C2' C1' H2'' 234.7 118.7
H2' C2' C1' H2'' 109.5 237.4
N1 C1' C2' H1' 240.6 239.1
C2' C1' N1 C2 124.0 295.3
C2' C1' N1 C6 295.1 115.3
H2' C2' C3' H3' 342.6 144.0
C3' C2' H2' C1' 242.6 114.8
C3' C2' H2' H2'' 121.3 237.4
C1' C2' H2' H2'' 238.7 122.6
H2' C2' C1' N1 29.6 240.2
H2' C2' C1' H1' 149.0 1.1
H2'' C2' C3' H3' 92.1 21.3
C3' C2' H2'' C1' 117.4 245.2
C3' C2' H2'' H2' 238.8 122.6
C1' C2' H2'' H2' 121.3 237.4
H2'' C2' C1' N1 280.1 2.8
H2'' C2' C1' H1' 39.5 123.7
O4' C1' N1 C2' 116.2 118.0
O4' C1' N1 H1' 237.8 239.0
N1 C1' C2' H2' 29.6 240.2
N1 C1' C2' H2'' 280.1 2.8
C2' C1' N1 H1' 121.6 121.0
C2 N1 C1' C6 188.8 180.0
C1' N1 C2 O2 355.2 0.1
C1' N1 C2 N3 173.2 180.0
C1' N1 C6 C5 194.1 179.9
C1' N1 C6 H6 14.1 0.0
O4' C1' H1' C2' 241.8 242.0
O4' C1' H1' N1 120.6 121.0
H1' C1' C2' H2' 149.0 1.1
H1' C1' C2' H2'' 39.5 123.7
C2' C1' H1' N1 238.8 239.0
H1' C1' N1 C2 2.3 174.3
H1' C1' N1 C6 173.5 354.3
C2 N1 C1' H1' 2.3 174.3
C1' N1 C2 C6 170.9 180.0
C2 N1 C6 C5 4.8 360.0
C2 N1 C6 H6 184.7 180.1
O2 C2 N1 N3 182.0 180.1
N1 C2 N3 C4 351.9 359.8
N1 C2 N3 HN3 171.9 180.0
C6 N1 C1' H1' 173.5 354.3
C1' N1 C6 C2 189.3 180.0
C6 N1 C2 O2 184.3 180.0
C6 N1 C2 N3 2.3 359.9
C4 C5 C6 N1 353.5 0.3
C5A C5 C6 N1 168.7 180.0
C5 C6 N1 H6 180.0 179.9
O2 C2 N1 C6 184.3 180.0
N1 C2 O2 N3 177.9 179.9
O2 C2 N3 C4 170.0 179.8
O2 C2 N3 HN3 350.0 360.0
N3 C2 N1 C6 2.3 359.9
N1 C2 N3 O2 181.9 180.1
C4 N3 C2 HN3 180.0 179.8
C2 N3 C4 O4 189.6 180.0
C2 N3 C4 C5 6.5 0.4
C2 N3 C4 HN3 180.0 180.2
O4 C4 N3 C5 183.1 179.6
N3 C4 C5 C5A 185.8 179.8
N3 C4 C5 C6 1.2 359.5
C2 N3 HN3 C4 180.0 179.8
HN3 N3 C4 O4 9.5 359.8
HN3 N3 C4 C5 186.5 180.2
O4 C4 N3 HN3 9.5 359.8
N3 C4 O4 C5 176.7 180.4
O4 C4 C5 C5A 2.6 0.3
O4 C4 C5 C6 178.0 179.9
N1 C6 C5 C4 353.5 0.3
C5 C4 N3 HN3 186.5 180.2
N3 C4 C5 O4 183.2 179.6
C5A C5 C4 C6 184.7 180.3
C4 C5 C5A H51 180.0 269.8
C4 C5 C5A H52 305.3 29.7
C4 C5 C5A H53 54.7 149.7
C4 C5 C6 H6 173.6 180.2
N1 C6 C5 C5A 168.7 180.0
C4 C5 C5A C6 175.2 179.7
C5A C5 C6 H6 348.7 359.9
H51 C5A C5 H52 234.7 240.1
H51 C5A C5 H53 125.3 120.1
H52 C5A C5 H53 250.5 240.0
N1 C6 C5 H6 180.0 180.1
C4 C5 C6 C5A 184.9 180.3
C6 C5 C5A H51 4.8 90.1
C6 C5 C5A H52 130.1 210.0
C6 C5 C5A H53 239.5 330.0
H51 C5A C5 C6 4.8 90.1
C5 C5A H51 H52 125.3 120.0
C5 C5A H51 H53 234.7 240.0
H52 C5A H51 H53 109.4 120.0
H52 C5A C5 C6 130.1 210.0
C5 C5A H52 H51 229.7 240.0
C5 C5A H52 H53 114.9 120.0
H51 C5A H52 H53 245.2 240.0
H53 C5A C5 C6 239.5 330.0
C5 C5A H53 H51 130.3 120.0
C5 C5A H53 H52 245.1 240.0
H51 C5A H53 H52 114.8 120.0
N1 C6 H6 C5 180.0 179.9