PDB Chemical Component A2P

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 A2P

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P1 O1P 1.520 1.480
P1 O2P 1.520 1.610
P1 O3P 1.516 1.610
P1 O2' 1.632 1.610
O2P HOP2 0.951 0.967
O3P HOP3 0.951 0.967
P2 O4P 1.526 1.480
P2 O5P 1.526 1.609
P2 O6P 1.527 1.609
P2 O5' 1.633 1.610
O5P HOP5 0.950 0.967
O6P HOP6 0.950 0.967
O5' C5' 1.443 1.428
C5' C4' 1.515 1.529
C5' H5'1 1.116 1.090
C5' H5'2 1.115 1.090
C4' O4' 1.458 1.444
C4' C3' 1.522 1.544
C4' H4' 1.115 1.090
O4' C1' 1.421 1.443
C3' O3' 1.422 1.429
C3' C2' 1.525 1.546
C3' H3' 1.115 1.090
O3' HO3' 0.950 0.968
C2' O2' 1.423 1.429
C2' C1' 1.530 1.543
C2' H2' 1.115 1.090
C1' N9 1.466 1.465
C1' H1' 1.114 1.090
N9 C8 1.379 1.363
N9 C4 1.374 1.372
C8 N7 1.313 1.301
C8 H8 1.104 1.080
N7 C5 1.393 1.354
C5 C6 1.426 1.406
C5 C4 1.387 1.405
C6 N6 1.335 1.383
C6 N1 1.360 1.328
N6 HN61 1.019 0.970
N6 HN62 1.020 0.971
N1 C2 1.346 1.320
C2 N3 1.338 1.316
C2 H2 1.102 1.080
N3 C4 1.352 1.329

Bond Angles for A2P

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1P P1 O2P 112.9 109.4
O1P P1 O3P 113.0 109.5
O1P P1 O2' 106.7 109.5
O2P P1 O3P 113.2 109.5
O2P P1 O2' 106.5 109.5
P1 O2P HOP2 113.0 106.8
O3P P1 O2' 103.7 109.5
P1 O3P HOP3 113.0 106.8
P1 O2' C2' 123.2 106.8
O4P P2 O5P 112.6 109.5
O4P P2 O6P 112.8 109.4
O4P P2 O5' 105.9 109.4
O5P P2 O6P 113.4 109.5
O5P P2 O5' 105.1 109.5
P2 O5P HOP5 112.6 106.8
O6P P2 O5' 106.2 109.5
P2 O6P HOP6 112.9 106.8
P2 O5' C5' 121.2 106.8
O5' C5' C4' 109.8 109.5
O5' C5' H5'1 112.1 109.4
O5' C5' H5'2 112.1 109.4
C4' C5' H5'1 112.1 109.5
C4' C5' H5'2 112.1 109.4
C5' C4' O4' 109.1 110.4
C5' C4' C3' 114.4 110.5
C5' C4' H4' 105.0 110.3
H5'1 C5' H5'2 98.3 109.5
O4' C4' C3' 104.7 104.8
O4' C4' H4' 114.6 110.3
C4' O4' C1' 109.8 105.3
C3' C4' H4' 109.3 110.4
C4' C3' O3' 107.8 110.6
C4' C3' C2' 101.7 104.1
C4' C3' H3' 115.9 110.5
O4' C1' C2' 106.2 104.9
O4' C1' N9 107.7 110.4
O4' C1' H1' 114.9 110.4
O3' C3' C2' 111.1 110.5
O3' C3' H3' 107.3 110.4
C3' O3' HO3' 107.8 106.8
C2' C3' H3' 112.9 110.6
C3' C2' O2' 112.0 110.5
C3' C2' C1' 100.9 104.0
C3' C2' H2' 115.3 110.5
O2' C2' C1' 114.8 110.8
O2' C2' H2' 101.7 110.4
C1' C2' H2' 112.7 110.4
C2' C1' N9 115.1 110.4
C2' C1' H1' 107.4 110.4
N9 C1' H1' 105.9 110.3
C1' N9 C8 128.9 126.3
C1' N9 C4 125.2 126.3
C8 N9 C4 105.9 107.4
N9 C8 N7 113.7 110.0
N9 C8 H8 125.3 125.0
N9 C4 C5 105.9 106.0
N9 C4 N3 127.2 134.9
N7 C8 H8 121.0 125.0
C8 N7 C5 103.9 109.4
N7 C5 C6 132.8 134.7
N7 C5 C4 110.7 107.1
C6 C5 C4 116.5 118.2
C5 C6 N6 123.9 120.8
C5 C6 N1 117.8 118.4
C5 C4 N3 126.9 119.0
N6 C6 N1 118.3 120.8
C6 N6 HN61 123.9 120.0
C6 N6 HN62 107.1 120.0
C6 N1 C2 118.7 121.2
HN61 N6 HN62 107.2 120.0
N1 C2 N3 128.9 122.5
N1 C2 H2 115.9 118.7
N3 C2 H2 115.2 118.8
C2 N3 C4 111.2 120.7

Torsion Angles for A2P

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2P P1 O1P O3P 130.1 120.0
O2P P1 O1P O2' 243.4 240.0
O1P P1 O2P HOP2 180.0 300.0
O3P P1 O1P O2' 113.3 120.0
O1P P1 O3P HOP3 179.9 180.0
O1P P1 O2' C2' 294.4 60.1
O1P P1 O2P O3P 230.0 240.0
O1P P1 O2P O2' 116.7 120.0
O3P P1 O2P O2' 246.8 240.0
O2P P1 O3P HOP3 50.0 60.0
O2P P1 O2' C2' 55.2 180.0
O1P P1 O3P O2P 130.0 120.0
O1P P1 O3P O2' 244.9 240.0
O2P P1 O3P O2' 114.9 120.0
O3P P1 O2P HOP2 310.0 60.0
O3P P1 O2' C2' 174.9 300.0
O1P P1 O2' O2P 239.2 240.0
O1P P1 O2' O3P 119.5 120.0
O2P P1 O2' O3P 240.4 240.0
O2' P1 O2P HOP2 63.3 180.0
O2' P1 O3P HOP3 295.0 300.0
C3' C2' O2' P1 241.6 238.5
P1 O2' C2' C1' 127.3 123.8
P1 O2' C2' H2' 5.3 1.1
HOP2 O2P P1 O3P 310.0 60.0
HOP2 O2P P1 O2' 63.3 180.0
HOP3 O3P P1 O2' 295.0 300.0
O5P P2 O4P O6P 129.9 120.0
O5P P2 O4P O5' 245.7 240.0
O4P P2 O5P HOP5 180.0 299.9
O6P P2 O4P O5' 115.7 120.0
O4P P2 O6P HOP6 180.0 180.0
O4P P2 O5' C5' 165.9 60.0
O4P P2 O5P O6P 230.4 240.1
O4P P2 O5P O5' 114.8 120.0
O6P P2 O5P O5' 244.4 239.9
O5P P2 O6P HOP6 50.5 60.1
O5P P2 O5' C5' 285.3 179.9
O4P P2 O6P O5P 129.5 120.0
O4P P2 O6P O5' 244.4 240.1
O5P P2 O6P O5' 114.9 120.1
O6P P2 O5P HOP5 309.7 59.9
O6P P2 O5' C5' 45.8 300.0
O4P P2 O5' O5P 240.6 240.0
O4P P2 O5' O6P 120.2 119.9
O5P P2 O5' O6P 239.6 239.9
O5' P2 O5P HOP5 65.2 180.0
O5' P2 O6P HOP6 295.6 300.0
P2 O5' C5' C4' 191.6 180.0
P2 O5' C5' H5'1 316.9 59.9
P2 O5' C5' H5'2 66.3 300.0
HOP5 O5P P2 O6P 309.7 59.9
HOP5 O5P P2 O5' 65.2 180.0
HOP6 O6P P2 O5' 295.6 300.0
C4' C5' O5' H5'1 234.7 120.1
C4' C5' O5' H5'2 125.3 240.0
O5' C5' C4' O4' 301.8 61.4
O5' C5' C4' C3' 58.7 176.9
O5' C5' C4' H4' 178.6 299.2
H5'1 C5' O5' H5'2 250.6 119.9
O5' C5' C4' H5'1 125.3 240.0
O5' C5' C4' H5'2 234.7 120.0
H5'1 C5' C4' H5'2 109.5 240.0
O4' C4' C5' C3' 243.1 244.5
O4' C4' C5' H4' 123.3 122.2
C5' C4' O4' C1' 108.7 159.5
C3' C4' C5' H4' 240.2 237.7
C5' C4' C3' O3' 157.7 98.3
C5' C4' C3' C2' 274.6 217.0
C5' C4' C3' H3' 37.5 335.8
O5' C5' H5'1 C4' 236.0 120.1
O5' C5' H5'1 H5'2 117.9 240.1
C4' C5' H5'1 H5'2 242.0 120.0
H5'1 C5' C4' O4' 176.6 181.5
H5'1 C5' C4' C3' 293.5 296.9
H5'1 C5' C4' H4' 53.3 59.3
O5' C5' H5'2 C4' 124.1 240.0
O5' C5' H5'2 H5'1 242.1 119.9
C4' C5' H5'2 H5'1 118.0 240.0
H5'2 C5' C4' O4' 67.1 301.5
H5'2 C5' C4' C3' 184.0 56.9
H5'2 C5' C4' H4' 303.9 179.3
O4' C4' C5' H5'1 176.6 181.5
O4' C4' C5' H5'2 67.1 301.5
C5' C4' O4' C3' 122.9 119.0
C5' C4' O4' H4' 242.7 237.8
C3' C4' O4' H4' 119.8 118.8
O4' C4' C3' O3' 277.1 217.3
O4' C4' C3' C2' 34.0 336.0
O4' C4' C3' H3' 156.9 94.7
C4' O4' C1' C2' 348.1 319.6
C4' O4' C1' N9 224.4 200.7
C4' O4' C1' H1' 106.6 78.5
C3' C4' C5' H5'1 293.5 296.9
C3' C4' C5' H5'2 184.0 56.9
C5' C4' C3' O4' 240.6 241.1
C5' C4' C3' H4' 117.4 122.3
O4' C4' C3' H4' 236.7 241.2
C3' C4' O4' C1' 345.9 40.5
O3' C3' C4' C2' 243.0 241.3
O3' C3' C4' H3' 120.2 122.6
C4' C3' O3' HO3' 180.0 298.6
C2' C3' C4' H3' 237.2 241.3
C4' C3' C2' O2' 197.5 241.2
C4' C3' C2' C1' 320.1 0.1
C4' C3' C2' H2' 81.8 118.6
H4' C4' C5' H5'1 53.3 59.3
H4' C4' C5' H5'2 303.9 179.3
C5' C4' H4' O4' 119.7 122.3
C5' C4' H4' C3' 236.9 237.6
O4' C4' H4' C3' 117.2 115.3
H4' C4' O4' C1' 226.1 281.7
H4' C4' C3' O3' 40.3 336.0
H4' C4' C3' C2' 157.3 94.7
H4' C4' C3' H3' 280.1 213.5
C1' O4' C4' C3' 345.9 40.5
C1' O4' C4' H4' 226.1 281.7
C3' C2' C1' O4' 32.6 23.8
O2' C2' C1' O4' 153.3 142.6
O4' C1' C2' H2' 269.1 265.3
C2' C1' O4' N9 123.8 118.9
C2' C1' O4' H1' 241.5 241.0
N9 C1' O4' H1' 117.7 122.2
O4' C1' N9 C8 88.2 27.0
O4' C1' N9 C4 269.3 207.1
O3' C3' C4' H4' 40.3 336.0
C4' C3' O3' C2' 110.6 114.7
C4' C3' O3' H3' 234.5 237.4
C2' C3' O3' H3' 123.9 122.7
O3' C3' C2' O2' 312.0 359.9
O3' C3' C2' C1' 74.6 118.9
O3' C3' C2' H2' 196.3 237.4
P1 O2' C2' C3' 241.6 238.5
C2' C3' C4' H4' 157.3 94.7
C4' C3' C2' O3' 245.5 241.3
C4' C3' C2' H3' 124.9 118.7
O4' C1' C2' C3' 32.6 23.8
O3' C3' C2' H3' 239.4 237.4
C2' C3' O3' HO3' 69.4 183.9
O2' C2' C3' C1' 237.4 241.0
O2' C2' C3' H2' 115.7 122.5
C1' C2' C3' H2' 238.3 241.5
C3' C2' C1' N9 151.6 142.7
C3' C2' C1' H1' 269.3 264.9
H3' C3' C4' H4' 280.1 213.5
C4' C3' H3' O3' 120.5 122.7
C4' C3' H3' C2' 243.3 245.3
O3' C3' H3' C2' 122.8 122.6
H3' C3' O3' HO3' 305.5 61.2
H3' C3' C2' O2' 72.6 122.5
H3' C3' C2' C1' 195.2 241.4
H3' C3' C2' H2' 316.9 359.9
HO3' O3' C3' C2' 69.4 183.9
HO3' O3' C3' H3' 305.5 61.2
O4' C1' C2' O2' 153.3 142.6
O2' C2' C3' H3' 72.6 122.5
C3' C2' O2' C1' 114.3 114.7
C3' C2' O2' H2' 236.3 237.4
C1' C2' O2' H2' 122.0 122.7
O2' C2' C1' N9 272.3 261.5
O2' C2' C1' H1' 29.9 23.7
O4' C1' C2' N9 241.0 241.1
O4' C1' C2' H1' 123.3 118.9
C1' C2' C3' H3' 195.2 241.4
C3' C2' C1' O2' 239.4 241.2
C3' C2' C1' H2' 123.6 118.6
O2' C2' C1' H2' 244.2 237.3
N9 C1' C2' H1' 242.3 237.8
C2' C1' N9 C8 330.0 271.5
C2' C1' N9 C4 151.1 91.6
H2' C2' C3' H3' 316.9 359.9
C3' C2' H2' O2' 121.4 122.6
C3' C2' H2' C1' 244.9 245.5
O2' C2' H2' C1' 123.4 122.9
H2' C2' C1' N9 28.1 24.2
H2' C2' C1' H1' 145.7 146.4
O4' C1' N9 C2' 118.2 115.5
O4' C1' N9 H1' 236.6 237.8
N9 C1' C2' H2' 28.1 24.2
C2' C1' N9 H1' 118.5 122.3
C8 N9 C1' C4 178.9 179.9
C1' N9 C8 N7 181.8 180.0
C1' N9 C8 H8 1.7 0.1
C1' N9 C4 C5 178.2 180.2
C1' N9 C4 N3 358.5 359.9
O4' C1' H1' C2' 242.2 244.5
O4' C1' H1' N9 118.7 122.2
H1' C1' C2' H2' 145.7 146.4
C2' C1' H1' N9 236.5 237.7
H1' C1' N9 C8 211.5 149.2
H1' C1' N9 C4 32.7 329.3
C8 N9 C1' H1' 211.5 149.2
C1' N9 C8 C4 181.0 180.1
C8 N9 C4 C5 359.1 0.3
C8 N9 C4 N3 179.4 180.0
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 359.7 359.8
C4 N9 C1' H1' 32.7 329.3
C1' N9 C4 C8 179.1 179.9
C4 N9 C8 N7 0.8 359.9
C4 N9 C8 H8 180.8 180.0
N7 C5 C4 N9 0.8 359.6
C6 C5 C4 N9 180.6 180.3
C5 C4 N9 N3 179.7 180.3
C2 N3 C4 N9 179.6 180.0
N7 C8 N9 C4 0.8 359.9
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 179.9 179.5
C8 N7 C5 C4 359.7 0.4
H8 C8 N9 C4 180.8 180.0
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 179.7 179.8
N9 C4 C5 N7 0.8 359.6
C5 N7 C8 H8 179.7 179.8
C6 C5 N7 C4 180.2 179.1
N7 C5 C6 N6 359.3 0.7
N7 C5 C6 N1 179.5 180.4
N7 C5 C4 N3 180.5 179.8
N9 C4 C5 C6 180.6 180.3
N7 C5 C6 C4 179.7 181.0
C6 C5 C4 N3 0.3 0.6
N6 C6 C5 N1 179.8 180.3
C5 C6 N6 HN61 180.0 179.7
C5 C6 N6 HN62 54.7 359.5
C5 C6 N1 C2 359.9 0.3
N9 C4 C5 N3 180.3 179.8
N7 C5 C4 C6 180.2 179.2
C4 C5 C6 N6 179.5 179.7
C4 C5 C6 N1 359.8 359.4
C2 N3 C4 C5 360.0 359.7
N6 C6 C5 C4 179.5 179.7
C5 C6 N6 N1 180.2 179.7
N6 C6 N1 C2 180.2 180.0
HN61 N6 C6 HN62 125.4 180.2
N1 C6 C5 C4 359.8 359.4
C5 C6 N1 N6 179.8 180.3
N1 C6 N6 HN61 359.8 360.0
N1 C6 N6 HN62 234.4 179.8
C6 N1 C2 N3 0.4 360.0
C6 N1 C2 H2 180.4 180.0
HN61 N6 C6 N1 359.8 360.0
C6 N6 HN61 HN62 234.7 179.8
HN62 N6 C6 N1 234.4 179.8
C6 N6 HN62 HN61 134.9 180.2
N3 C2 N1 H2 180.0 180.0
N1 C2 N3 C4 359.7 0.0
N9 C4 N3 C2 179.6 180.0
C5 C4 N3 C2 360.0 359.7
N1 C2 N3 H2 180.0 180.0
N1 C2 H2 N3 180.0 180.0
H2 C2 N3 C4 179.7 180.0
N9 C4 N3 C5 179.6 180.3
C4 N3 C2 H2 179.7 180.0