PDB Chemical Component A9Z

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 A9Z

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O3' C3' 1.419 1.429
C3' C4' 1.535 1.541
C3' C2' 1.552 1.549
C4' C5' 1.510 1.530
C4' O4' 1.466 1.438
C5' O5' 1.406 1.429
C6T C4T 1.551 1.506
C6T C7T 1.499 1.530
C4T C5T 1.445 1.353
C4T N3T 1.368 1.338
C5T N1T 1.355 1.353
OP1 P 1.569 1.480
N3T N2T 1.374 1.286
N1T C2' 1.378 1.465
N1T N2T 1.413 1.287
C2' C1' 1.551 1.549
O4' C1' 1.469 1.444
O5' P 1.754 1.610
C1' N9 1.431 1.466
P OP3 1.726 1.610
P OP2 1.500 1.610
N3 C4 1.341 1.329
N3 C2 1.360 1.316
N9 C4 1.355 1.372
N9 C8 1.371 1.363
C4 C5 1.454 1.405
C2 N1 1.325 1.321
C8 N7 1.338 1.301
C5 N7 1.397 1.355
C5 C6 1.456 1.405
N1 C6 1.408 1.329
C6 N6 1.317 1.383
OP2 H1 0.950 0.967
C5' H2 1.100 1.090
C5' H3 1.100 1.091
C4' H4 1.100 1.090
C3' H5 1.100 1.090
O3' H6 0.950 0.968
C2' H7 1.100 1.090
C5T H8 1.080 1.080
C6T H9 1.100 1.089
C6T H10 1.100 1.091
C7T H11 1.100 1.091
C7T H12 1.100 1.091
C7T H13 1.100 1.090
C1' H14 1.101 1.090
C8 H15 1.080 1.080
C2 H16 1.081 1.079
N6 H17 1.000 0.971
N6 H18 1.000 0.970
OP3 H19 0.950 0.967

Bond Angles for A9Z

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O3' C3' C2' 113.1 110.5
O3' C3' H5 112.5 110.5
C3' C4' O4' 106.0 107.3
C3' C4' H4 107.4 110.0
C3' C2' C1' 97.8 102.1
C2' C3' H5 110.4 110.5
C3' C2' H7 109.9 110.9
C4' C5' H2 111.2 109.5
C4' C5' H3 111.2 109.4
C4' O4' C1' 105.4 107.0
O4' C4' H4 108.3 109.9
C6T C4T N3T 126.0 126.8
C7T C6T H9 112.2 109.5
C7T C6T H10 112.2 109.4
C6T C7T H11 109.5 109.4
C6T C7T H12 109.4 109.5
C6T C7T H13 109.5 109.5
C4T C5T H8 125.9 126.9
C4T N3T N2T 112.5 108.9
C5T N1T N2T 109.4 108.2
OP1 P OP3 101.0 109.5
OP1 P OP2 109.7 109.5
N1T N2T N3T 105.2 110.2
N1T C2' C1' 112.0 110.9
N1T C2' H7 112.5 110.8
C2' C1' N9 109.3 110.6
C1' C2' H7 109.9 110.9
C2' C1' H14 111.5 110.6
O4' C1' N9 105.8 110.6
O4' C1' H14 112.7 110.7
O5' P OP3 96.0 109.5
C1' N9 C4 127.2 126.3
C1' N9 C8 124.4 126.3
N9 C1' H14 113.4 110.5
OP2 P OP3 121.3 109.4
P OP3 H19 109.5 114.0
P OP2 H1 109.5 114.0
N3 C2 N1 126.8 122.4
N3 C2 H16 116.6 118.8
C4 N9 C8 108.3 107.5
N9 C4 C5 107.2 106.0
N9 C8 N7 110.6 110.0
N9 C8 H15 124.7 125.0
C4 C5 N7 105.4 107.1
C4 C5 C6 116.5 118.2
C2 N1 C6 118.5 121.2
N1 C2 H16 116.6 118.8
N7 C5 C6 138.1 134.7
C5 C6 N1 118.6 118.4
C5 C6 N6 118.8 120.8
N1 C6 N6 122.5 120.8
C6 N6 H17 109.5 120.0
C6 N6 H18 109.5 120.0
H2 C5' H3 109.5 109.5
H9 C6T H10 109.5 109.5
H11 C7T H12 109.4 109.5
H11 C7T H13 109.5 109.5
H12 C7T H13 109.5 109.4
H17 N6 H18 109.5 120.0

Torsion Angles for A9Z

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O3' C3' C4' O4' 249.4 239.3
O3' C3' C4' H4 5.0 358.8
O3' C3' C2' C1' 81.1 97.8
C2' C3' O3' H5 125.9 122.6
O3' C3' C2' H7 195.6 216.0
C3' C4' C5' H2 194.4 64.2
C3' C4' C5' H3 316.7 304.3
C3' C4' O4' C1' 20.5 26.5
O4' C4' C3' H4 244.4 240.5
O3' C3' C2' H5 233.0 237.4
C2' C3' C4' O4' 8.8 358.0
C2' C3' C4' H4 124.3 117.4
N1T C2' C3' C1' 241.7 241.8
N1T C2' C3' H7 127.2 123.5
C3' C2' C1' N9 157.7 155.5
C1' C2' C3' H7 245.5 241.8
C3' C2' C1' H14 283.8 278.4
H2 C5' C4' H3 237.7 120.0
C3' C4' O4' H4 115.0 119.6
O4' C4' C5' H2 73.2 306.4
O4' C4' C5' H3 195.5 186.5
C4' O4' C1' N9 202.8 201.4
C4' O4' C1' H14 78.3 78.5
C5' O5' P OP3 138.3 185.0
C6T C4T C5T H8 2.9 0.1
C6T C4T N3T N2T 177.4 179.7
C7T C6T C4T N3T 285.1 305.0
H9 C6T C7T H10 123.8 120.0
H11 C7T C6T H12 240.0 240.0
H11 C7T C6T H13 120.0 120.0
H12 C7T C6T H13 240.0 240.0
C4T C5T N1T N2T 359.3 0.3
N3T C4T C5T H8 180.8 180.0
N1T N2T N3T C4T 0.2 0.4
C5T N1T N2T N3T 0.3 359.6
C5T N1T C2' C1' 333.9 331.5
C5T N1T C2' H7 209.5 207.8
O5' P OP1 OP3 99.2 240.0
OP2 P OP1 OP3 230.8 119.9
OP1 P OP3 H19 360.0 60.0
OP1 P OP2 H1 0.0 180.0
C3' C2' N1T C1' 109.8 112.7
N1T C2' C3' H5 89.8 102.2
C3' C2' N1T H7 234.2 236.4
N1T C2' C1' N9 277.3 273.7
C1' C2' N1T H7 124.4 123.7
N1T C2' C1' H14 43.4 36.6
C4T N3T N2T N1T 0.2 0.4
N2T N1T C2' C1' 159.2 151.2
N2T N1T C2' H7 34.8 27.5
C1' C2' C3' H5 208.1 220.4
C3' C2' C1' H7 114.5 118.2
C4' O4' C1' C2' 317.7 319.9
N1T C2' C1' H7 234.1 236.4
O4' C1' C2' N9 247.6 241.5
O4' C1' C2' H14 121.5 118.7
C2' C1' N9 C4 110.8 85.0
C2' C1' N9 C8 285.9 264.7
N9 C1' C2' H14 233.9 237.1
C1' O4' C4' H4 265.5 267.0
C2' C1' O4' N9 114.9 118.5
O4' C1' C2' H7 290.7 278.9
C2' C1' O4' H14 239.4 241.4
O4' C1' N9 C4 221.8 199.1
O4' C1' N9 C8 36.8 18.8
N9 C1' O4' H14 124.5 122.9
OP1 P O5' OP3 257.0 120.0
OP2 P O5' OP3 132.7 240.0
O5' P OP3 H19 254.3 180.1
O5' P OP2 H1 121.7 60.0
N9 C1' C2' H7 43.2 37.3
C2' C1' N9 H14 125.0 122.9
O4' C1' N9 H14 235.9 237.0
C4 N9 C1' C8 185.0 180.3
C1' N9 C4 C5 177.9 180.0
C1' N9 C8 N7 182.3 179.8
C1' N9 C8 H15 2.3 359.9
OP1 P OP3 OP2 238.6 120.0
OP3 P OP2 H1 242.9 300.0
OP1 P OP2 OP3 117.1 240.0
O5' P OP2 OP3 238.8 120.0
OP2 P OP3 H19 121.3 300.0
N3 C4 C5 C6 358.8 0.1
N3 C2 N1 C6 2.0 0.0
N1 C2 N3 H16 180.0 180.0
C1' N9 C4 C8 175.7 179.7
C4 N9 C1' H14 345.8 322.1
C4 N9 C8 N7 358.1 359.6
C4 N9 C8 H15 178.1 179.7
N9 C4 C5 N7 358.1 359.9
N9 C4 C5 C6 179.4 180.0
C1' N9 C8 C4 184.2 180.3
C8 N9 C1' H14 160.9 141.8
C8 N9 C4 C5 2.3 0.3
C5 C4 N9 C8 2.3 0.3
N7 C5 C4 C6 178.7 179.9
C4 C5 C6 N1 358.6 359.9
C4 C5 C6 N6 179.7 180.0
N3 C2 N1 H16 180.0 180.0
C5 C6 N1 C2 1.1 0.1
C2 N1 C6 N6 179.9 180.0
N9 C8 N7 H15 180.0 180.1
C8 N7 C5 C6 179.1 179.7
N9 C8 N7 C5 0.6 0.4
C4 C5 N7 C6 181.7 180.1
N7 C5 C6 N1 180.4 180.0
N7 C5 C6 N6 1.5 0.1
C4 C5 C6 N7 178.2 179.9
C2 N1 C6 C5 1.1 0.1
N1 C6 C5 N6 178.8 179.9
C5 C6 N6 H17 178.8 359.8
C5 C6 N6 H18 298.8 180.0
C6 N1 C2 H16 182.0 180.0
C5 C6 N1 N6 181.2 180.1
N1 C6 N6 H17 360.0 179.9
N1 C6 N6 H18 120.0 0.1
C5 C6 N6 N1 178.8 179.9
H17 N6 C6 H18 240.0 179.9
H1 OP2 P OP3 242.9 300.0
C4' C5' H2 H3 123.3 240.1
C4' C5' H3 H2 236.7 120.0
C3' C4' H4 O4' 245.9 242.1
H4 C4' C5' H2 314.9 185.4
H4 C4' C5' H3 77.2 65.5
H4 C4' O4' C1' 265.5 267.0
O3' C3' H5 C2' 127.3 122.6
H5 C3' C4' O4' 128.3 116.7
H5 C3' C4' H4 243.9 236.1
H5 C3' C2' C1' 208.1 220.4
H5 C3' C2' H7 322.6 338.7
H6 O3' C3' C2' 65.8 183.8
H6 O3' C3' H5 299.8 61.2
C3' C2' H7 C1' 253.4 247.3
H7 C2' C3' H5 322.6 338.7
N1T C2' H7 C1' 125.6 123.7
H7 C2' C1' N9 43.2 37.3
H7 C2' C1' H14 169.3 160.2
H8 C5T N1T N2T 179.3 180.2
H9 C6T C4T N3T 43.2 65.1
C7T C6T H9 H10 234.7 240.0
H9 C6T C7T H11 61.9 300.0
H9 C6T C7T H12 181.9 60.0
H9 C6T C7T H13 301.9 180.0
H10 C6T C4T N3T 167.0 185.1
C7T C6T H10 H9 125.3 120.0
H10 C6T C7T H11 298.2 180.0
H10 C6T C7T H12 58.1 300.0
H10 C6T C7T H13 178.1 60.0
H11 C7T C6T H9 61.9 300.0
H11 C7T C6T H10 298.2 180.0
C6T C7T H11 H12 120.0 120.0
C6T C7T H11 H13 240.0 240.0
H12 C7T H11 H13 120.0 120.0
H12 C7T C6T H9 181.9 60.0
H12 C7T C6T H10 58.1 300.0
C6T C7T H12 H11 240.0 240.0
C6T C7T H12 H13 120.0 120.0
H11 C7T H12 H13 240.0 240.0
H13 C7T C6T H9 301.9 180.0
H13 C7T C6T H10 178.1 60.0
C6T C7T H13 H11 120.1 120.0
C6T C7T H13 H12 240.0 240.0
H11 C7T H13 H12 120.0 120.0
C2' C1' H14 N9 236.2 237.1
H14 C1' C2' H7 169.3 160.2
O4' C1' H14 N9 120.2 122.9
H14 C1' N9 C4 345.8 322.1
H14 C1' N9 C8 160.9 141.8
N9 C8 H15 N7 180.0 179.9
N3 C2 H16 N1 180.0 180.0
H16 C2 N1 C6 182.0 180.0
C6 N6 H17 H18 120.0 180.1
C6 N6 H18 H17 239.9 179.9