PDB Chemical Component TZD

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 TZD

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1' C2' 1.382 1.318
N1' C6' 1.379 1.325
C2' C2A 1.490 1.507
C2' N3' 1.335 1.316
C2A H2A1 1.114 1.090
C2A H2A2 1.115 1.090
C2A H2A3 1.115 1.090
N3' C4' 1.401 1.331
C4' N4' 1.315 1.386
C4' C5' 1.487 1.396
N4' H4'1 1.020 0.970
N4' H4'2 1.019 0.969
C5' C6' 1.373 1.381
C5' C35 1.514 1.507
C6' H6' 1.104 1.079
C35 N3 1.521 1.465
C35 H351 1.114 1.090
C35 H352 1.116 1.089
N3 C2 1.361 1.353
N3 C4 1.428 1.363
C2 OC2 1.248 1.218
C2 S1 1.759 1.734
S1 C5 1.747 1.784
C5 C4 1.368 1.335
C5 C5A 1.495 1.506
C4 C4A 1.507 1.506
C4A H4A1 1.115 1.090
C4A H4A2 1.116 1.089
C4A H4A3 1.115 1.090
C5A C5B 1.499 1.530
C5A H5A1 1.116 1.090
C5A H5A2 1.115 1.090
C5B O5G 1.436 1.429
C5B H5B1 1.114 1.089
C5B H5B2 1.115 1.091
O5G P1 1.597 1.610
P1 O11 1.599 1.610
P1 O12 1.479 1.479
P1 O13 1.491 1.609
O11 P2 1.599 1.610
O13 H13 0.949 0.966
P2 O21 1.560 1.610
P2 O22 1.484 1.479
P2 O23 1.479 1.610
O21 H21 0.950 0.966
O23 H23 0.950 0.966

Bond Angles for TZD

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2' N1' C6' 120.4 121.0
N1' C2' C2A 117.1 119.1
N1' C2' N3' 122.9 121.8
N1' C6' C5' 121.2 119.2
N1' C6' H6' 119.7 120.4
C2A C2' N3' 120.0 119.1
C2' C2A H2A1 117.1 109.4
C2' C2A H2A2 109.4 109.5
C2' C2A H2A3 109.5 109.5
C2' N3' C4' 118.8 120.7
H2A1 C2A H2A2 109.5 109.5
H2A1 C2A H2A3 109.5 109.5
H2A2 C2A H2A3 100.6 109.5
N3' C4' N4' 116.1 120.5
N3' C4' C5' 119.9 118.9
N4' C4' C5' 124.0 120.5
C4' N4' H4'1 116.1 120.0
C4' N4' H4'2 109.8 120.0
C4' C5' C6' 116.8 118.4
C4' C5' C35 124.2 120.8
H4'1 N4' H4'2 109.8 120.0
C6' C5' C35 118.9 120.8
C5' C6' H6' 119.2 120.4
C5' C35 N3 113.8 109.5
C5' C35 H351 110.6 109.5
C5' C35 H352 110.6 109.5
N3 C35 H351 110.6 109.4
N3 C35 H352 110.6 109.5
C35 N3 C2 123.0 120.4
C35 N3 C4 122.1 120.5
H351 C35 H352 99.6 109.4
C2 N3 C4 114.9 119.1
N3 C2 OC2 126.9 128.9
N3 C2 S1 109.8 102.3
N3 C4 C5 112.2 118.5
N3 C4 C4A 121.1 120.7
OC2 C2 S1 123.4 128.9
C2 S1 C5 91.8 98.2
S1 C5 C4 111.4 101.8
S1 C5 C5A 121.3 129.1
C4 C5 C5A 127.3 129.0
C5 C4 C4A 126.7 120.8
C5 C5A C5B 111.7 109.5
C5 C5A H5A1 111.4 109.5
C5 C5A H5A2 111.4 109.5
C4 C4A H4A1 121.1 109.4
C4 C4A H4A2 108.1 109.5
C4 C4A H4A3 108.1 109.4
H4A1 C4A H4A2 108.0 109.6
H4A1 C4A H4A3 108.0 109.4
H4A2 C4A H4A3 101.8 109.5
C5B C5A H5A1 111.4 109.5
C5B C5A H5A2 111.4 109.5
C5A C5B O5G 107.8 109.5
C5A C5B H5B1 112.8 109.5
C5A C5B H5B2 112.8 109.5
H5A1 C5A H5A2 98.9 109.5
O5G C5B H5B1 112.8 109.5
O5G C5B H5B2 112.8 109.4
C5B O5G P1 120.8 106.8
H5B1 C5B H5B2 97.7 109.5
O5G P1 O11 103.2 109.5
O5G P1 O12 107.8 109.4
O5G P1 O13 108.7 109.5
O11 P1 O12 108.9 109.5
O11 P1 O13 108.0 109.5
P1 O11 P2 135.4 106.8
O12 P1 O13 119.1 109.5
P1 O13 H13 108.7 106.9
O11 P2 O21 106.5 109.5
O11 P2 O22 107.0 109.5
O11 P2 O23 106.9 109.5
O21 P2 O22 109.2 109.5
O21 P2 O23 109.1 109.4
P2 O21 H21 106.5 106.9
O22 P2 O23 117.4 109.5
P2 O23 H23 107.0 106.8

Torsion Angles for TZD

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C2' N1' C6' C5' 359.8 360.0
C2' N1' C6' H6' 179.9 180.1
C2A C2' N1' N3' 181.2 179.7
N1' C2' C2A H2A1 180.0 90.0
N1' C2' C2A H2A2 305.3 210.0
N1' C2' C2A H2A3 54.7 330.0
N1' C2' N3' C4' 359.8 359.5
C6' N1' C2' C2A 181.4 180.0
C6' N1' C2' N3' 0.2 0.3
C4' C5' C6' N1' 0.2 360.0
N1' C6' C5' C35 180.0 180.0
C5' C6' N1' H6' 180.0 179.9
C2A C2' N1' C6' 181.4 180.0
N1' C2' C2A N3' 178.9 180.3
C2A C2' N3' C4' 178.6 179.8
H2A1 C2A C2' H2A2 234.7 240.0
H2A1 C2A C2' H2A3 125.3 120.0
H2A2 C2A C2' H2A3 250.6 240.0
N3' C2' N1' C6' 0.2 0.3
N1' C2' N3' C2A 181.2 179.7
N3' C2' C2A H2A1 1.1 269.7
N3' C2' C2A H2A2 126.4 29.7
N3' C2' C2A H2A3 235.8 149.7
C2' N3' C4' N4' 181.5 180.3
C2' N3' C4' C5' 0.2 0.5
H2A1 C2A C2' N3' 1.1 269.7
C2' C2A H2A1 H2A2 125.3 120.0
C2' C2A H2A1 H2A3 234.7 240.0
H2A2 C2A H2A1 H2A3 109.4 120.0
H2A2 C2A C2' N3' 126.4 29.7
C2' C2A H2A2 H2A1 230.4 240.0
C2' C2A H2A2 H2A3 115.2 120.0
H2A1 C2A H2A2 H2A3 244.8 240.0
H2A3 C2A C2' N3' 235.8 149.7
C2' C2A H2A3 H2A1 129.6 119.9
C2' C2A H2A3 H2A2 244.8 240.0
H2A1 C2A H2A3 H2A2 115.3 120.1
N4' C4' N3' C5' 181.3 179.8
N3' C4' N4' H4'1 180.0 0.1
N3' C4' N4' H4'2 54.8 180.3
N3' C4' C5' C6' 359.8 359.8
N3' C4' C5' C35 180.0 179.8
N3' C4' N4' C5' 178.7 180.2
N4' C4' C5' C6' 178.4 179.9
N4' C4' C5' C35 358.6 359.9
H4'1 N4' C4' H4'2 125.2 179.9
N1' C6' C5' C4' 0.2 360.0
N3' C4' C5' N4' 181.4 179.8
C5' C4' N4' H4'1 1.3 180.0
C5' C4' N4' H4'2 236.1 0.1
C6' C5' C4' C35 179.8 180.0
C4' C5' C6' H6' 180.2 179.9
C4' C5' C35 N3 294.6 180.1
C4' C5' C35 H351 59.9 300.1
C4' C5' C35 H352 169.4 60.0
H4'1 N4' C4' C5' 1.3 180.0
C4' N4' H4'1 H4'2 234.8 180.1
H4'2 N4' C4' C5' 236.1 0.1
C4' N4' H4'2 H4'1 128.8 179.9
N1' C6' C5' H6' 180.0 180.1
C4' C5' C6' C35 180.2 180.0
C6' C5' C35 N3 114.8 0.1
C6' C5' C35 H351 240.1 120.0
C6' C5' C35 H352 349.6 240.0
C4' C5' C35 C6' 179.8 180.0
C35 C5' C6' H6' 360.0 359.9
N3 C35 C5' H351 234.7 240.0
N3 C35 C5' H352 125.2 120.1
C5' C35 N3 C2 97.5 269.8
C5' C35 N3 C4 275.4 89.9
H351 C35 C5' H352 250.5 240.0
N1' C6' H6' C5' 180.0 179.9
H6' C6' C5' C35 360.0 359.9
C5' C35 N3 H351 125.3 120.0
C5' C35 N3 H352 234.7 239.9
H351 C35 N3 H352 109.4 119.9
C2 N3 C35 C4 182.1 179.8
C35 N3 C2 OC2 356.6 0.1
C35 N3 C2 S1 177.7 179.9
C35 N3 C4 C5 181.9 180.0
C35 N3 C4 C4A 1.7 0.1
C5' C35 H351 N3 232.9 240.0
C5' C35 H351 H352 116.5 120.0
N3 C35 H351 H352 243.6 240.0
H351 C35 N3 C2 332.2 149.7
H351 C35 N3 C4 150.1 329.9
C5' C35 H352 N3 127.1 120.1
C5' C35 H352 H351 243.5 240.0
N3 C35 H352 H351 116.5 119.9
H352 C35 N3 C2 222.8 29.8
H352 C35 N3 C4 40.7 210.0
C2 N3 C35 H351 332.2 149.7
C2 N3 C35 H352 222.8 29.8
C35 N3 C2 C4 178.0 180.2
C2 N3 C4 C5 359.9 0.2
C2 N3 C4 C4A 179.8 180.2
OC2 C2 N3 S1 178.9 180.3
N3 C2 S1 C5 0.5 0.3
C4 N3 C35 H351 150.1 329.9
C4 N3 C35 H352 40.7 210.0
C35 N3 C4 C2 182.0 179.8
C4 N3 C2 OC2 178.6 179.9
C4 N3 C2 S1 359.7 359.7
S1 C5 C4 N3 0.5 0.1
N3 C4 C5 C5A 184.1 180.0
C5 C4 N3 C4A 180.1 179.9
N3 C4 C4A H4A1 180.0 179.9
N3 C4 C4A H4A2 305.3 300.0
N3 C4 C4A H4A3 54.8 60.0
OC2 C2 N3 C4 178.6 179.9
N3 C2 OC2 S1 181.2 179.7
OC2 C2 S1 C5 181.5 180.1
S1 C2 N3 C4 359.7 359.7
N3 C2 S1 OC2 179.0 180.3
C2 S1 C5 C4 359.5 359.8
C2 S1 C5 C5A 176.1 179.8
N3 C4 C5 S1 0.5 0.1
C4 C5 S1 C5A 183.3 179.9
S1 C5 C4 C4A 180.6 180.0
S1 C5 C5A C5B 313.7 270.0
S1 C5 C5A H5A1 79.0 30.0
S1 C5 C5A H5A2 188.4 150.0
N3 C4 C5 C4A 179.9 180.1
S1 C5 C4 C5A 176.4 180.1
C4 C5 C5A C5B 129.8 90.1
C4 C5 C5A H5A1 255.1 210.1
C4 C5 C5A H5A2 4.5 330.1
C5 C4 C4A H4A1 359.9 359.9
C5 C4 C4A H4A2 125.1 120.1
C5 C4 C4A H4A3 234.6 240.0
S1 C5 C5A C4 183.9 179.9
C5A C5 C4 C4A 4.2 360.0
C5B C5A C5 H5A1 234.7 240.0
C5B C5A C5 H5A2 125.3 120.0
C5 C5A C5B O5G 198.4 179.9
C5 C5A C5B H5B1 323.7 300.0
C5 C5A C5B H5B2 73.2 60.0
H5A1 C5A C5 H5A2 250.6 240.0
N3 C4 C4A C5 180.1 179.9
C4A C4 C5 C5A 4.2 360.0
H4A1 C4A C4 H4A2 234.8 239.9
H4A1 C4A C4 H4A3 125.3 119.9
H4A2 C4A C4 H4A3 250.5 240.0
C4 C4A H4A1 H4A2 125.2 120.1
C4 C4A H4A1 H4A3 234.7 240.1
H4A2 C4A H4A1 H4A3 109.4 120.0
C4 C4A H4A2 H4A1 227.4 240.0
C4 C4A H4A2 H4A3 113.7 119.9
H4A1 C4A H4A2 H4A3 246.4 240.0
C4 C4A H4A3 H4A1 132.7 119.9
C4 C4A H4A3 H4A2 246.3 240.0
H4A1 C4A H4A3 H4A2 113.6 120.1
C5 C5A C5B H5A1 125.3 120.0
C5 C5A C5B H5A2 234.7 240.0
H5A1 C5A C5B H5A2 109.4 120.0
O5G C5B C5A H5B1 234.8 240.0
O5G C5B C5A H5B2 125.2 119.9
C5A C5B O5G P1 171.5 180.0
H5B1 C5B C5A H5B2 250.4 240.0
C5 C5A H5A1 C5B 234.5 240.0
C5 C5A H5A1 H5A2 117.2 120.0
C5B C5A H5A1 H5A2 242.7 240.0
H5A1 C5A C5B O5G 73.1 59.9
H5A1 C5A C5B H5B1 198.4 180.0
H5A1 C5A C5B H5B2 307.9 300.0
C5 C5A H5A2 C5B 125.5 120.0
C5 C5A H5A2 H5A1 242.7 240.0
C5B C5A H5A2 H5A1 117.3 120.0
H5A2 C5A C5B O5G 323.7 300.0
H5A2 C5A C5B H5B1 88.9 60.0
H5A2 C5A C5B H5B2 198.5 180.0
O5G C5B C5A H5A1 73.1 59.9
O5G C5B C5A H5A2 323.7 300.0
C5A C5B O5G H5B1 125.2 120.1
C5A C5B O5G H5B2 234.8 240.0
H5B1 C5B O5G H5B2 109.5 120.0
C5B O5G P1 O11 51.1 180.0
C5B O5G P1 O12 166.2 300.0
C5B O5G P1 O13 296.6 60.0
H5B1 C5B C5A H5A1 198.4 180.0
H5B1 C5B C5A H5A2 88.9 60.0
C5A C5B H5B1 O5G 237.5 239.9
C5A C5B H5B1 H5B2 118.8 120.0
O5G C5B H5B1 H5B2 241.3 240.1
H5B1 C5B O5G P1 46.3 60.0
H5B2 C5B C5A H5A1 307.9 300.0
H5B2 C5B C5A H5A2 198.5 180.0
C5A C5B H5B2 O5G 122.5 120.0
C5A C5B H5B2 H5B1 241.2 240.0
O5G C5B H5B2 H5B1 118.8 120.0
H5B2 C5B O5G P1 296.7 300.0
P1 O5G C5B H5B1 46.3 60.0
P1 O5G C5B H5B2 296.7 300.0
O11 P1 O5G O12 244.8 240.0
O11 P1 O5G O13 114.5 120.0
O5G P1 O11 P2 73.7 180.0
O12 P1 O5G O13 229.6 240.0
O5G P1 O13 H13 180.0 60.0
O5G P1 O11 O12 114.4 119.9
O5G P1 O11 O13 245.0 240.0
O12 P1 O11 O13 130.6 120.1
O11 P1 O13 H13 68.7 300.0
P1 O11 P2 O21 133.0 180.0
P1 O11 P2 O22 249.8 60.0
P1 O11 P2 O23 16.4 300.0
O5G P1 O12 O11 248.7 240.0
O5G P1 O12 O13 124.4 120.0
O11 P1 O12 O13 235.7 240.0
O12 P1 O11 P2 319.3 60.0
O12 P1 O13 H13 304.0 180.0
O5G P1 O13 O11 111.3 120.0
O5G P1 O13 O12 236.1 240.0
O11 P1 O13 O12 124.8 120.0
O13 P1 O11 P2 188.7 300.0
P2 O11 P1 O12 319.3 60.0
P2 O11 P1 O13 188.7 300.0
O21 P2 O11 O22 243.2 120.0
O21 P2 O11 O23 116.6 240.0
O11 P2 O21 H21 180.1 180.0
O22 P2 O11 O23 233.3 120.0
O11 P2 O23 H23 180.0 300.0
O11 P2 O21 O22 115.3 240.0
O11 P2 O21 O23 244.9 120.0
O22 P2 O21 O23 129.6 240.0
O21 P2 O23 H23 65.1 60.0
O11 P2 O22 O21 245.0 120.0
O11 P2 O22 O23 120.1 240.0
O21 P2 O22 O23 235.1 120.0
O22 P2 O21 H21 64.8 300.0
O22 P2 O23 H23 300.2 180.0
O11 P2 O23 O21 114.8 240.0
O11 P2 O23 O22 239.8 120.0
O21 P2 O23 O22 124.9 240.0
O23 P2 O21 H21 295.2 60.0
H21 O21 P2 O22 64.8 300.0
H21 O21 P2 O23 295.2 60.0