Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : 5J9

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 51


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C4 C C1 N Y N 0 -3.627 1.072 -0.149
2 C14 C C2 N Y N 0 1.812 -1.651 -0.268
3 C5 C C3 N Y N 0 -5.003 1.145 0.125
4 C6 C C4 N Y N 0 -5.6 2.416 0.193
5 C8 C C5 N Y N 0 -4.462 -0.955 0.093
6 C13 C C6 N Y N 0 3.077 -1.496 0.189
7 N1 N N1 N Y N 0 -4.836 3.485 -0.005
8 N3 N N2 N Y N 0 -2.945 2.197 -0.333
9 O2T O O1 N N N 0 5.8 0.092 1.213
10 C2T C C7 N N N 0 5.291 0.827 0.383
11 N3T N N3 N N N 0 5.515 2.138 0.445
12 C4T C C8 N N N 0 4.973 2.961 -0.444
13 N4T N N4 N N N 0 5.212 4.313 -0.371
14 C5T C C9 N N N 0 4.153 2.44 -1.466
15 C6T C C10 N N N 0 3.935 1.104 -1.515
16 N1T N N5 N N N 0 4.517 0.299 -0.583
17 C15 C C11 N N N 0 4.295 -1.148 -0.629
18 N12 N N6 N Y N 0 3.034 -1.712 1.508
19 N11 N N7 N Y N 0 1.823 -1.982 1.847
20 N10 N N8 N Y N 0 1.057 -1.956 0.812
21 C3' C C12 S N N 0 -0.386 -2.213 0.806
22 C2' C C13 R N N 0 -1.172 -0.887 0.9
23 O2' O O2 N N N 0 -0.275 0.224 0.968
24 C4' C C14 S N N 0 -0.822 -2.813 -0.549
25 C5' C C15 N N N 0 -0.944 -4.334 -0.443
26 O5' O O3 N N N 0 -1.235 -4.88 -1.732
27 O4' O O4 N N N 0 -2.113 -2.223 -0.815
28 C1' C C16 R N N 0 -1.991 -0.842 -0.409
29 N9 N N9 N Y N 0 -3.315 -0.264 -0.163
30 N7 N N10 N Y N 0 -5.45 -0.126 0.267
31 C2 C C17 N Y N 0 -3.546 3.366 -0.26
32 N6 N N11 N N N 0 -6.951 2.55 0.459
33 H1 H H1 N N N 0 1.474 -1.546 -1.288
34 H2 H H2 N N N 0 -4.537 -2.03 0.151
35 H3 H H3 N N N 0 5.777 4.669 0.333
36 H4 H H4 N N N 0 4.814 4.912 -1.023
37 H5 H H5 N N N 0 3.704 3.096 -2.197
38 H6 H H6 N N N 0 3.309 0.681 -2.288
39 H7 H H7 N N N 0 5.165 -1.663 -0.221
40 H8 H H8 N N N 0 4.14 -1.46 -1.662
41 H9 H H9 N N N 0 -0.658 -2.878 1.626
42 H10 H H10 N N N 0 -1.835 -0.896 1.765
43 H11 H H11 N N N 0 -0.716 1.082 1.028
44 H12 H H12 N N N 0 -0.113 -2.542 -1.331
45 H13 H H13 N N N 0 -0.005 -4.749 -0.076
46 H14 H H14 N N N 0 -1.748 -4.588 0.248
47 H15 H H15 N N N 0 -1.326 -5.843 -1.74
48 H16 H H16 N N N 0 -1.461 -0.268 -1.169
49 H17 H H17 N N N 0 -2.962 4.262 -0.415
50 H18 H H18 N N N 0 -7.498 1.762 0.602
51 H19 H H19 N N N 0 -7.351 3.433 0.504