Chemical Components in the PDB

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PDBeChem : Atoms of Molecule

 Molecule : A5L

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 36


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 F F F N N N 0 1.606 2.099 -1.084
2 P P P N N N 0 -4.857 -0.981 0.109
3 N1 N N1 N Y N 0 5.779 -0.511 0.697
4 C2 C C2 N Y N 0 5.15 0.388 1.432
5 N3 N N3 N Y N 0 3.855 0.602 1.331
6 C4 C C4 N Y N 0 3.118 -0.092 0.47
7 C5 C C5 N Y N 0 3.741 -1.061 -0.335
8 C6 C C6 N Y N 0 5.125 -1.253 -0.191
9 N6 N N6 N N N 0 5.793 -2.193 -0.956
10 N7 N N7 N Y N 0 2.778 -1.615 -1.11
11 C8 C C8 N Y N 0 1.632 -1.06 -0.839
12 N9 N N9 N Y N 0 1.789 -0.115 0.13
13 C1' C C1' R N N 0 0.733 0.724 0.702
14 C2' C C2' S N N 0 0.679 2.075 -0.036
15 C3' C C3' R N N 0 -0.766 2.147 -0.59
16 O3' O O3' N N N 0 -1.303 3.463 -0.443
17 C4' C C4' R N N 0 -1.513 1.14 0.321
18 O4' O O4' N N N 0 -0.544 0.087 0.53
19 C5' C C5' N N N 0 -2.757 0.595 -0.384
20 O5' O O5' N N N 0 -3.488 -0.238 0.517
21 OP1 O OP1 N N N 0 -5.996 0.118 -0.189
22 OP2 O OP2 N N N 0 -4.632 -1.799 -1.104
23 OP3 O OP3 N N Y 0 -5.333 -1.933 1.317
24 H2 H H2 N N N 0 5.719 0.97 2.142
25 H8 H H8 N N N 0 0.694 -1.312 -1.313
26 HN6 H HN6 N N N 0 6.749 -2.316 -0.848
27 HN6A H HN6A N N N 0 5.305 -2.728 -1.602
28 H5' H H5' N N N 0 -3.386 1.426 -0.703
29 H5'A H H5'A N N N 0 -2.455 0.013 -1.254
30 H1' H H1' N N N 0 0.925 0.888 1.763
31 H2' H H2' N N N 0 0.865 2.896 0.656
32 H3' H H3' N N N 0 -0.799 1.828 -1.631
33 H4' H H4' N N N 0 -1.781 1.605 1.27
34 HO3' H HO3' N N N 0 -0.813 4.143 -0.924
35 HOP1 H HOP1 N N N 0 -6.195 0.691 0.564
36 HOP3 H HOP3 N N Y 0 -6.153 -2.412 1.14